-- dump date 20120504_151620 -- class Genbank::misc_feature -- table misc_feature_note -- id note 355278000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 355278000002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000004 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 355278000005 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 355278000006 homodimer interface [polypeptide binding]; other site 355278000007 substrate-cofactor binding pocket; other site 355278000008 catalytic residue [active] 355278000009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000010 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 355278000011 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 355278000012 DnaA N-terminal domain; Region: DnaA_N; pfam11638 355278000013 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000014 Walker A motif; other site 355278000015 ATP binding site [chemical binding]; other site 355278000016 Walker B motif; other site 355278000017 arginine finger; other site 355278000018 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 355278000019 DnaA box-binding interface [nucleotide binding]; other site 355278000020 DNA polymerase III subunit beta; Provisional; Region: PRK14942 355278000021 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 355278000022 putative DNA binding surface [nucleotide binding]; other site 355278000023 dimer interface [polypeptide binding]; other site 355278000024 beta-clamp/clamp loader binding surface; other site 355278000025 beta-clamp/translesion DNA polymerase binding surface; other site 355278000026 recombination protein F; Reviewed; Region: recF; PRK00064 355278000027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000028 Walker A/P-loop; other site 355278000029 ATP binding site [chemical binding]; other site 355278000030 Q-loop/lid; other site 355278000031 ABC transporter signature motif; other site 355278000032 Walker B; other site 355278000033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000034 ABC transporter signature motif; other site 355278000035 Walker B; other site 355278000036 D-loop; other site 355278000037 H-loop/switch region; other site 355278000038 Protein of unknown function (DUF721); Region: DUF721; cl02324 355278000039 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 355278000040 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278000041 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 355278000042 anchoring element; other site 355278000043 dimer interface [polypeptide binding]; other site 355278000044 ATP binding site [chemical binding]; other site 355278000045 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 355278000046 active site 355278000047 putative metal-binding site [ion binding]; other site 355278000048 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 355278000049 DNA gyrase subunit A; Validated; Region: PRK05560 355278000050 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 in DNA...; Region: TOP4c; cd00187 355278000051 CAP-like domain; other site 355278000052 active site 355278000053 primary dimer interface [polypeptide binding]; other site 355278000054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355278000055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355278000056 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355278000057 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355278000058 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355278000059 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 355278000060 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 355278000061 FMN binding site [chemical binding]; other site 355278000062 active site 355278000063 catalytic residues [active] 355278000064 substrate binding site [chemical binding]; other site 355278000065 PilZ domain; Region: PilZ; cl01260 355278000066 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 355278000067 Helix-turn-helix domains; Region: HTH; cl00088 355278000068 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 355278000069 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 355278000070 active site 355278000071 dimer interface [polypeptide binding]; other site 355278000072 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 355278000073 classical (c) SDRs; Region: SDR_c; cd05233 355278000074 NAD(P) binding site [chemical binding]; other site 355278000075 active site 355278000076 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 355278000077 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 355278000078 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 355278000079 putative active site [active] 355278000080 putative metal binding site [ion binding]; other site 355278000081 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 355278000082 Sulfatase; Region: Sulfatase; cl10460 355278000083 ribonuclease R; Region: RNase_R; TIGR02063 355278000084 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 355278000085 RNB domain; Region: RNB; pfam00773 355278000086 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 355278000087 RNA binding site [nucleotide binding]; other site 355278000088 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 355278000089 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 355278000090 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 355278000091 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 355278000092 dimerization interface [polypeptide binding]; other site 355278000093 domain crossover interface; other site 355278000094 redox-dependent activation switch; other site 355278000095 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 355278000096 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 355278000097 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 355278000098 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 355278000099 active site 355278000100 dimerization interface [polypeptide binding]; other site 355278000101 superoxide dismutase; Provisional; Region: PRK10543 355278000102 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 355278000103 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 355278000104 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 355278000105 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 355278000106 chorismate binding enzyme; Region: Chorismate_bind; cl10555 355278000107 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 355278000108 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 355278000109 glutamine binding [chemical binding]; other site 355278000110 catalytic triad [active] 355278000111 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278000112 Short C-terminal domain; Region: SHOCT; cl01373 355278000113 serine O-acetyltransferase; Region: cysE; TIGR01172 355278000114 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 355278000115 trimer interface [polypeptide binding]; other site 355278000116 active site 355278000117 substrate binding site [chemical binding]; other site 355278000118 CoA binding site [chemical binding]; other site 355278000119 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 355278000120 active site 355278000121 putative substrate binding region [chemical binding]; other site 355278000122 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278000123 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 355278000124 inhibitor-cofactor binding pocket; inhibition site 355278000125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278000126 catalytic residue [active] 355278000127 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 355278000128 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 355278000129 active site 355278000130 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 355278000131 dimer interface [polypeptide binding]; other site 355278000132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278000133 Coenzyme A binding pocket [chemical binding]; other site 355278000134 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 355278000135 putative active site [active] 355278000136 metal binding site [ion binding]; metal-binding site 355278000137 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 355278000138 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; cl12031 355278000139 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 355278000140 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; cl16911 355278000141 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 355278000142 Helix-turn-helix domains; Region: HTH; cl00088 355278000143 Integrase core domain; Region: rve; cl01316 355278000144 adenylosuccinate lyase; Provisional; Region: PRK07492 355278000145 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 355278000146 tetramer interface [polypeptide binding]; other site 355278000147 active site 355278000148 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 355278000149 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 355278000150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000151 NAD(P) binding site [chemical binding]; other site 355278000152 active site 355278000153 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278000154 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278000155 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 355278000156 substrate binding site [chemical binding]; other site 355278000157 oxyanion hole (OAH) forming residues; other site 355278000158 trimer interface [polypeptide binding]; other site 355278000159 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278000160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000161 active site 355278000162 phosphorylation site [posttranslational modification] 355278000163 intermolecular recognition site; other site 355278000164 dimerization interface [polypeptide binding]; other site 355278000165 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 355278000166 Transcriptional regulator; Region: Transcrip_reg; cl00361 355278000167 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278000168 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278000169 active site 355278000170 Glutamine amidotransferase class-I; Region: GATase; pfam00117 355278000171 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 355278000172 glutamine binding [chemical binding]; other site 355278000173 catalytic triad [active] 355278000174 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 355278000175 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278000176 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 355278000177 Walker A/P-loop; other site 355278000178 ATP binding site [chemical binding]; other site 355278000179 Q-loop/lid; other site 355278000180 ABC transporter signature motif; other site 355278000181 Walker B; other site 355278000182 D-loop; other site 355278000183 H-loop/switch region; other site 355278000184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000185 active site 355278000186 phosphorylation site [posttranslational modification] 355278000187 intermolecular recognition site; other site 355278000188 HEAT repeats; Region: HEAT_2; pfam13646 355278000189 HEAT repeats; Region: HEAT_2; pfam13646 355278000190 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 355278000191 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 355278000192 HflX GTPase family; Region: HflX; cd01878 355278000193 G1 box; other site 355278000194 GTP/Mg2+ binding site [chemical binding]; other site 355278000195 Switch I region; other site 355278000196 G2 box; other site 355278000197 G3 box; other site 355278000198 Switch II region; other site 355278000199 G4 box; other site 355278000200 G5 box; other site 355278000201 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 355278000202 anti sigma factor interaction site; other site 355278000203 regulatory phosphorylation site [posttranslational modification]; other site 355278000204 homoserine dehydrogenase; Provisional; Region: PRK06349 355278000205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000206 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 355278000207 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 355278000208 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 355278000209 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278000210 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 355278000211 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278000212 Helix-turn-helix domains; Region: HTH; cl00088 355278000213 Helix-turn-helix domains; Region: HTH; cl00088 355278000214 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 355278000215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000216 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 355278000217 Uncharacterized conserved protein [Function unknown]; Region: COG5316 355278000218 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355278000219 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 355278000220 anti sigma factor interaction site; other site 355278000221 regulatory phosphorylation site [posttranslational modification]; other site 355278000222 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 355278000223 galactokinase; Provisional; Region: PRK03817 355278000224 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 355278000225 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 355278000226 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 355278000227 active site 355278000228 dimer interface [polypeptide binding]; other site 355278000229 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 355278000230 dimer interface [polypeptide binding]; other site 355278000231 active site 355278000232 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 355278000233 Substrate binding site; other site 355278000234 metal-binding site 355278000235 Phosphotransferase enzyme family; Region: APH; pfam01636 355278000236 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; cd05120 355278000237 substrate binding site [chemical binding]; other site 355278000238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000239 Response regulator receiver domain; Region: Response_reg; pfam00072 355278000240 active site 355278000241 phosphorylation site [posttranslational modification] 355278000242 intermolecular recognition site; other site 355278000243 dimerization interface [polypeptide binding]; other site 355278000244 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278000245 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 355278000246 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 355278000247 dimer interface [polypeptide binding]; other site 355278000248 phosphorylation site [posttranslational modification] 355278000249 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278000250 ATP binding site [chemical binding]; other site 355278000251 G-X-G motif; other site 355278000252 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 355278000253 sensory histidine kinase AtoS; Provisional; Region: PRK11360 355278000254 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 355278000255 dimer interface [polypeptide binding]; other site 355278000256 phosphorylation site [posttranslational modification] 355278000257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278000258 ATP binding site [chemical binding]; other site 355278000259 Mg2+ binding site [ion binding]; other site 355278000260 G-X-G motif; other site 355278000261 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; cl12031 355278000262 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278000263 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; cl12031 355278000264 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 355278000265 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 355278000266 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 355278000267 RNA binding surface [nucleotide binding]; other site 355278000268 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; cl16911 355278000269 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 355278000270 substrate binding pocket [chemical binding]; other site 355278000271 chain length determination region; other site 355278000272 substrate-Mg2+ binding site; other site 355278000273 catalytic residues [active] 355278000274 aspartate-rich region 1; other site 355278000275 active site lid residues [active] 355278000276 aspartate-rich region 2; other site 355278000277 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 355278000278 active site 355278000279 multimer interface [polypeptide binding]; other site 355278000280 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 355278000281 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 355278000282 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 355278000283 Ligand Binding Site [chemical binding]; other site 355278000284 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 355278000285 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 355278000286 active site 355278000287 (T/H)XGH motif; other site 355278000288 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 355278000289 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 355278000290 ANP binding site [chemical binding]; other site 355278000291 Substrate Binding Site II [chemical binding]; other site 355278000292 Substrate Binding Site I [chemical binding]; other site 355278000293 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278000294 active site 355278000295 catalytic triad [active] 355278000296 dimer interface [polypeptide binding]; other site 355278000297 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 355278000298 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355278000299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000300 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278000301 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 355278000302 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 355278000303 S-adenosylmethionine binding site [chemical binding]; other site 355278000304 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 355278000305 quinone interaction residues [chemical binding]; other site 355278000306 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 355278000307 active site 355278000308 catalytic residues [active] 355278000309 FMN binding site [chemical binding]; other site 355278000310 substrate binding site [chemical binding]; other site 355278000311 PAS fold; Region: PAS_4; pfam08448 355278000312 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278000313 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 355278000314 putative active site [active] 355278000315 heme pocket [chemical binding]; other site 355278000316 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 355278000317 dimer interface [polypeptide binding]; other site 355278000318 phosphorylation site [posttranslational modification] 355278000319 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278000320 ATP binding site [chemical binding]; other site 355278000321 Mg2+ binding site [ion binding]; other site 355278000322 G-X-G motif; other site 355278000323 Response regulator receiver domain; Region: Response_reg; pfam00072 355278000324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000325 active site 355278000326 phosphorylation site [posttranslational modification] 355278000327 intermolecular recognition site; other site 355278000328 dimerization interface [polypeptide binding]; other site 355278000329 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278000330 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 355278000331 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 355278000332 motif II; other site 355278000333 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278000334 active site 355278000335 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 355278000336 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278000337 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 355278000338 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 355278000339 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 355278000340 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278000341 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 355278000342 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 355278000343 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278000344 Helix-turn-helix domains; Region: HTH; cl00088 355278000345 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355278000346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000347 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278000348 bile acid transporter; Region: bass; TIGR00841 355278000349 Membrane transport protein; Region: Mem_trans; cl09117 355278000350 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278000351 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278000352 active site 355278000353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000354 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 355278000355 NAD(P) binding site [chemical binding]; other site 355278000356 active site 355278000357 short chain dehydrogenase; Provisional; Region: PRK06179 355278000358 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 355278000359 NADP binding site [chemical binding]; other site 355278000360 active site 355278000361 steroid binding site; other site 355278000362 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278000363 AMP-binding enzyme; Region: AMP-binding; cl15778 355278000364 AMP-binding enzyme; Region: AMP-binding; cl15778 355278000365 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278000366 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 355278000367 substrate binding site [chemical binding]; other site 355278000368 oxyanion hole (OAH) forming residues; other site 355278000369 trimer interface [polypeptide binding]; other site 355278000370 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278000371 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278000372 dimer interface [polypeptide binding]; other site 355278000373 putative CheW interface [polypeptide binding]; other site 355278000374 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 355278000375 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278000376 putative substrate translocation pore; other site 355278000377 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 355278000378 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278000379 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 355278000380 putative NAD(P) binding site [chemical binding]; other site 355278000381 active site 355278000382 putative substrate binding site [chemical binding]; other site 355278000383 bile acid transporter; Region: bass; TIGR00841 355278000384 Membrane transport protein; Region: Mem_trans; cl09117 355278000385 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278000386 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278000387 dimer interface [polypeptide binding]; other site 355278000388 putative CheW interface [polypeptide binding]; other site 355278000389 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 becoming...; Region: Lipase; cl14883 355278000390 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278000391 nucleophilic elbow; other site 355278000392 catalytic triad; other site 355278000393 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278000394 Helix-turn-helix domains; Region: HTH; cl00088 355278000395 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; cl00161 355278000396 Predicted membrane protein [Function unknown]; Region: COG4682 355278000397 yiaA/B two helix domain; Region: YiaAB; cl01759 355278000398 yiaA/B two helix domain; Region: YiaAB; cl01759 355278000399 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 355278000400 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278000401 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 355278000402 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 355278000403 classical (c) SDRs; Region: SDR_c; cd05233 355278000404 NAD(P) binding site [chemical binding]; other site 355278000405 active site 355278000406 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 355278000407 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 355278000408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278000409 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 355278000410 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 355278000411 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 355278000412 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 355278000413 PAS domain S-box; Region: sensory_box; TIGR00229 355278000414 hypothetical protein; Provisional; Region: PRK13560 355278000415 PAS domain S-box; Region: sensory_box; TIGR00229 355278000416 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 355278000417 amphipathic channel; other site 355278000418 Asn-Pro-Ala signature motifs; other site 355278000419 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 355278000420 Malic enzyme, N-terminal domain; Region: malic; pfam00390 355278000421 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 355278000422 putative NAD(P) binding site [chemical binding]; other site 355278000423 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278000424 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355278000425 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355278000426 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278000427 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 355278000428 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 355278000429 cobalamin binding residues [chemical binding]; other site 355278000430 putative BtuC binding residues; other site 355278000431 dimer interface [polypeptide binding]; other site 355278000432 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 355278000433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000434 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; cl15357 355278000435 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 355278000436 Cation transport protein; Region: TrkH; cl10514 355278000437 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 355278000438 active site 355278000439 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 355278000440 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 355278000441 MatE; Region: MatE; cl10513 355278000442 MatE; Region: MatE; cl10513 355278000443 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 355278000444 ligand binding site [chemical binding]; other site 355278000445 flexible hinge region; other site 355278000446 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 355278000447 nucleophile elbow; other site 355278000448 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 355278000449 Short C-terminal domain; Region: SHOCT; cl01373 355278000450 Double zinc ribbon; Region: DZR; pfam12773 355278000451 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 355278000452 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 355278000453 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 355278000454 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 355278000455 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 355278000456 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 355278000457 NADP-binding site; other site 355278000458 homotetramer interface [polypeptide binding]; other site 355278000459 substrate binding site [chemical binding]; other site 355278000460 homodimer interface [polypeptide binding]; other site 355278000461 active site 355278000462 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 355278000463 anti sigma factor interaction site; other site 355278000464 regulatory phosphorylation site [posttranslational modification]; other site 355278000465 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 355278000466 bacteriocin-type transport-associated protein; Region: cyc_nuc_ocin; TIGR03896 355278000467 ligand binding site [chemical binding]; other site 355278000468 flexible hinge region; other site 355278000469 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 355278000470 ligand binding site [chemical binding]; other site 355278000471 flexible hinge region; other site 355278000472 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 355278000473 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 355278000474 metal ion-dependent adhesion site (MIDAS); other site 355278000475 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 355278000476 putative active site [active] 355278000477 putative CoA binding site [chemical binding]; other site 355278000478 nudix motif; other site 355278000479 metal binding site [ion binding]; metal-binding site 355278000480 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 355278000481 catalytic site [active] 355278000482 putative active site [active] 355278000483 putative substrate binding site [chemical binding]; other site 355278000484 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 355278000485 HRDC domain; Region: HRDC; cl02578 355278000486 amidophosphoribosyltransferase; Provisional; Region: PRK09123 355278000487 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 355278000488 active site 355278000489 tetramer interface [polypeptide binding]; other site 355278000490 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278000491 active site 355278000492 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 355278000493 active site 355278000494 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 355278000495 Ligand Binding Site [chemical binding]; other site 355278000496 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 355278000497 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278000498 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278000499 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 355278000500 PA/protease or protease-like domain interface [polypeptide binding]; other site 355278000501 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 355278000502 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 355278000503 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 355278000504 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278000505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000506 active site 355278000507 phosphorylation site [posttranslational modification] 355278000508 intermolecular recognition site; other site 355278000509 dimerization interface [polypeptide binding]; other site 355278000510 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 355278000511 DNA binding residues [nucleotide binding] 355278000512 dimerization interface [polypeptide binding]; other site 355278000513 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278000514 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 355278000515 TPR motif; other site 355278000516 binding surface 355278000517 TPR repeat; Region: TPR_11; pfam13414 355278000518 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 355278000519 binding surface 355278000520 TPR motif; other site 355278000521 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 355278000522 active site 355278000523 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 355278000524 FeS/SAM binding site; other site 355278000525 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 355278000526 SurA N-terminal domain; Region: SurA_N_3; cl07813 355278000527 putative peptidyl-prolyl cis-trans isomerase, LIC12922 family; Region: PCisTranLspir; TIGR04142 355278000528 aspartate kinase; Reviewed; Region: PRK06635 355278000529 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 355278000530 putative nucleotide binding site [chemical binding]; other site 355278000531 putative catalytic residues [active] 355278000532 putative Mg ion binding site [ion binding]; other site 355278000533 putative aspartate binding site [chemical binding]; other site 355278000534 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 355278000535 putative allosteric regulatory site; other site 355278000536 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 355278000537 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 355278000538 Di-iron ligands [ion binding]; other site 355278000539 Late embryogenesis abundant protein; Region: LEA_2; cl12118 355278000540 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278000541 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 355278000542 NADP binding site [chemical binding]; other site 355278000543 dimer interface [polypeptide binding]; other site 355278000544 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 355278000545 mce related protein; Region: MCE; pfam02470 355278000546 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278000547 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 355278000548 putative ADP-binding pocket [chemical binding]; other site 355278000549 Flagellar protein (FlbD); Region: FlbD; cl00683 355278000550 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 355278000551 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278000552 flagellar motor protein MotB; Validated; Region: motB; PRK06667 355278000553 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 355278000554 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278000555 ligand binding site [chemical binding]; other site 355278000556 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 355278000557 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 355278000558 Ligand binding site; other site 355278000559 oligomer interface; other site 355278000560 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 355278000561 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 355278000562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000563 Outer membrane efflux protein; Region: OEP; pfam02321 355278000564 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278000565 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 355278000566 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 355278000567 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 355278000568 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278000569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000570 Walker A/P-loop; other site 355278000571 ATP binding site [chemical binding]; other site 355278000572 ABC transporter; Region: ABC_tran; pfam00005 355278000573 Q-loop/lid; other site 355278000574 ABC transporter signature motif; other site 355278000575 Walker B; other site 355278000576 D-loop; other site 355278000577 H-loop/switch region; other site 355278000578 YceI-like domain; Region: YceI; cl01001 355278000579 Protein of unknown function (DUF419); Region: DUF419; cl15265 355278000580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278000581 Coenzyme A binding pocket [chemical binding]; other site 355278000582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278000583 Helix-turn-helix domains; Region: HTH; cl00088 355278000584 tropinone reductase; Provisional; Region: PRK09242 355278000585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000586 NAD(P) binding site [chemical binding]; other site 355278000587 active site 355278000588 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 355278000589 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 355278000590 putative hydrophobic ligand binding site [chemical binding]; other site 355278000591 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 355278000592 dimerization interface [polypeptide binding]; other site 355278000593 putative DNA binding site [nucleotide binding]; other site 355278000594 putative Zn2+ binding site [ion binding]; other site 355278000595 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 355278000596 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 355278000597 nucleotide binding pocket [chemical binding]; other site 355278000598 K-X-D-G motif; other site 355278000599 catalytic site [active] 355278000600 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 355278000601 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 355278000602 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 355278000603 Dimer interface [polypeptide binding]; other site 355278000604 BRCT sequence motif; other site 355278000605 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278000606 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 355278000607 putative active site [active] 355278000608 YceI-like domain; Region: YceI; cl01001 355278000609 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278000610 active site 355278000611 Membrane transport protein; Region: Mem_trans; cl09117 355278000612 EamA-like transporter family; Region: EamA; cl01037 355278000613 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355278000614 EamA-like transporter family; Region: EamA; cl01037 355278000615 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 355278000616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000617 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355278000618 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278000619 putative acyl-acceptor binding pocket; other site 355278000620 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 355278000621 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 355278000622 transmembrane helices; other site 355278000623 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 355278000624 EVE domain; Region: EVE; cl00728 355278000625 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 355278000626 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000627 Walker A motif; other site 355278000628 ATP binding site [chemical binding]; other site 355278000629 Walker B motif; other site 355278000630 arginine finger; other site 355278000631 Peptidase family M41; Region: Peptidase_M41; pfam01434 355278000632 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 355278000633 putative active site [active] 355278000634 catalytic residue [active] 355278000635 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 355278000636 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 355278000637 5S rRNA interface [nucleotide binding]; other site 355278000638 CTC domain interface [polypeptide binding]; other site 355278000639 L16 interface [polypeptide binding]; other site 355278000640 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 355278000641 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 355278000642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278000643 active site 355278000644 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 355278000645 Substrate binding site; other site 355278000646 Mg++ binding site; other site 355278000647 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14613 355278000648 Predicted transcriptional regulator [Transcription]; Region: COG2378 355278000649 WYL domain; Region: WYL; cl14852 355278000650 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 355278000651 Acyl transferase domain; Region: Acyl_transf_1; cl08282 355278000652 putative transporter; Provisional; Region: PRK10484 355278000653 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u2; cd11478 355278000654 Na binding site [ion binding]; other site 355278000655 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278000656 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 355278000657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000658 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 355278000659 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 355278000660 putative active site [active] 355278000661 putative metal binding site [ion binding]; other site 355278000662 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278000663 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 355278000664 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000665 active site 355278000666 HIGH motif; other site 355278000667 nucleotide binding site [chemical binding]; other site 355278000668 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 355278000669 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 355278000670 active site 355278000671 KMSKS motif; other site 355278000672 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 355278000673 tRNA binding surface [nucleotide binding]; other site 355278000674 anticodon binding site; other site 355278000675 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 355278000676 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13789 355278000677 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 355278000678 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278000679 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 355278000680 peptide chain release factor 2; Validated; Region: prfB; PRK00578 355278000681 RF-1 domain; Region: RF-1; cl02875 355278000682 RF-1 domain; Region: RF-1; cl02875 355278000683 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 355278000684 GAF domain; Region: GAF; cl15785 355278000685 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000686 Walker A motif; other site 355278000687 ATP binding site [chemical binding]; other site 355278000688 Walker B motif; other site 355278000689 arginine finger; other site 355278000690 Helix-turn-helix domains; Region: HTH; cl00088 355278000691 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278000692 ligand binding site [chemical binding]; other site 355278000693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 355278000694 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 355278000695 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 355278000696 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278000697 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 355278000698 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 355278000699 Catalytic site [active] 355278000700 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 355278000701 threonine synthase; Validated; Region: PRK06260 355278000702 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 355278000703 homodimer interface [polypeptide binding]; other site 355278000704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278000705 catalytic residue [active] 355278000706 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000707 active site 355278000708 HIGH motif; other site 355278000709 nucleotide binding site [chemical binding]; other site 355278000710 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000711 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 355278000712 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000713 active site 355278000714 KMSKS motif; other site 355278000715 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 355278000716 tRNA binding surface [nucleotide binding]; other site 355278000717 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 355278000718 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278000719 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 355278000720 Walker A/P-loop; other site 355278000721 ATP binding site [chemical binding]; other site 355278000722 Q-loop/lid; other site 355278000723 ABC transporter signature motif; other site 355278000724 Walker B; other site 355278000725 D-loop; other site 355278000726 H-loop/switch region; other site 355278000727 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278000728 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 355278000729 FtsX-like permease family; Region: FtsX; cl15850 355278000730 Integrase core domain; Region: rve; cl01316 355278000731 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355278000732 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000733 Walker A motif; other site 355278000734 ATP binding site [chemical binding]; other site 355278000735 Walker B motif; other site 355278000736 arginine finger; other site 355278000737 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 355278000738 catalytic center binding site [active] 355278000739 ATP binding site [chemical binding]; other site 355278000740 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 355278000741 oligomerization interface [polypeptide binding]; other site 355278000742 active site 355278000743 metal binding site [ion binding]; metal-binding site 355278000744 NeuB family; Region: NeuB; cl00496 355278000745 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 355278000746 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 355278000747 active site residue [active] 355278000748 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278000749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000750 Walker A/P-loop; other site 355278000751 ATP binding site [chemical binding]; other site 355278000752 Q-loop/lid; other site 355278000753 ABC transporter signature motif; other site 355278000754 Walker B; other site 355278000755 D-loop; other site 355278000756 H-loop/switch region; other site 355278000757 ABC transporter; Region: ABC_tran_2; pfam12848 355278000758 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278000759 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 355278000760 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 355278000761 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 355278000762 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 355278000763 hypothetical protein; Provisional; Region: PRK14851 355278000764 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 355278000765 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 355278000766 catalytic residues [active] 355278000767 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278000768 Protein export membrane protein; Region: SecD_SecF; cl14618 355278000769 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 355278000770 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355278000771 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278000772 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 355278000773 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 355278000774 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278000775 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 355278000776 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 355278000777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000778 GTP/Mg2+ binding site [chemical binding]; other site 355278000779 G4 box; other site 355278000780 G5 box; other site 355278000781 trmE is a tRNA modification GTPase; Region: trmE; cd04164 355278000782 G1 box; other site 355278000783 G1 box; other site 355278000784 GTP/Mg2+ binding site [chemical binding]; other site 355278000785 Switch I region; other site 355278000786 Switch I region; other site 355278000787 G2 box; other site 355278000788 G2 box; other site 355278000789 Switch II region; other site 355278000790 G3 box; other site 355278000791 G3 box; other site 355278000792 Switch II region; other site 355278000793 G4 box; other site 355278000794 G5 box; other site 355278000795 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 355278000796 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 355278000797 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 355278000798 G-X-X-G motif; other site 355278000799 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 355278000800 RxxxH motif; other site 355278000801 membrane protein insertase; Provisional; Region: PRK01318 355278000802 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 355278000803 Haemolytic domain; Region: Haemolytic; cl00506 355278000804 MltA specific insert domain; Region: MltA; cl08398 355278000805 3D domain; Region: 3D; cl01439 355278000806 Helix-turn-helix domains; Region: HTH; cl00088 355278000807 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278000808 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 355278000809 putative C-terminal domain interface [polypeptide binding]; other site 355278000810 putative GSH binding site (G-site) [chemical binding]; other site 355278000811 putative dimer interface [polypeptide binding]; other site 355278000812 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278000813 N-terminal domain interface [polypeptide binding]; other site 355278000814 dimer interface [polypeptide binding]; other site 355278000815 substrate binding pocket (H-site) [chemical binding]; other site 355278000816 Cation efflux family; Region: Cation_efflux; cl00316 355278000817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278000818 metal binding site [ion binding]; metal-binding site 355278000819 active site 355278000820 I-site; other site 355278000821 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 355278000822 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 355278000823 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 355278000824 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 355278000825 S-adenosylmethionine binding site [chemical binding]; other site 355278000826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278000827 putative substrate translocation pore; other site 355278000828 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 355278000829 trimer interface [polypeptide binding]; other site 355278000830 putative metal binding site [ion binding]; other site 355278000831 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278000832 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278000833 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278000834 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278000835 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 355278000836 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 355278000837 putative tRNA-binding site [nucleotide binding]; other site 355278000838 B3/4 domain; Region: B3_4; cl11458 355278000839 tRNA synthetase B5 domain; Region: B5; cl08394 355278000840 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 355278000841 dimer interface [polypeptide binding]; other site 355278000842 motif 1; other site 355278000843 motif 3; other site 355278000844 motif 2; other site 355278000845 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 355278000846 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 355278000847 PAS domain; Region: PAS_9; pfam13426 355278000848 putative active site [active] 355278000849 heme pocket [chemical binding]; other site 355278000850 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 355278000851 PAS domain; Region: PAS_9; pfam13426 355278000852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278000853 metal binding site [ion binding]; metal-binding site 355278000854 active site 355278000855 I-site; other site 355278000856 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 355278000857 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 355278000858 dihydroorotase, multifunctional complex type; Region: pyrC_multi; TIGR00857 355278000859 active site 355278000860 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 355278000861 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 355278000862 ATP binding site [chemical binding]; other site 355278000863 putative Mg++ binding site [ion binding]; other site 355278000864 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 355278000865 nucleotide binding region [chemical binding]; other site 355278000866 ATP-binding site [chemical binding]; other site 355278000867 RQC domain; Region: RQC; cl09632 355278000868 HRDC domain; Region: HRDC; cl02578 355278000869 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278000870 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278000871 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 355278000872 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278000873 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 355278000874 cell division protein FtsA; Region: ftsA; TIGR01174 355278000875 Cell division protein FtsA; Region: FtsA; cl11496 355278000876 Cell division protein FtsA; Region: FtsA; cl11496 355278000877 cell division protein FtsZ; Validated; Region: PRK09330 355278000878 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 355278000879 nucleotide binding site [chemical binding]; other site 355278000880 SulA interaction site; other site 355278000881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 355278000882 TolB amino-terminal domain; Region: TolB_N; cl00639 355278000883 Quinolinate synthetase A protein; Region: NadA; cl00420 355278000884 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 355278000885 homotrimer interaction site [polypeptide binding]; other site 355278000886 zinc binding site [ion binding]; other site 355278000887 CDP-binding sites; other site 355278000888 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278000889 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278000890 TPR repeat; Region: TPR_11; pfam13414 355278000891 TPR repeat; Region: TPR_11; pfam13414 355278000892 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 355278000893 binding surface 355278000894 TPR motif; other site 355278000895 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 355278000896 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 355278000897 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 355278000898 ABC-ATPase subunit interface; other site 355278000899 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 355278000900 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 355278000901 dimer interface [polypeptide binding]; other site 355278000902 conserved gate region; other site 355278000903 putative PBP binding loops; other site 355278000904 ABC-ATPase subunit interface; other site 355278000905 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 355278000906 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355278000907 Walker A/P-loop; other site 355278000908 ATP binding site [chemical binding]; other site 355278000909 Q-loop/lid; other site 355278000910 ABC transporter signature motif; other site 355278000911 Walker B; other site 355278000912 D-loop; other site 355278000913 H-loop/switch region; other site 355278000914 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 355278000915 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355278000916 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 355278000917 Walker A/P-loop; other site 355278000918 ATP binding site [chemical binding]; other site 355278000919 Q-loop/lid; other site 355278000920 ABC transporter signature motif; other site 355278000921 Walker B; other site 355278000922 D-loop; other site 355278000923 H-loop/switch region; other site 355278000924 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 355278000925 AsmA family; Region: AsmA; pfam05170 355278000926 AsmA-like C-terminal region; Region: AsmA_2; cl15864 355278000927 HEAT repeats; Region: HEAT_2; pfam13646 355278000928 Bacterial SH3 domain; Region: SH3_3; cl02551 355278000929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000930 Walker A/P-loop; other site 355278000931 ATP binding site [chemical binding]; other site 355278000932 Q-loop/lid; other site 355278000933 ABC transporter signature motif; other site 355278000934 Walker B; other site 355278000935 D-loop; other site 355278000936 H-loop/switch region; other site 355278000937 AMP-binding enzyme; Region: AMP-binding; cl15778 355278000938 AMP-binding enzyme; Region: AMP-binding; cl15778 355278000939 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 355278000940 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 355278000941 substrate binding site [chemical binding]; other site 355278000942 oxyanion hole (OAH) forming residues; other site 355278000943 trimer interface [polypeptide binding]; other site 355278000944 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 355278000945 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 355278000946 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 355278000947 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 355278000948 FeS/SAM binding site; other site 355278000949 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 355278000950 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 355278000951 active site 355278000952 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278000953 MAPEG family; Region: MAPEG; cl09190 355278000954 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 355278000955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000956 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355278000957 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278000958 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278000959 active site 355278000960 metal binding site [ion binding]; metal-binding site 355278000961 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 355278000962 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 355278000963 generic binding surface II; other site 355278000964 ssDNA binding site; other site 355278000965 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 355278000966 ATP binding site [chemical binding]; other site 355278000967 putative Mg++ binding site [ion binding]; other site 355278000968 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 355278000969 nucleotide binding region [chemical binding]; other site 355278000970 ATP-binding site [chemical binding]; other site 355278000971 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 355278000972 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 355278000973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000974 NAD(P) binding site [chemical binding]; other site 355278000975 active site 355278000976 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 355278000977 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 355278000978 active site 355278000979 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 355278000980 putative acyltransferase; Provisional; Region: PRK05790 355278000981 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 355278000982 dimer interface [polypeptide binding]; other site 355278000983 active site 355278000984 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000985 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 355278000986 ligand binding site [chemical binding]; other site 355278000987 flexible hinge region; other site 355278000988 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 355278000989 ligand binding site [chemical binding]; other site 355278000990 flexible hinge region; other site 355278000991 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 355278000992 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 355278000993 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278000994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278000995 Walker A/P-loop; other site 355278000996 ATP binding site [chemical binding]; other site 355278000997 Q-loop/lid; other site 355278000998 ABC transporter signature motif; other site 355278000999 Walker B; other site 355278001000 D-loop; other site 355278001001 H-loop/switch region; other site 355278001002 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 355278001003 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 355278001004 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 355278001005 hypothetical protein; Provisional; Region: PHA02894 355278001006 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 355278001007 ligand binding site [chemical binding]; other site 355278001008 flexible hinge region; other site 355278001009 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 355278001010 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 355278001011 putative active site [active] 355278001012 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278001013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278001014 Walker A/P-loop; other site 355278001015 ATP binding site [chemical binding]; other site 355278001016 Q-loop/lid; other site 355278001017 ABC transporter signature motif; other site 355278001018 Walker B; other site 355278001019 D-loop; other site 355278001020 H-loop/switch region; other site 355278001021 Outer membrane efflux protein; Region: OEP; pfam02321 355278001022 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 355278001023 Predicted membrane protein [Function unknown]; Region: COG3463 355278001024 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 355278001025 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 355278001026 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 355278001027 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278001028 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 355278001029 Chromate transporter; Region: Chromate_transp; pfam02417 355278001030 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 355278001031 Chromate transporter; Region: Chromate_transp; pfam02417 355278001032 Helix-turn-helix domains; Region: HTH; cl00088 355278001033 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 355278001034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278001035 Coenzyme A binding pocket [chemical binding]; other site 355278001036 Protein of unknown function (DUF461); Region: DUF461; cl01071 355278001037 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 355278001038 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 355278001039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278001040 Walker A/P-loop; other site 355278001041 ATP binding site [chemical binding]; other site 355278001042 Q-loop/lid; other site 355278001043 ABC transporter signature motif; other site 355278001044 Walker B; other site 355278001045 D-loop; other site 355278001046 H-loop/switch region; other site 355278001047 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 355278001048 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 355278001049 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 355278001050 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 355278001051 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355278001052 Cytochrome c; Region: Cytochrom_C; cl11414 355278001053 Fasciclin domain; Region: Fasciclin; cl02663 355278001054 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 355278001055 octamerization interface [polypeptide binding]; other site 355278001056 diferric-oxygen binding site [ion binding]; other site 355278001057 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278001058 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; cl01155 355278001059 putative protease; Provisional; Region: PRK15452 355278001060 Peptidase family U32; Region: Peptidase_U32; cl03113 355278001061 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 355278001062 DNA-binding response regulator CreB; Provisional; Region: PRK11083 355278001063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001064 active site 355278001065 phosphorylation site [posttranslational modification] 355278001066 intermolecular recognition site; other site 355278001067 dimerization interface [polypeptide binding]; other site 355278001068 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 355278001069 DNA binding site [nucleotide binding] 355278001070 sensory histidine kinase CreC; Provisional; Region: PRK11100 355278001071 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 355278001072 dimer interface [polypeptide binding]; other site 355278001073 phosphorylation site [posttranslational modification] 355278001074 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001075 ATP binding site [chemical binding]; other site 355278001076 Mg2+ binding site [ion binding]; other site 355278001077 G-X-G motif; other site 355278001078 Inner membrane protein CreD; Region: CreD; cl01844 355278001079 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278001080 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 355278001081 putative hydrophobic ligand binding site [chemical binding]; other site 355278001082 MASE1; Region: MASE1; pfam05231 355278001083 CHASE domain; Region: CHASE; cl01369 355278001084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278001085 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 355278001086 dimer interface [polypeptide binding]; other site 355278001087 phosphorylation site [posttranslational modification] 355278001088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001089 ATP binding site [chemical binding]; other site 355278001090 Mg2+ binding site [ion binding]; other site 355278001091 G-X-G motif; other site 355278001092 Response regulator receiver domain; Region: Response_reg; pfam00072 355278001093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001094 active site 355278001095 phosphorylation site [posttranslational modification] 355278001096 intermolecular recognition site; other site 355278001097 dimerization interface [polypeptide binding]; other site 355278001098 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 355278001099 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 355278001100 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 355278001101 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; cl00161 355278001102 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 355278001103 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; cl12031 355278001104 substrate binding pocket [chemical binding]; other site 355278001105 Secretory lipase; Region: LIP; pfam03583 355278001106 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 355278001107 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 355278001108 YhhN-like protein; Region: YhhN; cl01505 355278001109 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 355278001110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001111 dimer interface [polypeptide binding]; other site 355278001112 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278001113 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001114 dimer interface [polypeptide binding]; other site 355278001115 putative CheW interface [polypeptide binding]; other site 355278001116 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 355278001117 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 355278001118 PAS domain; Region: PAS_9; pfam13426 355278001119 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278001120 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 355278001121 putative active site [active] 355278001122 heme pocket [chemical binding]; other site 355278001123 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 355278001124 dimer interface [polypeptide binding]; other site 355278001125 phosphorylation site [posttranslational modification] 355278001126 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001127 ATP binding site [chemical binding]; other site 355278001128 Mg2+ binding site [ion binding]; other site 355278001129 G-X-G motif; other site 355278001130 Response regulator receiver domain; Region: Response_reg; pfam00072 355278001131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001132 active site 355278001133 phosphorylation site [posttranslational modification] 355278001134 intermolecular recognition site; other site 355278001135 dimerization interface [polypeptide binding]; other site 355278001136 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 355278001137 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 355278001138 dimerization interface [polypeptide binding]; other site 355278001139 putative DNA binding site [nucleotide binding]; other site 355278001140 putative Zn2+ binding site [ion binding]; other site 355278001141 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 355278001142 putative hydrophobic ligand binding site [chemical binding]; other site 355278001143 Putative transposase; Region: Y2_Tnp; pfam04986 355278001144 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 355278001145 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 355278001146 putative active site [active] 355278001147 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 355278001148 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 355278001149 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355278001150 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278001151 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355278001152 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 355278001153 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 355278001154 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278001155 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278001156 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278001157 Putative transposase; Region: Y2_Tnp; pfam04986 355278001158 rod shape-determining protein MreB; Provisional; Region: PRK13927 355278001159 Cell division protein FtsA; Region: FtsA; cl11496 355278001160 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 355278001161 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 355278001162 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278001163 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001164 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 355278001165 binding surface 355278001166 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278001167 TPR motif; other site 355278001168 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001169 putative substrate translocation pore; other site 355278001170 multifunctional aminopeptidase A; Provisional; Region: PRK00913 355278001171 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 355278001172 interface (dimer of trimers) [polypeptide binding]; other site 355278001173 Substrate-binding/catalytic site; other site 355278001174 Zn-binding sites [ion binding]; other site 355278001175 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 355278001176 catalytic triad [active] 355278001177 potassium/proton antiporter; Reviewed; Region: PRK05326 355278001178 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; cl15357 355278001179 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 355278001180 Spore germination protein; Region: Spore_permease; cl15802 355278001181 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355278001182 tandem repeat interface [polypeptide binding]; other site 355278001183 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 355278001184 oligomer interface [polypeptide binding]; other site 355278001185 active site residues [active] 355278001186 Survival protein SurE; Region: SurE; cl00448 355278001187 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 355278001188 TPR repeat; Region: TPR_11; pfam13414 355278001189 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 355278001190 binding surface 355278001191 TPR motif; other site 355278001192 TPR repeat; Region: TPR_11; pfam13414 355278001193 Bacterial SH3 domain; Region: SH3_3; cl02551 355278001194 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 355278001195 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278001196 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001197 dimer interface [polypeptide binding]; other site 355278001198 putative CheW interface [polypeptide binding]; other site 355278001199 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 355278001200 NMT1/THI5 like; Region: NMT1; pfam09084 355278001201 sensory histidine kinase AtoS; Provisional; Region: PRK11360 355278001202 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 355278001203 dimer interface [polypeptide binding]; other site 355278001204 phosphorylation site [posttranslational modification] 355278001205 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355278001206 OpgC protein; Region: OpgC_C; cl00792 355278001207 Protein of unknown function (DUF805); Region: DUF805; cl01224 355278001208 Protein of unknown function (DUF419); Region: DUF419; cl15265 355278001209 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 355278001210 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 355278001211 active site 355278001212 DNA binding site [nucleotide binding] 355278001213 Int/Topo IB signature motif; other site 355278001214 L-aspartate oxidase; Provisional; Region: PRK09077 355278001215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001216 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355278001217 C-terminal peptidase (prc); Region: prc; TIGR00225 355278001218 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 355278001219 protein binding site [polypeptide binding]; other site 355278001220 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 355278001221 Catalytic dyad [active] 355278001222 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 the...; Region: PNPsynthase; cd00003 355278001223 active site 355278001224 hydrophilic channel; other site 355278001225 dimerization interface [polypeptide binding]; other site 355278001226 catalytic residues [active] 355278001227 active site lid [active] 355278001228 TIGR02300 family protein; Region: FYDLN_acid 355278001229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278001230 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 355278001231 Sm1 motif; other site 355278001232 intra - hexamer interaction site; other site 355278001233 inter - hexamer interaction site [polypeptide binding]; other site 355278001234 nucleotide binding pocket [chemical binding]; other site 355278001235 Sm2 motif; other site 355278001236 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 355278001237 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 355278001238 Substrate binding site; other site 355278001239 Cupin domain; Region: Cupin_2; cl09118 355278001240 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 355278001241 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 355278001242 PhoU domain; Region: PhoU; pfam01895 355278001243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001244 dimer interface [polypeptide binding]; other site 355278001245 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278001246 putative CheW interface [polypeptide binding]; other site 355278001247 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 355278001248 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 355278001249 dimer interface [polypeptide binding]; other site 355278001250 phosphorylation site [posttranslational modification] 355278001251 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001252 ATP binding site [chemical binding]; other site 355278001253 Mg2+ binding site [ion binding]; other site 355278001254 G-X-G motif; other site 355278001255 Capsule biosynthesis CapC; Region: Caps_synth_CapC; cl14855 355278001256 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 355278001257 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278001258 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 355278001259 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 355278001260 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001261 TPR repeat; Region: TPR_11; pfam13414 355278001262 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 355278001263 binding surface 355278001264 TPR motif; other site 355278001265 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278001266 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 355278001267 anti sigma factor interaction site; other site 355278001268 regulatory phosphorylation site [posttranslational modification]; other site 355278001269 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278001270 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278001271 Sulfatase; Region: Sulfatase; cl10460 355278001272 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 355278001273 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 355278001274 N-terminal plug; other site 355278001275 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 355278001276 ligand-binding site [chemical binding]; other site 355278001277 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 355278001278 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 355278001279 substrate binding site [chemical binding]; other site 355278001280 ATP binding site [chemical binding]; other site 355278001281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001282 active site 355278001283 phosphorylation site [posttranslational modification] 355278001284 intermolecular recognition site; other site 355278001285 dimerization interface [polypeptide binding]; other site 355278001286 PAS fold; Region: PAS_4; pfam08448 355278001287 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 355278001288 putative active site [active] 355278001289 heme pocket [chemical binding]; other site 355278001290 sensory histidine kinase AtoS; Provisional; Region: PRK11360 355278001291 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 355278001292 dimer interface [polypeptide binding]; other site 355278001293 phosphorylation site [posttranslational modification] 355278001294 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001295 ATP binding site [chemical binding]; other site 355278001296 Mg2+ binding site [ion binding]; other site 355278001297 G-X-G motif; other site 355278001298 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 355278001299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278001300 Walker A/P-loop; other site 355278001301 ATP binding site [chemical binding]; other site 355278001302 Q-loop/lid; other site 355278001303 ABC transporter signature motif; other site 355278001304 Walker B; other site 355278001305 D-loop; other site 355278001306 H-loop/switch region; other site 355278001307 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355278001308 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 355278001309 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 355278001310 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355278001311 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278001312 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 355278001313 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 355278001314 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 355278001315 dimer interface [polypeptide binding]; other site 355278001316 motif 1; other site 355278001317 active site 355278001318 motif 2; other site 355278001319 motif 3; other site 355278001320 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 355278001321 active site 355278001322 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 355278001323 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 355278001324 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 355278001325 active site 355278001326 substrate binding site [chemical binding]; other site 355278001327 metal binding site [ion binding]; metal-binding site 355278001328 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 355278001329 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 355278001330 glutaminase active site [active] 355278001331 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 355278001332 dimer interface [polypeptide binding]; other site 355278001333 active site 355278001334 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 355278001335 dimer interface [polypeptide binding]; other site 355278001336 active site 355278001337 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 355278001338 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 355278001339 putative trimer interface [polypeptide binding]; other site 355278001340 putative CoA binding site [chemical binding]; other site 355278001341 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278001342 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 355278001343 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 355278001344 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 355278001345 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 355278001346 anti sigma factor interaction site; other site 355278001347 regulatory phosphorylation site [posttranslational modification]; other site 355278001348 DJ-1 family protein; Region: not_thiJ; TIGR01383 355278001349 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 355278001350 conserved cys residue [active] 355278001351 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 355278001352 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 355278001353 protein binding site [polypeptide binding]; other site 355278001354 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 355278001355 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278001356 Walker A motif; other site 355278001357 ATP binding site [chemical binding]; other site 355278001358 Walker B motif; other site 355278001359 arginine finger; other site 355278001360 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 355278001361 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278001362 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278001363 Fe-S metabolism associated domain; Region: SufE; cl00951 355278001364 glycyl-tRNA synthetase; Provisional; Region: PRK14894 355278001365 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; cl16911 355278001366 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 355278001367 Transglycosylase; Region: Transgly; cl07896 355278001368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278001369 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 355278001370 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 355278001371 active site 355278001372 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001373 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355278001374 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 355278001375 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355278001376 FAD binding domain; Region: FAD_binding_4; pfam01565 355278001377 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278001378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001379 NAD(P) binding site [chemical binding]; other site 355278001380 active site 355278001381 YacP-like NYN domain; Region: NYN_YacP; cl01491 355278001382 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278001383 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278001384 FecR protein; Region: FecR; pfam04773 355278001385 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 355278001386 dimerization interface [polypeptide binding]; other site 355278001387 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278001388 cyclase homology domain; Region: CHD; cd07302 355278001389 nucleotidyl binding site; other site 355278001390 metal binding site [ion binding]; metal-binding site 355278001391 dimer interface [polypeptide binding]; other site 355278001392 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 355278001393 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 355278001394 dimerization interface 3.5A [polypeptide binding]; other site 355278001395 active site 355278001396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 355278001397 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 355278001398 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278001399 putative acyl-acceptor binding pocket; other site 355278001400 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278001401 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 355278001402 active site 355278001403 catalytic residues [active] 355278001404 Isochorismatase family; Region: Isochorismatase; pfam00857 355278001405 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 355278001406 catalytic triad [active] 355278001407 conserved cis-peptide bond; other site 355278001408 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 355278001409 Sulfatase; Region: Sulfatase; cl10460 355278001410 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 355278001411 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278001412 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278001413 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 355278001414 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 355278001415 carboxyltransferase (CT) interaction site; other site 355278001416 biotinylation site [posttranslational modification]; other site 355278001417 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 355278001418 Surface antigen; Region: Bac_surface_Ag; cl03097 355278001419 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355278001420 Predicted GTPase [General function prediction only]; Region: COG0218 355278001421 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 355278001422 G1 box; other site 355278001423 GTP/Mg2+ binding site [chemical binding]; other site 355278001424 Switch I region; other site 355278001425 G2 box; other site 355278001426 G3 box; other site 355278001427 Switch II region; other site 355278001428 G4 box; other site 355278001429 G5 box; other site 355278001430 GAF domain; Region: GAF; cl15785 355278001431 GAF domain; Region: GAF; cl15785 355278001432 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278001433 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001434 GAF domain; Region: GAF_2; pfam13185 355278001435 GAF domain; Region: GAF; cl15785 355278001436 Nif-specific regulatory protein; Region: nifA; TIGR01817 355278001437 GAF domain; Region: GAF; cl15785 355278001438 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278001439 Walker A motif; other site 355278001440 ATP binding site [chemical binding]; other site 355278001441 Walker B motif; other site 355278001442 arginine finger; other site 355278001443 Helix-turn-helix domains; Region: HTH; cl00088 355278001444 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 355278001445 dimer interface [polypeptide binding]; other site 355278001446 substrate binding site [chemical binding]; other site 355278001447 ATP binding site [chemical binding]; other site 355278001448 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 355278001449 DNA binding site [nucleotide binding] 355278001450 active site 355278001451 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 355278001452 dinuclear metal binding motif [ion binding]; other site 355278001453 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 355278001454 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278001455 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278001456 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 355278001457 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278001458 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355278001459 FAD binding domain; Region: FAD_binding_4; pfam01565 355278001460 polyphosphate kinase; Provisional; Region: PRK05443 355278001461 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 355278001462 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 355278001463 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 355278001464 putative domain interface [polypeptide binding]; other site 355278001465 putative active site [active] 355278001466 catalytic site [active] 355278001467 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 355278001468 putative domain interface [polypeptide binding]; other site 355278001469 putative active site [active] 355278001470 catalytic site [active] 355278001471 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 355278001472 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 355278001473 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 355278001474 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 355278001475 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 355278001476 motif II; other site 355278001477 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 355278001478 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 355278001479 S-adenosylmethionine binding site [chemical binding]; other site 355278001480 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 355278001481 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 355278001482 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 355278001483 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278001484 putative acyl-acceptor binding pocket; other site 355278001485 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 355278001486 dimerization interface [polypeptide binding]; other site 355278001487 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278001488 cyclase homology domain; Region: CHD; cd07302 355278001489 nucleotidyl binding site; other site 355278001490 metal binding site [ion binding]; metal-binding site 355278001491 dimer interface [polypeptide binding]; other site 355278001492 MFS/sugar transport protein; Region: MFS_2; pfam13347 355278001493 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001494 putative substrate translocation pore; other site 355278001495 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278001496 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 355278001497 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001498 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278001499 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001500 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 355278001501 binding surface 355278001502 TPR motif; other site 355278001503 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 355278001504 PAS domain; Region: PAS_9; pfam13426 355278001505 putative active site [active] 355278001506 heme pocket [chemical binding]; other site 355278001507 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278001508 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001509 dimer interface [polypeptide binding]; other site 355278001510 putative CheW interface [polypeptide binding]; other site 355278001511 OsmC-like protein; Region: OsmC; cl00767 355278001512 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 355278001513 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 355278001514 active site 355278001515 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 355278001516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001517 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 355278001518 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 355278001519 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 355278001520 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 355278001521 FMN binding site [chemical binding]; other site 355278001522 active site 355278001523 catalytic residues [active] 355278001524 substrate binding site [chemical binding]; other site 355278001525 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 355278001526 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 355278001527 PYR/PP interface [polypeptide binding]; other site 355278001528 dimer interface [polypeptide binding]; other site 355278001529 TPP binding site [chemical binding]; other site 355278001530 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 355278001531 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 355278001532 TPP-binding site [chemical binding]; other site 355278001533 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 355278001534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001535 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 355278001536 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278001537 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 355278001538 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 355278001539 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278001540 Helix-turn-helix domains; Region: HTH; cl00088 355278001541 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 355278001542 NMT1/THI5 like; Region: NMT1; pfam09084 355278001543 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278001544 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 355278001545 dimer interface [polypeptide binding]; other site 355278001546 phosphorylation site [posttranslational modification] 355278001547 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001548 ATP binding site [chemical binding]; other site 355278001549 Mg2+ binding site [ion binding]; other site 355278001550 G-X-G motif; other site 355278001551 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 355278001552 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 355278001553 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; cl12031 355278001554 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355278001555 classical (c) SDRs; Region: SDR_c; cd05233 355278001556 NAD(P) binding site [chemical binding]; other site 355278001557 active site 355278001558 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 355278001559 ligand binding site [chemical binding]; other site 355278001560 flexible hinge region; other site 355278001561 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 355278001562 ligand binding site [chemical binding]; other site 355278001563 flexible hinge region; other site 355278001564 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001565 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 355278001566 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001567 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 355278001568 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001569 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 355278001570 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001571 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 355278001572 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001573 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 355278001574 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001575 Bacterial SH3 domain; Region: SH3_3; cl02551 355278001576 Bacterial SH3 domain; Region: SH3_3; cl02551 355278001577 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278001578 Helix-turn-helix domains; Region: HTH; cl00088 355278001579 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001580 GAF domain; Region: GAF; cl15785 355278001581 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001582 GAF domain; Region: GAF; cl15785 355278001583 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278001584 cyclase homology domain; Region: CHD; cd07302 355278001585 nucleotidyl binding site; other site 355278001586 metal binding site [ion binding]; metal-binding site 355278001587 dimer interface [polypeptide binding]; other site 355278001588 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278001589 GAF domain; Region: GAF_2; pfam13185 355278001590 GAF domain; Region: GAF; cl15785 355278001591 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001592 GAF domain; Region: GAF; cl15785 355278001593 GAF domain; Region: GAF; cl15785 355278001594 GAF domain; Region: GAF_2; pfam13185 355278001595 Heme NO binding associated; Region: HNOBA; pfam07701 355278001596 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278001597 cyclase homology domain; Region: CHD; cd07302 355278001598 nucleotidyl binding site; other site 355278001599 metal binding site [ion binding]; metal-binding site 355278001600 dimer interface [polypeptide binding]; other site 355278001601 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 355278001602 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355278001603 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 355278001604 catalytic residues [active] 355278001605 dimer interface [polypeptide binding]; other site 355278001606 Protein of unknown function, DUF399; Region: DUF399; cl01139 355278001607 Transglycosylase; Region: Transgly; cl07896 355278001608 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 355278001609 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278001610 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 355278001611 active site 355278001612 NTP binding site [chemical binding]; other site 355278001613 metal binding triad [ion binding]; metal-binding site 355278001614 antibiotic binding site [chemical binding]; other site 355278001615 Protein of unknown function DUF86; Region: DUF86; cl01031 355278001616 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 355278001617 TPP-binding site [chemical binding]; other site 355278001618 dimer interface [polypeptide binding]; other site 355278001619 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 355278001620 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 355278001621 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 355278001622 substrate binding pocket [chemical binding]; other site 355278001623 chain length determination region; other site 355278001624 substrate-Mg2+ binding site; other site 355278001625 catalytic residues [active] 355278001626 aspartate-rich region 1; other site 355278001627 active site lid residues [active] 355278001628 aspartate-rich region 2; other site 355278001629 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278001630 sensory histidine kinase AtoS; Provisional; Region: PRK11360 355278001631 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 355278001632 dimer interface [polypeptide binding]; other site 355278001633 phosphorylation site [posttranslational modification] 355278001634 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278001635 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001636 ATP binding site [chemical binding]; other site 355278001637 Mg2+ binding site [ion binding]; other site 355278001638 G-X-G motif; other site 355278001639 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 355278001640 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 355278001641 Cl- selectivity filter; other site 355278001642 Cl- binding residues [ion binding]; other site 355278001643 pore gating glutamate residue; other site 355278001644 dimer interface [polypeptide binding]; other site 355278001645 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 355278001646 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 355278001647 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 355278001648 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 355278001649 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278001650 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 355278001651 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 355278001652 homodimer interface [polypeptide binding]; other site 355278001653 metal binding site [ion binding]; metal-binding site 355278001654 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 355278001655 homodimer interface [polypeptide binding]; other site 355278001656 active site 355278001657 putative chemical substrate binding site [chemical binding]; other site 355278001658 metal binding site [ion binding]; metal-binding site 355278001659 anthranilate synthase component I; Provisional; Region: PRK13569 355278001660 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 355278001661 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 355278001662 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 355278001663 trimer interface [polypeptide binding]; other site 355278001664 active site 355278001665 UDP-GlcNAc binding site [chemical binding]; other site 355278001666 lipid binding site [chemical binding]; lipid-binding site 355278001667 DoxX; Region: DoxX; cl00976 355278001668 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; cl00161 355278001669 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 355278001670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001671 putative substrate translocation pore; other site 355278001672 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; cl12031 355278001673 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 355278001674 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 355278001675 Predicted transcriptional regulator [Transcription]; Region: COG2378 355278001676 WYL domain; Region: WYL; cl14852 355278001677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278001679 putative substrate translocation pore; other site 355278001680 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 355278001681 heme binding pocket [chemical binding]; other site 355278001682 heme ligand [chemical binding]; other site 355278001683 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278001684 DNA polymerase I; Provisional; Region: PRK05755 355278001685 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 355278001686 active site 355278001687 metal binding site 1 [ion binding]; metal-binding site 355278001688 putative 5' ssDNA interaction site; other site 355278001689 metal binding site 3; metal-binding site 355278001690 metal binding site 2 [ion binding]; metal-binding site 355278001691 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 355278001692 putative DNA binding site [nucleotide binding]; other site 355278001693 putative metal binding site [ion binding]; other site 355278001694 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 355278001695 active site 355278001696 catalytic site [active] 355278001697 substrate binding site [chemical binding]; other site 355278001698 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 355278001699 active site 355278001700 DNA binding site [nucleotide binding] 355278001701 catalytic site [active] 355278001702 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 355278001703 putative ADP-binding pocket [chemical binding]; other site 355278001704 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278001705 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278001706 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 355278001707 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 355278001708 HIGH motif; other site 355278001709 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 355278001710 active site 355278001711 KMSKS motif; other site 355278001712 DNA Topoisomerase IV; Region: TOP4c; smart00434 355278001713 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 in DNA...; Region: TOP4c; cl00148 355278001714 CAP-like domain; other site 355278001715 active site 355278001716 primary dimer interface [polypeptide binding]; other site 355278001717 TopoisomeraseII; Region: TOP2c; smart00433 355278001718 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278001719 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 355278001720 ATP binding site [chemical binding]; other site 355278001721 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 355278001722 active site 355278001723 putative metal-binding site [ion binding]; other site 355278001724 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278001725 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 355278001726 Protein of unknown function (DUF445); Region: DUF445; pfam04286 355278001727 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278001728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001729 NAD(P) binding site [chemical binding]; other site 355278001730 active site 355278001731 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 355278001732 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278001733 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 355278001734 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 355278001735 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 355278001736 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 355278001737 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 355278001738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 355278001739 lysine decarboxylase LdcC; Provisional; Region: PRK15399 355278001740 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 355278001741 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001742 catalytic residue [active] 355278001743 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 355278001744 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 355278001745 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 355278001746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278001747 homodimer interface [polypeptide binding]; other site 355278001748 catalytic residue [active] 355278001749 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278001750 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 355278001751 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001752 catalytic residue [active] 355278001753 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 355278001754 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 355278001755 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 355278001756 C-terminal domain interface [polypeptide binding]; other site 355278001757 GSH binding site (G-site) [chemical binding]; other site 355278001758 dimer interface [polypeptide binding]; other site 355278001759 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278001760 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278001761 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 355278001762 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 355278001763 Bacterial SH3 domain; Region: SH3_3; cl02551 355278001764 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 355278001765 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 355278001766 dimer interface [polypeptide binding]; other site 355278001767 active site 355278001768 ketol-acid reductoisomerase; Provisional; Region: PRK05479 355278001769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001770 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 355278001771 MASE1; Region: MASE1; pfam05231 355278001772 Tropomyosin; Region: Tropomyosin; pfam00261 355278001773 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278001774 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001775 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278001776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278001777 Walker A/P-loop; other site 355278001778 ATP binding site [chemical binding]; other site 355278001779 Q-loop/lid; other site 355278001780 ABC transporter signature motif; other site 355278001781 Walker B; other site 355278001782 D-loop; other site 355278001783 H-loop/switch region; other site 355278001784 ABC transporter; Region: ABC_tran_2; pfam12848 355278001785 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278001786 putative diguanylate cyclase; Provisional; Region: PRK09776 355278001787 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 355278001788 putative active site [active] 355278001789 heme pocket [chemical binding]; other site 355278001790 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 355278001791 PAS fold; Region: PAS_3; pfam08447 355278001792 putative active site [active] 355278001793 heme pocket [chemical binding]; other site 355278001794 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 355278001795 dimer interface [polypeptide binding]; other site 355278001796 phosphorylation site [posttranslational modification] 355278001797 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001798 ATP binding site [chemical binding]; other site 355278001799 Mg2+ binding site [ion binding]; other site 355278001800 G-X-G motif; other site 355278001801 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278001802 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001803 active site 355278001804 phosphorylation site [posttranslational modification] 355278001805 intermolecular recognition site; other site 355278001806 dimerization interface [polypeptide binding]; other site 355278001807 Response regulator receiver domain; Region: Response_reg; pfam00072 355278001808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001809 active site 355278001810 phosphorylation site [posttranslational modification] 355278001811 intermolecular recognition site; other site 355278001812 dimerization interface [polypeptide binding]; other site 355278001813 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 355278001814 Domain of unknown function DUF21; Region: DUF21; pfam01595 355278001815 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 355278001816 Transporter associated domain; Region: CorC_HlyC; cl08393 355278001817 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 355278001818 Flavoprotein; Region: Flavoprotein; cl08021 355278001819 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 355278001820 Protein of unknown function, DUF486; Region: DUF486; cl01236 355278001821 NAD-dependent deacetylase; Provisional; Region: PRK00481 355278001822 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 355278001823 NAD+ binding site [chemical binding]; other site 355278001824 substrate binding site [chemical binding]; other site 355278001825 Zn binding site [ion binding]; other site 355278001826 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 355278001827 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 355278001828 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001829 catalytic residue [active] 355278001830 Cytochrome C biogenesis protein; Region: CcmH; cl01179 355278001831 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 355278001832 CcmE; Region: CcmE; cl00994 355278001833 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 355278001834 putative active site [active] 355278001835 acetolactate synthase catalytic subunit; Reviewed; Region: PRK06276 355278001836 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278001837 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 355278001838 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; cl15357 355278001839 transmembrane helices; other site 355278001840 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 355278001841 active sites [active] 355278001842 tetramer interface [polypeptide binding]; other site 355278001843 Domain of unknown function (DUF368); Region: DUF368; cl00893 355278001844 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 355278001845 Mg++ binding site [ion binding]; other site 355278001846 putative catalytic motif [active] 355278001847 putative substrate binding site [chemical binding]; other site 355278001848 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 355278001849 dihydrodipicolinate synthase; Region: dapA; TIGR00674 355278001850 dimer interface [polypeptide binding]; other site 355278001851 active site 355278001852 catalytic residue [active] 355278001853 dihydrodipicolinate reductase; Provisional; Region: PRK00048 355278001854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001855 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 355278001856 Uncharacterized conserved protein [Function unknown]; Region: COG1624 355278001857 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 355278001858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 355278001859 YbbR-like protein; Region: YbbR; pfam07949 355278001860 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278001861 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278001862 cyclase homology domain; Region: CHD; cd07302 355278001863 nucleotidyl binding site; other site 355278001864 metal binding site [ion binding]; metal-binding site 355278001865 dimer interface [polypeptide binding]; other site 355278001866 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 355278001867 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 355278001868 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 355278001869 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 355278001870 PemK-like protein; Region: PemK; cl00995 355278001871 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 355278001872 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 355278001873 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001874 catalytic residue [active] 355278001875 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278001876 Helix-turn-helix domains; Region: HTH; cl00088 355278001877 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278001878 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001879 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 355278001880 uncharacterized xylulose kinase-like proteins, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 355278001881 N- and C-terminal domain interface [polypeptide binding]; other site 355278001882 active site 355278001883 catalytic site [active] 355278001884 metal binding site [ion binding]; metal-binding site 355278001885 xylulose binding site [chemical binding]; other site 355278001886 ATP binding site [chemical binding]; other site 355278001887 putative homodimer interface [polypeptide binding]; other site 355278001888 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 355278001889 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; cd05120 355278001890 active site 355278001891 substrate binding site [chemical binding]; other site 355278001892 ATP binding site [chemical binding]; other site 355278001893 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 355278001894 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278001895 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 355278001896 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 355278001897 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 355278001898 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355278001899 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12624 355278001900 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 355278001901 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 355278001902 PLD-like domain; Region: PLDc_2; pfam13091 355278001903 putative homodimer interface [polypeptide binding]; other site 355278001904 putative active site [active] 355278001905 catalytic site [active] 355278001906 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 355278001907 ATP binding site [chemical binding]; other site 355278001908 putative Mg++ binding site [ion binding]; other site 355278001909 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 355278001910 nucleotide binding region [chemical binding]; other site 355278001911 Restriction endonuclease [Defense mechanisms]; Region: COG3587 355278001912 ATP-binding site [chemical binding]; other site 355278001913 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 355278001914 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 355278001915 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 355278001916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278001917 Permease; Region: Permease; cl00510 355278001918 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 355278001919 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278001920 Walker A/P-loop; other site 355278001921 ATP binding site [chemical binding]; other site 355278001922 Q-loop/lid; other site 355278001923 ABC transporter signature motif; other site 355278001924 Walker B; other site 355278001925 D-loop; other site 355278001926 H-loop/switch region; other site 355278001927 paraquat-inducible protein B; Provisional; Region: PRK10807 355278001928 mce related protein; Region: MCE; pfam02470 355278001929 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 355278001930 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 355278001931 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 355278001932 dimer interface [polypeptide binding]; other site 355278001933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278001934 active site 355278001935 metal binding site [ion binding]; metal-binding site 355278001936 glutathione binding site [chemical binding]; other site 355278001937 flavoprotein, HI0933 family; Region: TIGR00275 355278001938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001939 pyruvate kinase; Provisional; Region: PRK05826 355278001940 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; cl09155 355278001941 domain interfaces; other site 355278001942 active site 355278001943 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 355278001944 Response regulator receiver domain; Region: Response_reg; pfam00072 355278001945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001946 active site 355278001947 phosphorylation site [posttranslational modification] 355278001948 intermolecular recognition site; other site 355278001949 dimerization interface [polypeptide binding]; other site 355278001950 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278001951 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278001952 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 355278001953 catalytic site [active] 355278001954 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 355278001955 catalytic site [active] 355278001956 putative active site [active] 355278001957 putative substrate binding site [chemical binding]; other site 355278001958 DNA repair protein RadA; Provisional; Region: PRK11823 355278001959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278001960 Walker A motif; other site 355278001961 ATP binding site [chemical binding]; other site 355278001962 Walker B motif; other site 355278001963 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 355278001964 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 355278001965 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; cl12031 355278001966 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 355278001967 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 355278001968 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 355278001969 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 355278001970 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 355278001971 Cadherin repeat-like domain; Region: CA_like; cl15786 355278001972 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278001973 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 355278001974 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 355278001975 tetrameric interface [polypeptide binding]; other site 355278001976 activator binding site; other site 355278001977 NADP binding site [chemical binding]; other site 355278001978 substrate binding site [chemical binding]; other site 355278001979 catalytic residues [active] 355278001980 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 355278001981 putative active site [active] 355278001982 putative catalytic site [active] 355278001983 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 355278001984 active site 2 [active] 355278001985 active site 1 [active] 355278001986 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278001987 Predicted membrane protein (DUF2206); Region: DUF2206; cl02054 355278001988 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 355278001989 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 355278001990 Catalytic site [active] 355278001991 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 355278001992 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 355278001993 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 355278001994 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 355278001995 PYR/PP interface [polypeptide binding]; other site 355278001996 dimer interface [polypeptide binding]; other site 355278001997 TPP binding site [chemical binding]; other site 355278001998 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 355278001999 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 355278002000 TPP-binding site [chemical binding]; other site 355278002001 dimer interface [polypeptide binding]; other site 355278002002 Nitrogen regulatory protein P-II; Region: P-II; cl00412 355278002003 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355278002004 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 355278002005 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 355278002006 catalytic residues [active] 355278002007 dimer interface [polypeptide binding]; other site 355278002008 Helix-turn-helix domains; Region: HTH; cl00088 355278002009 ATP synthase A chain; Region: ATP-synt_A; cl00413 355278002010 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 355278002011 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 355278002012 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 355278002013 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 355278002014 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 355278002015 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 355278002016 beta subunit interaction interface [polypeptide binding]; other site 355278002017 Walker A motif; other site 355278002018 ATP binding site [chemical binding]; other site 355278002019 Walker B motif; other site 355278002020 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 355278002021 ATP synthase; Region: ATP-synt; cl00365 355278002022 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 355278002023 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 355278002024 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 355278002025 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 355278002026 alpha subunit interaction interface [polypeptide binding]; other site 355278002027 Walker A motif; other site 355278002028 ATP binding site [chemical binding]; other site 355278002029 Walker B motif; other site 355278002030 inhibitor binding site; inhibition site 355278002031 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 355278002032 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13444 355278002033 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 355278002034 SLBB domain; Region: SLBB; pfam10531 355278002035 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278002036 GAF domain; Region: GAF; cl15785 355278002037 GAF domain; Region: GAF; cl15785 355278002038 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278002039 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 355278002040 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 355278002041 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 355278002042 catalytic site [active] 355278002043 subunit interface [polypeptide binding]; other site 355278002044 Leptospira porin protein OmpL1; Region: Porin_OmpL1; pfam11389 355278002045 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; cd00488 355278002046 aromatic arch; other site 355278002047 DCoH dimer interaction site [polypeptide binding]; other site 355278002048 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 355278002049 DCoH tetramer interaction site [polypeptide binding]; other site 355278002050 substrate binding site [chemical binding]; other site 355278002051 EamA-like transporter family; Region: EamA; cl01037 355278002052 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355278002053 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 355278002054 ligand binding site [chemical binding]; other site 355278002055 active site 355278002056 UGI interface [polypeptide binding]; other site 355278002057 catalytic site [active] 355278002058 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 355278002059 EamA-like transporter family; Region: EamA; cl01037 355278002060 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355278002061 EamA-like transporter family; Region: EamA; cl01037 355278002062 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 355278002063 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 355278002064 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 355278002065 ligand binding site [chemical binding]; other site 355278002066 flexible hinge region; other site 355278002067 AAA domain; Region: AAA_26; pfam13500 355278002068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278002069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278002070 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 355278002071 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 355278002072 inhibitor-cofactor binding pocket; inhibition site 355278002073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002074 catalytic residue [active] 355278002075 biotin synthase; Region: bioB; TIGR00433 355278002076 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 355278002077 FeS/SAM binding site; other site 355278002078 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 355278002079 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 355278002080 MFS/sugar transport protein; Region: MFS_2; pfam13347 355278002081 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 355278002082 active site 355278002083 catalytic triad [active] 355278002084 oxyanion hole [active] 355278002085 phosphoserine phosphatase SerB; Region: serB; TIGR00338 355278002086 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 355278002087 active site 355278002088 motif I; other site 355278002089 motif II; other site 355278002090 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 355278002091 MutS domain I; Region: MutS_I; pfam01624 355278002092 MutS domain II; Region: MutS_II; pfam05188 355278002093 MutS family domain IV; Region: MutS_IV; pfam05190 355278002094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278002095 Walker A/P-loop; other site 355278002096 ATP binding site [chemical binding]; other site 355278002097 Q-loop/lid; other site 355278002098 ABC transporter signature motif; other site 355278002099 Walker B; other site 355278002100 D-loop; other site 355278002101 H-loop/switch region; other site 355278002102 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 monomeric; Region: PRAI; cd00405 355278002103 active site 355278002104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278002105 Helix-turn-helix domains; Region: HTH; cl00088 355278002106 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 355278002107 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 355278002108 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 355278002109 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 355278002110 shikimate binding site; other site 355278002111 NAD(P) binding site [chemical binding]; other site 355278002112 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 355278002113 putative metal binding site; other site 355278002114 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 355278002115 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 355278002116 RNA binding site [nucleotide binding]; other site 355278002117 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 355278002118 RNA binding site [nucleotide binding]; other site 355278002119 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 355278002120 RNA binding site [nucleotide binding]; other site 355278002121 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355278002122 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278002123 excinuclease ABC subunit B; Provisional; Region: PRK05298 355278002124 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 355278002125 ATP binding site [chemical binding]; other site 355278002126 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 355278002127 nucleotide binding region [chemical binding]; other site 355278002128 ATP-binding site [chemical binding]; other site 355278002129 Ultra-violet resistance protein B; Region: UvrB; pfam12344 355278002130 UvrB/uvrC motif; Region: UVR; pfam02151 355278002131 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 355278002132 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278002133 Walker A motif; other site 355278002134 ATP binding site [chemical binding]; other site 355278002135 Walker B motif; other site 355278002136 arginine finger; other site 355278002137 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 355278002138 Transglycosylase; Region: Transgly; cl07896 355278002139 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 355278002140 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278002141 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 355278002142 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 355278002143 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355278002144 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278002145 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 355278002146 Walker A/P-loop; other site 355278002147 ATP binding site [chemical binding]; other site 355278002148 Q-loop/lid; other site 355278002149 ABC transporter signature motif; other site 355278002150 Walker B; other site 355278002151 D-loop; other site 355278002152 H-loop/switch region; other site 355278002153 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 355278002154 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 355278002155 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 355278002156 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 355278002157 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 355278002158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002159 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278002160 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 355278002161 S-adenosylmethionine binding site [chemical binding]; other site 355278002162 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 355278002163 putative homodimer interface [polypeptide binding]; other site 355278002164 putative homotetramer interface [polypeptide binding]; other site 355278002165 putative allosteric switch controlling residues; other site 355278002166 putative metal binding site [ion binding]; other site 355278002167 putative homodimer-homodimer interface [polypeptide binding]; other site 355278002168 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278002169 Protein export membrane protein; Region: SecD_SecF; cl14618 355278002170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 355278002171 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 355278002172 dimerization interface [polypeptide binding]; other site 355278002173 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 355278002174 dimer interface [polypeptide binding]; other site 355278002175 phosphorylation site [posttranslational modification] 355278002176 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002177 ATP binding site [chemical binding]; other site 355278002178 Mg2+ binding site [ion binding]; other site 355278002179 G-X-G motif; other site 355278002180 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 catalyze...; Region: LT_GEWL; cd00254 355278002181 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355278002182 catalytic residue [active] 355278002183 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 355278002184 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 355278002185 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 355278002186 active site 355278002187 TPR repeat; Region: TPR_11; pfam13414 355278002188 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 355278002189 binding surface 355278002190 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278002191 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278002192 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 355278002193 substrate binding site [chemical binding]; other site 355278002194 oxyanion hole (OAH) forming residues; other site 355278002195 trimer interface [polypeptide binding]; other site 355278002196 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 355278002197 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 355278002198 ligand binding site [chemical binding]; other site 355278002199 flexible hinge region; other site 355278002200 Helix-turn-helix domains; Region: HTH; cl00088 355278002201 Rhomboid family; Region: Rhomboid; cl11446 355278002202 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 355278002203 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 355278002204 putative active site pocket [active] 355278002205 4-fold oligomerization interface [polypeptide binding]; other site 355278002206 metal binding residues [ion binding]; metal-binding site 355278002207 3-fold/trimer interface [polypeptide binding]; other site 355278002208 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK14004 355278002209 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 355278002210 putative active site [active] 355278002211 oxyanion strand; other site 355278002212 catalytic triad [active] 355278002213 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 355278002214 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 355278002215 catalytic residues [active] 355278002216 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278002217 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355278002218 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 355278002219 NeuB family; Region: NeuB; cl00496 355278002220 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 355278002221 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 355278002222 G1 box; other site 355278002223 GTP/Mg2+ binding site [chemical binding]; other site 355278002224 Switch I region; other site 355278002225 G2 box; other site 355278002226 G3 box; other site 355278002227 Switch II region; other site 355278002228 G4 box; other site 355278002229 G5 box; other site 355278002230 Nucleoside recognition; Region: Gate; cl00486 355278002231 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 355278002232 Nucleoside recognition; Region: Gate; cl00486 355278002233 FeoA domain; Region: FeoA; cl00838 355278002234 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278002235 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 355278002236 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 355278002237 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 355278002238 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 355278002239 putative active site [active] 355278002240 catalytic triad [active] 355278002241 putative dimer interface [polypeptide binding]; other site 355278002242 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 355278002243 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278002244 Helix-turn-helix domains; Region: HTH; cl00088 355278002245 Repair protein; Region: Repair_PSII; cl01535 355278002246 glycyl-tRNA synthetase; Provisional; Region: PRK04173 355278002247 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 attaches...; Region: class_II_aaRS-like_core; cl00268 355278002248 motif 1; other site 355278002249 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 355278002250 active site 355278002251 motif 2; other site 355278002252 motif 3; other site 355278002253 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 355278002254 anticodon binding site; other site 355278002255 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278002256 Protease prsW family; Region: PrsW-protease; cl15823 355278002257 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 355278002258 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_7; cd08353 355278002259 putative dimer interface [polypeptide binding]; other site 355278002260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278002261 Helix-turn-helix domains; Region: HTH; cl00088 355278002262 WHG domain; Region: WHG; pfam13305 355278002263 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 355278002264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002265 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 355278002266 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 355278002267 FAD binding pocket [chemical binding]; other site 355278002268 FAD binding motif [chemical binding]; other site 355278002269 phosphate binding motif [ion binding]; other site 355278002270 beta-alpha-beta structure motif; other site 355278002271 NAD binding pocket [chemical binding]; other site 355278002272 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 355278002273 catalytic loop [active] 355278002274 iron binding site [ion binding]; other site 355278002275 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 355278002276 PAS domain; Region: PAS_9; pfam13426 355278002277 putative active site [active] 355278002278 heme pocket [chemical binding]; other site 355278002279 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278002280 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 355278002281 putative active site [active] 355278002282 heme pocket [chemical binding]; other site 355278002283 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 355278002284 dimer interface [polypeptide binding]; other site 355278002285 phosphorylation site [posttranslational modification] 355278002286 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002287 ATP binding site [chemical binding]; other site 355278002288 Mg2+ binding site [ion binding]; other site 355278002289 G-X-G motif; other site 355278002290 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002292 active site 355278002293 phosphorylation site [posttranslational modification] 355278002294 intermolecular recognition site; other site 355278002295 dimerization interface [polypeptide binding]; other site 355278002296 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 355278002297 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 355278002298 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 355278002299 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 355278002300 anti sigma factor interaction site; other site 355278002301 regulatory phosphorylation site [posttranslational modification]; other site 355278002302 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 355278002303 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278002304 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278002305 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 355278002306 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 355278002307 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 355278002308 protein binding site [polypeptide binding]; other site 355278002309 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 355278002310 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 355278002311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002312 homodimer interface [polypeptide binding]; other site 355278002313 catalytic residue [active] 355278002314 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 355278002315 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 355278002316 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 355278002317 dimerization interface [polypeptide binding]; other site 355278002318 putative ATP binding site [chemical binding]; other site 355278002319 PAS fold; Region: PAS_3; pfam08447 355278002320 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 355278002321 PAS domain; Region: PAS_9; pfam13426 355278002322 putative active site [active] 355278002323 heme pocket [chemical binding]; other site 355278002324 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278002325 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 355278002326 dimer interface [polypeptide binding]; other site 355278002327 phosphorylation site [posttranslational modification] 355278002328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002329 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002330 ATP binding site [chemical binding]; other site 355278002331 Mg2+ binding site [ion binding]; other site 355278002332 G-X-G motif; other site 355278002333 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002335 active site 355278002336 phosphorylation site [posttranslational modification] 355278002337 intermolecular recognition site; other site 355278002338 dimerization interface [polypeptide binding]; other site 355278002339 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002341 active site 355278002342 phosphorylation site [posttranslational modification] 355278002343 intermolecular recognition site; other site 355278002344 dimerization interface [polypeptide binding]; other site 355278002345 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 355278002346 active site 355278002347 phosphorylation site [posttranslational modification] 355278002348 intermolecular recognition site; other site 355278002349 dimerization interface [polypeptide binding]; other site 355278002350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002351 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002352 ATP binding site [chemical binding]; other site 355278002353 Mg2+ binding site [ion binding]; other site 355278002354 G-X-G motif; other site 355278002355 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355278002356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002357 active site 355278002358 phosphorylation site [posttranslational modification] 355278002359 intermolecular recognition site; other site 355278002360 dimerization interface [polypeptide binding]; other site 355278002361 CheB methylesterase; Region: CheB_methylest; pfam01339 355278002362 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 355278002363 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 355278002364 putative binding surface; other site 355278002365 active site 355278002366 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 355278002367 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002368 ATP binding site [chemical binding]; other site 355278002369 Mg2+ binding site [ion binding]; other site 355278002370 G-X-G motif; other site 355278002371 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 355278002372 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 355278002373 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 355278002374 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 355278002375 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278002376 dimer interface [polypeptide binding]; other site 355278002377 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278002378 putative CheW interface [polypeptide binding]; other site 355278002379 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278002380 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278002381 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 355278002382 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 355278002383 substrate binding site [chemical binding]; other site 355278002384 oxyanion hole (OAH) forming residues; other site 355278002385 trimer interface [polypeptide binding]; other site 355278002386 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 355278002387 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 355278002388 homodimer interface [polypeptide binding]; other site 355278002389 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 355278002390 active site pocket [active] 355278002391 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002393 active site 355278002394 phosphorylation site [posttranslational modification] 355278002395 intermolecular recognition site; other site 355278002396 dimerization interface [polypeptide binding]; other site 355278002397 HEAT repeats; Region: HEAT_2; pfam13646 355278002398 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355278002399 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 355278002400 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 355278002401 Walker A/P-loop; other site 355278002402 ATP binding site [chemical binding]; other site 355278002403 Q-loop/lid; other site 355278002404 ABC transporter signature motif; other site 355278002405 Walker B; other site 355278002406 D-loop; other site 355278002407 H-loop/switch region; other site 355278002408 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 355278002409 putative carbohydrate binding site [chemical binding]; other site 355278002410 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 355278002411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002412 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 355278002413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002414 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278002415 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 355278002416 TPR repeat; Region: TPR_11; pfam13414 355278002417 binding surface 355278002418 TPR motif; other site 355278002419 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 355278002420 metal binding site [ion binding]; metal-binding site 355278002421 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 355278002422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002423 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 355278002424 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; cl16911 355278002425 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12724 355278002426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278002427 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 355278002428 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 355278002429 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 355278002430 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278002431 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 355278002432 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 355278002433 DNA binding residues [nucleotide binding] 355278002434 Domain of unknown function (DUF370); Region: DUF370; cl00898 355278002435 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 355278002436 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 355278002437 catalytic site [active] 355278002438 G-X2-G-X-G-K; other site 355278002439 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 355278002440 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 355278002441 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002443 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 355278002444 dimer interface [polypeptide binding]; other site 355278002445 phosphorylation site [posttranslational modification] 355278002446 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002447 ATP binding site [chemical binding]; other site 355278002448 Mg2+ binding site [ion binding]; other site 355278002449 G-X-G motif; other site 355278002450 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002452 active site 355278002453 phosphorylation site [posttranslational modification] 355278002454 intermolecular recognition site; other site 355278002455 dimerization interface [polypeptide binding]; other site 355278002456 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278002457 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 355278002458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278002459 Walker A motif; other site 355278002460 ATP binding site [chemical binding]; other site 355278002461 Walker B motif; other site 355278002462 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 355278002463 MauM/NapG family ferredoxin-type protein; Region: mauM_napG; TIGR00397 355278002464 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 355278002465 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 355278002466 hinge; other site 355278002467 active site 355278002468 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 355278002469 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 355278002470 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278002471 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278002472 ligand binding site [chemical binding]; other site 355278002473 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 355278002474 active site 355278002475 catalytic triad [active] 355278002476 oxyanion hole [active] 355278002477 switch loop; other site 355278002478 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 355278002479 Clp protease; Region: CLP_protease; pfam00574 355278002480 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 355278002481 oligomer interface [polypeptide binding]; other site 355278002482 active site residues [active] 355278002483 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 355278002484 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 355278002485 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278002486 Walker A motif; other site 355278002487 ATP binding site [chemical binding]; other site 355278002488 Walker B motif; other site 355278002489 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355278002490 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278002491 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 355278002492 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 355278002493 PAS domain S-box; Region: sensory_box; TIGR00229 355278002494 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 355278002495 putative active site [active] 355278002496 heme pocket [chemical binding]; other site 355278002497 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 355278002498 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 355278002499 dimer interface [polypeptide binding]; other site 355278002500 phosphorylation site [posttranslational modification] 355278002501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002502 active site 355278002503 phosphorylation site [posttranslational modification] 355278002504 intermolecular recognition site; other site 355278002505 dimerization interface [polypeptide binding]; other site 355278002506 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278002507 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; cl12031 355278002508 Protein of unknown function (DUF461); Region: DUF461; cl01071 355278002509 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 355278002510 Cu(I) binding site [ion binding]; other site 355278002511 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 355278002512 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 355278002513 active site 355278002514 Zn binding site [ion binding]; other site 355278002515 Protein of unknown function, DUF393; Region: DUF393; cl01136 355278002516 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278002517 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355278002518 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 355278002519 FecR protein; Region: FecR; pfam04773 355278002520 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278002521 Bacterial Ig-like domain; Region: Big_5; cl01012 355278002522 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278002523 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 355278002524 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 355278002525 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278002526 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278002527 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278002528 cyclase homology domain; Region: CHD; cd07302 355278002529 nucleotidyl binding site; other site 355278002530 metal binding site [ion binding]; metal-binding site 355278002531 dimer interface [polypeptide binding]; other site 355278002532 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 355278002533 O-Antigen ligase; Region: Wzy_C; cl04850 355278002534 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278002535 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 355278002536 putative ADP-binding pocket [chemical binding]; other site 355278002537 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 355278002538 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 355278002539 putative active site [active] 355278002540 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 355278002541 NRDE protein; Region: NRDE; cl01315 355278002542 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 355278002543 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 355278002544 dimer interface [polypeptide binding]; other site 355278002545 active site 355278002546 glycine-pyridoxal phosphate binding site [chemical binding]; other site 355278002547 folate binding site [chemical binding]; other site 355278002548 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 355278002549 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 355278002550 Rhomboid family; Region: Rhomboid; cl11446 355278002551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278002552 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 355278002553 Transglycosylase; Region: Transgly; cl07896 355278002554 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278002555 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278002556 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278002557 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355278002558 tandem repeat interface [polypeptide binding]; other site 355278002559 oligomer interface [polypeptide binding]; other site 355278002560 active site residues [active] 355278002561 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 355278002562 active site 355278002563 catalytic residues [active] 355278002564 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 355278002565 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 355278002566 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 355278002567 endonuclease III; Region: ENDO3c; smart00478 355278002568 minor groove reading motif; other site 355278002569 helix-hairpin-helix signature motif; other site 355278002570 substrate binding pocket [chemical binding]; other site 355278002571 active site 355278002572 UbiA prenyltransferase family; Region: UbiA; cl00337 355278002573 aromatic acid decarboxylase; Validated; Region: PRK05920 355278002574 Flavoprotein; Region: Flavoprotein; cl08021 355278002575 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 355278002576 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 355278002577 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 355278002578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002579 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 355278002580 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 355278002581 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 355278002582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002583 homodimer interface [polypeptide binding]; other site 355278002584 catalytic residue [active] 355278002585 Helix-turn-helix domains; Region: HTH; cl00088 355278002586 transcription termination factor Rho; Provisional; Region: rho; PRK09376 355278002587 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 355278002588 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 355278002589 RNA binding site [nucleotide binding]; other site 355278002590 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 355278002591 multimer interface [polypeptide binding]; other site 355278002592 Walker A motif; other site 355278002593 ATP binding site [chemical binding]; other site 355278002594 Walker B motif; other site 355278002595 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 355278002596 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 355278002597 active site 355278002598 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 355278002599 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 355278002600 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 355278002601 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 355278002602 anti sigma factor interaction site; other site 355278002603 regulatory phosphorylation site [posttranslational modification]; other site 355278002604 Protein of unknown function (DUF342); Region: DUF342; pfam03961 355278002605 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 355278002606 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355278002607 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 355278002608 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355278002609 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 355278002610 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; cl16911 355278002611 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278002612 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002613 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278002614 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 355278002615 dimer interface [polypeptide binding]; other site 355278002616 Citrate synthase; Region: Citrate_synt; pfam00285 355278002617 active site 355278002618 citrylCoA binding site [chemical binding]; other site 355278002619 NADH binding [chemical binding]; other site 355278002620 cationic pore residues; other site 355278002621 oxalacetate/citrate binding site [chemical binding]; other site 355278002622 coenzyme A binding site [chemical binding]; other site 355278002623 catalytic triad [active] 355278002624 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 catalyze...; Region: LT_GEWL; cd00254 355278002625 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355278002626 catalytic residue [active] 355278002627 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278002628 Oxysterol-binding protein; Region: Oxysterol_BP; pfam01237 355278002629 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 355278002630 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278002631 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 355278002632 inhibitor-cofactor binding pocket; inhibition site 355278002633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002634 catalytic residue [active] 355278002635 TRL-like protein family; Region: TRL; pfam13146 355278002636 TRL-like protein family; Region: TRL; pfam13146 355278002637 TRL-like protein family; Region: TRL; pfam13146 355278002638 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 355278002639 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 355278002640 TPP-binding site [chemical binding]; other site 355278002641 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 355278002642 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 355278002643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002644 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278002645 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278002646 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 355278002647 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 355278002648 E3 interaction surface; other site 355278002649 lipoyl attachment site [posttranslational modification]; other site 355278002650 e3 binding domain; Region: E3_binding; pfam02817 355278002651 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 355278002652 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 355278002653 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 355278002654 trimer interface [polypeptide binding]; other site 355278002655 putative metal binding site [ion binding]; other site 355278002656 GAF domain; Region: GAF; cl15785 355278002657 GAF domain; Region: GAF_2; pfam13185 355278002658 GAF domain; Region: GAF; cl15785 355278002659 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278002660 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278002661 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 355278002662 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355278002663 Cytochrome c; Region: Cytochrom_C; cl11414 355278002664 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 355278002665 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 355278002666 Cu(I) binding site [ion binding]; other site 355278002667 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278002668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002669 NAD(P) binding site [chemical binding]; other site 355278002670 active site 355278002671 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002672 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 355278002673 dimer interface [polypeptide binding]; other site 355278002674 phosphorylation site [posttranslational modification] 355278002675 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002676 ATP binding site [chemical binding]; other site 355278002677 Mg2+ binding site [ion binding]; other site 355278002678 G-X-G motif; other site 355278002679 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002680 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002681 active site 355278002682 phosphorylation site [posttranslational modification] 355278002683 intermolecular recognition site; other site 355278002684 dimerization interface [polypeptide binding]; other site 355278002685 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 355278002686 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278002687 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 355278002688 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 355278002689 ligand binding site [chemical binding]; other site 355278002690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002691 Predicted dehydrogenase [General function prediction only]; Region: COG0579 355278002692 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 355278002693 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 355278002694 putative active site [active] 355278002695 putative metal binding site [ion binding]; other site 355278002696 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278002697 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278002698 dimer interface [polypeptide binding]; other site 355278002699 putative CheW interface [polypeptide binding]; other site 355278002700 PAS domain; Region: PAS_9; pfam13426 355278002701 PAS domain S-box; Region: sensory_box; TIGR00229 355278002702 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 355278002703 putative active site [active] 355278002704 heme pocket [chemical binding]; other site 355278002705 PAS fold; Region: PAS_4; pfam08448 355278002706 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 355278002707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278002708 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002709 ATP binding site [chemical binding]; other site 355278002710 Mg2+ binding site [ion binding]; other site 355278002711 G-X-G motif; other site 355278002712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002713 active site 355278002714 phosphorylation site [posttranslational modification] 355278002715 intermolecular recognition site; other site 355278002716 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278002717 cyclase homology domain; Region: CHD; cd07302 355278002718 nucleotidyl binding site; other site 355278002719 metal binding site [ion binding]; metal-binding site 355278002720 dimer interface [polypeptide binding]; other site 355278002721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278002722 metal binding site [ion binding]; metal-binding site 355278002723 active site 355278002724 I-site; other site 355278002725 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 355278002726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278002727 dimer interface [polypeptide binding]; other site 355278002728 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278002729 putative CheW interface [polypeptide binding]; other site 355278002730 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278002731 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002732 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 355278002733 Histidine kinase; Region: His_kinase; pfam06580 355278002734 LytTr DNA-binding domain; Region: LytTR; cl04498 355278002735 Predicted membrane protein [Function unknown]; Region: COG4270 355278002736 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278002737 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278002738 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 355278002739 putative hydrophobic ligand binding site [chemical binding]; other site 355278002740 Cadherin repeat-like domain; Region: CA_like; cl15786 355278002741 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 355278002742 putative active site [active] 355278002743 putative metal binding site [ion binding]; other site 355278002744 PhoD-like phosphatase; Region: PhoD; pfam09423 355278002745 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 355278002746 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278002747 Helix-turn-helix domains; Region: HTH; cl00088 355278002748 Repair protein; Region: Repair_PSII; cl01535 355278002749 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 355278002750 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 355278002751 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 355278002752 active site 355278002753 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 355278002754 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 355278002755 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 355278002756 active site 355278002757 catalytic residues [active] 355278002758 metal binding site [ion binding]; metal-binding site 355278002759 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 355278002760 Na binding site [ion binding]; other site 355278002761 FOG: CBS domain [General function prediction only]; Region: COG0517 355278002762 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 355278002763 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278002764 AMP-binding enzyme; Region: AMP-binding; cl15778 355278002765 AMP-binding enzyme; Region: AMP-binding; cl15778 355278002766 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278002767 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278002768 active site 355278002769 PAS fold; Region: PAS_3; pfam08447 355278002770 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278002771 Histidine kinase; Region: HisKA_2; cl06527 355278002772 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278002773 (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 355278002774 dimer interaction site [polypeptide binding]; other site 355278002775 substrate-binding tunnel; other site 355278002776 active site 355278002777 catalytic site [active] 355278002778 substrate binding site [chemical binding]; other site 355278002779 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 355278002780 active site 355278002781 OpgC protein; Region: OpgC_C; cl00792 355278002782 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355278002783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002784 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 355278002785 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278002786 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002787 PAS domain S-box; Region: sensory_box; TIGR00229 355278002788 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278002789 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278002790 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 355278002791 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 355278002792 S-adenosylmethionine binding site [chemical binding]; other site 355278002793 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 355278002794 non-specific DNA binding site [nucleotide binding]; other site 355278002795 salt bridge; other site 355278002796 sequence-specific DNA binding site [nucleotide binding]; other site 355278002797 Cupin domain; Region: Cupin_2; cl09118 355278002798 Predicted methyltransferases [General function prediction only]; Region: COG0313 355278002799 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 355278002800 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 355278002801 motif II; other site 355278002802 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278002803 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 355278002804 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 355278002805 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; cl16911 355278002806 Competence protein; Region: Competence; cl00471 355278002807 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 355278002808 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 355278002809 active site 355278002810 HIGH motif; other site 355278002811 dimer interface [polypeptide binding]; other site 355278002812 KMSKS motif; other site 355278002813 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 355278002814 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 355278002815 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 355278002816 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 355278002817 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 355278002818 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 355278002819 Ligand binding site [chemical binding]; other site 355278002820 Electron transfer flavoprotein domain; Region: ETF; pfam01012 355278002821 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278002822 cyclase homology domain; Region: CHD; cd07302 355278002823 nucleotidyl binding site; other site 355278002824 metal binding site [ion binding]; metal-binding site 355278002825 dimer interface [polypeptide binding]; other site 355278002826 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 355278002827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278002828 isovaleryl-CoA dehydrogenase; Provisional; Region: PTZ00461 355278002829 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278002830 active site 355278002831 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 355278002832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002833 homoserine kinase; Provisional; Region: PRK01212 355278002834 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 355278002835 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278002836 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355278002837 malate dehydrogenase; Provisional; Region: PRK05442 355278002838 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 355278002839 NAD(P) binding site [chemical binding]; other site 355278002840 dimer interface [polypeptide binding]; other site 355278002841 malate binding site [chemical binding]; other site 355278002842 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278002843 Helix-turn-helix domains; Region: HTH; cl00088 355278002844 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 355278002845 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 355278002846 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 355278002847 ligand binding site [chemical binding]; other site 355278002848 flexible hinge region; other site 355278002849 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 355278002850 ligand binding site [chemical binding]; other site 355278002851 flexible hinge region; other site 355278002852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 355278002853 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 355278002854 Tetratricopeptide repeat; Region: TPR_6; pfam13174 355278002855 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 355278002856 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 355278002857 active site 355278002858 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278002859 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278002860 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 355278002861 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 355278002862 elongation factor G; Reviewed; Region: PRK12740 355278002863 G1 box; other site 355278002864 putative GEF interaction site [polypeptide binding]; other site 355278002865 GTP/Mg2+ binding site [chemical binding]; other site 355278002866 Switch I region; other site 355278002867 G2 box; other site 355278002868 G3 box; other site 355278002869 Switch II region; other site 355278002870 G4 box; other site 355278002871 G5 box; other site 355278002872 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 355278002873 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 355278002874 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_C; cd04097 355278002875 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 355278002876 Cation transport protein; Region: TrkH; cl10514 355278002877 Cation transport protein; Region: TrkH; cl10514 355278002878 UbiA prenyltransferase family; Region: UbiA; cl00337 355278002879 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 355278002880 catalytic residues [active] 355278002881 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 355278002882 active site 355278002883 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 355278002884 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355278002885 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355278002886 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 355278002887 dimer interface [polypeptide binding]; other site 355278002888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002889 catalytic residue [active] 355278002890 DNA topoisomerase I; Validated; Region: PRK05582 355278002891 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 355278002892 active site 355278002893 metal binding site [ion binding]; metal-binding site 355278002894 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 355278002895 domain I; other site 355278002896 DNA binding groove [nucleotide binding] 355278002897 phosphate binding site [ion binding]; other site 355278002898 domain II; other site 355278002899 domain III; other site 355278002900 nucleotide binding site [chemical binding]; other site 355278002901 catalytic site [active] 355278002902 domain IV; other site 355278002903 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 355278002904 Ferrochelatase; Region: Ferrochelatase; pfam00762 355278002905 C-terminal domain interface [polypeptide binding]; other site 355278002906 active site 355278002907 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 355278002908 active site 355278002909 N-terminal domain interface [polypeptide binding]; other site 355278002910 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 355278002911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002912 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 355278002913 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 355278002914 FeS/SAM binding site; other site 355278002915 HemN C-terminal domain; Region: HemN_C; pfam06969 355278002916 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 355278002917 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 355278002918 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 355278002919 inhibitor-cofactor binding pocket; inhibition site 355278002920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002921 catalytic residue [active] 355278002922 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; cl00338 355278002923 dimer interface [polypeptide binding]; other site 355278002924 active site 355278002925 Schiff base residues; other site 355278002926 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 355278002927 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; cl03189 355278002928 domain interfaces; other site 355278002929 active site 355278002930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002931 NAD(P) binding pocket [chemical binding]; other site 355278002932 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 355278002933 SelR domain; Region: SelR; pfam01641 355278002934 Restriction endonuclease; Region: Mrr_cat; cl00516 355278002935 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: FtsY; COG0552 355278002936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278002937 Walker A motif; other site 355278002938 ATP binding site [chemical binding]; other site 355278002939 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 355278002940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002941 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355278002942 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355278002943 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 355278002944 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 355278002945 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 355278002946 FAD binding pocket [chemical binding]; other site 355278002947 FAD binding motif [chemical binding]; other site 355278002948 catalytic residues [active] 355278002949 NAD binding pocket [chemical binding]; other site 355278002950 phosphate binding motif [ion binding]; other site 355278002951 beta-alpha-beta structure motif; other site 355278002952 sulfite reductase subunit beta; Provisional; Region: PRK13504 355278002953 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355278002954 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355278002955 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 355278002956 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 355278002957 CysD dimerization site [polypeptide binding]; other site 355278002958 G1 box; other site 355278002959 putative GEF interaction site [polypeptide binding]; other site 355278002960 GTP/Mg2+ binding site [chemical binding]; other site 355278002961 Switch I region; other site 355278002962 G2 box; other site 355278002963 G3 box; other site 355278002964 Switch II region; other site 355278002965 G4 box; other site 355278002966 G5 box; other site 355278002967 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 355278002968 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 355278002969 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 355278002970 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 355278002971 Active Sites [active] 355278002972 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 355278002973 Active Sites [active] 355278002974 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 355278002975 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 355278002976 Walker A/P-loop; other site 355278002977 ATP binding site [chemical binding]; other site 355278002978 Q-loop/lid; other site 355278002979 ABC transporter signature motif; other site 355278002980 Walker B; other site 355278002981 D-loop; other site 355278002982 H-loop/switch region; other site 355278002983 TOBE-like domain; Region: TOBE_3; pfam12857 355278002984 sulfate transport protein; Provisional; Region: cysT; CHL00187 355278002985 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 355278002986 dimer interface [polypeptide binding]; other site 355278002987 conserved gate region; other site 355278002988 putative PBP binding loops; other site 355278002989 ABC-ATPase subunit interface; other site 355278002990 sulfate transport protein; Provisional; Region: cysT; CHL00187 355278002991 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 355278002992 dimer interface [polypeptide binding]; other site 355278002993 conserved gate region; other site 355278002994 putative PBP binding loops; other site 355278002995 ABC-ATPase subunit interface; other site 355278002996 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 355278002997 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 355278002998 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 355278002999 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 355278003000 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 355278003001 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 355278003002 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 355278003003 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 355278003004 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355278003005 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278003006 GAF domain; Region: GAF_2; pfam13185 355278003007 GAF domain; Region: GAF; cl15785 355278003008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278003009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278003010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003011 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 355278003012 NAD(P) binding site [chemical binding]; other site 355278003013 active site 355278003014 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 355278003015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003016 NAD(P) binding pocket [chemical binding]; other site 355278003017 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278003018 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 355278003019 anti sigma factor interaction site; other site 355278003020 regulatory phosphorylation site [posttranslational modification]; other site 355278003021 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 355278003022 active site 355278003023 ribulose/triose binding site [chemical binding]; other site 355278003024 phosphate binding site [ion binding]; other site 355278003025 substrate (anthranilate) binding pocket [chemical binding]; other site 355278003026 product (indole) binding pocket [chemical binding]; other site 355278003027 MASE1; Region: MASE1; pfam05231 355278003028 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278003029 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 355278003030 dimer interface [polypeptide binding]; other site 355278003031 phosphorylation site [posttranslational modification] 355278003032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003033 ATP binding site [chemical binding]; other site 355278003034 Mg2+ binding site [ion binding]; other site 355278003035 G-X-G motif; other site 355278003036 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278003037 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 355278003038 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003039 ATP binding site [chemical binding]; other site 355278003040 Mg2+ binding site [ion binding]; other site 355278003041 G-X-G motif; other site 355278003042 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 355278003043 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 355278003044 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 355278003045 active site 355278003046 DNA binding site [nucleotide binding] 355278003047 Int/Topo IB signature motif; other site 355278003048 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 355278003049 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003050 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 355278003051 Cytochrome c; Region: Cytochrom_C; cl11414 355278003052 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 355278003053 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 355278003054 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278003055 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; cl00161 355278003056 Helix-turn-helix domains; Region: HTH; cl00088 355278003057 HTH-like domain; Region: HTH_21; pfam13276 355278003058 Integrase core domain; Region: rve; cl01316 355278003059 Integrase core domain; Region: rve_3; cl15866 355278003060 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 355278003061 PAS domain; Region: PAS_9; pfam13426 355278003062 putative active site [active] 355278003063 heme pocket [chemical binding]; other site 355278003064 Histidine kinase; Region: HisKA_2; cl06527 355278003065 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 355278003066 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 355278003067 PAS fold; Region: PAS_3; pfam08447 355278003068 putative active site [active] 355278003069 heme pocket [chemical binding]; other site 355278003070 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 355278003071 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278003072 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278003073 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278003074 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278003075 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278003076 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 355278003077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 355278003078 Helix-turn-helix domains; Region: HTH; cl00088 355278003079 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 355278003080 dimerization interface [polypeptide binding]; other site 355278003081 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 355278003082 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 355278003083 substrate binding site [chemical binding]; other site 355278003084 ligand binding site [chemical binding]; other site 355278003085 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 355278003086 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 355278003087 substrate binding site [chemical binding]; other site 355278003088 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003089 dimer interface [polypeptide binding]; other site 355278003090 putative CheW interface [polypeptide binding]; other site 355278003091 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003092 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 355278003093 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003094 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003095 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 355278003096 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003097 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 355278003098 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003099 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003100 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278003101 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; cl12031 355278003102 YCII-related domain; Region: YCII; cl00999 355278003103 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 355278003104 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278003105 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278003106 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; cl00161 355278003107 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 355278003108 dimerization interface [polypeptide binding]; other site 355278003109 putative DNA binding site [nucleotide binding]; other site 355278003110 putative Zn2+ binding site [ion binding]; other site 355278003111 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355278003112 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355278003113 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 355278003114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003115 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 355278003116 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003118 dimer interface [polypeptide binding]; other site 355278003119 putative CheW interface [polypeptide binding]; other site 355278003120 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278003121 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278003122 active site 355278003123 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 355278003124 active site 355278003125 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 355278003126 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 355278003127 intersubunit interface [polypeptide binding]; other site 355278003128 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 355278003129 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003130 Walker A/P-loop; other site 355278003131 ATP binding site [chemical binding]; other site 355278003132 Q-loop/lid; other site 355278003133 ABC transporter signature motif; other site 355278003134 Walker B; other site 355278003135 D-loop; other site 355278003136 H-loop/switch region; other site 355278003137 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 355278003138 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278003139 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 355278003140 S-adenosylmethionine binding site [chemical binding]; other site 355278003141 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 355278003142 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 355278003143 TMP-binding site; other site 355278003144 ATP-binding site [chemical binding]; other site 355278003145 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 355278003146 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 355278003147 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 355278003148 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 355278003149 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 355278003150 FeS/SAM binding site; other site 355278003151 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278003152 inosine-5'-monophosphate dehydrogenase; Provisional; Region: PTZ00314 355278003153 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; cl09108 355278003154 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 key...; Region: CBS_pair_IMPDH_2; cd04602 355278003155 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 the guanine...; Region: IMPDH; cd00381 355278003156 active site 355278003157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 355278003158 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 355278003159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003160 Bacterial Ig-like domain; Region: Big_5; cl01012 355278003161 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 355278003162 MG2 domain; Region: A2M_N; pfam01835 355278003163 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 355278003164 Alpha-2-macroglobulin family; Region: A2M; pfam00207 355278003165 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355278003166 Sulfatase; Region: Sulfatase; cl10460 355278003167 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 355278003168 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278003169 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278003170 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 355278003171 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278003172 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278003173 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 355278003174 IMP binding site; other site 355278003175 dimer interface [polypeptide binding]; other site 355278003176 interdomain contacts; other site 355278003177 partial ornithine binding site; other site 355278003178 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 355278003179 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 355278003180 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 355278003181 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 355278003182 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 355278003183 minor groove reading motif; other site 355278003184 helix-hairpin-helix signature motif; other site 355278003185 substrate binding pocket [chemical binding]; other site 355278003186 active site 355278003187 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 355278003188 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 355278003189 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 355278003190 dimer interface [polypeptide binding]; other site 355278003191 phosphorylation site [posttranslational modification] 355278003192 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003193 ATP binding site [chemical binding]; other site 355278003194 Mg2+ binding site [ion binding]; other site 355278003195 G-X-G motif; other site 355278003196 Response regulator receiver domain; Region: Response_reg; pfam00072 355278003197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003198 active site 355278003199 phosphorylation site [posttranslational modification] 355278003200 intermolecular recognition site; other site 355278003201 dimerization interface [polypeptide binding]; other site 355278003202 Smr domain; Region: Smr; cl02619 355278003203 (R)-citramalate synthase; Provisional; Region: PRK09389 355278003204 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 355278003205 active site 355278003206 catalytic residues [active] 355278003207 metal binding site [ion binding]; metal-binding site 355278003208 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 355278003209 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 355278003210 putative active site [active] 355278003211 catalytic residue [active] 355278003212 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355278003213 recombination factor protein RarA; Reviewed; Region: PRK13342 355278003214 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278003215 Walker A motif; other site 355278003216 ATP binding site [chemical binding]; other site 355278003217 Walker B motif; other site 355278003218 arginine finger; other site 355278003219 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 355278003220 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 355278003221 NADH dehydrogenase subunit B; Provisional; Region: PRK14814 355278003222 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 355278003223 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 355278003224 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 355278003225 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 355278003226 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 355278003227 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 355278003228 putative dimer interface [polypeptide binding]; other site 355278003229 [2Fe-2S] cluster binding site [ion binding]; other site 355278003230 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 355278003231 SLBB domain; Region: SLBB; pfam10531 355278003232 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 355278003233 NADH dehydrogenase; Region: NADHdh; cl00469 355278003234 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 355278003235 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 355278003236 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 355278003237 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 355278003238 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 355278003239 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355278003240 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 355278003241 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 355278003242 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355278003243 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 355278003244 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355278003245 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 355278003246 Cupin domain; Region: Cupin_2; cl09118 355278003247 DHH family; Region: DHH; pfam01368 355278003248 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 355278003249 DHHA1 domain; Region: DHHA1; pfam02272 355278003250 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278003251 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278003252 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 355278003253 dimer interface [polypeptide binding]; other site 355278003254 substrate binding site [chemical binding]; other site 355278003255 metal binding sites [ion binding]; metal-binding site 355278003256 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278003257 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278003258 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 355278003259 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 355278003260 Helix-turn-helix domains; Region: HTH; cl00088 355278003261 LexA repressor; Validated; Region: PRK00215 355278003262 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 355278003263 Catalytic site [active] 355278003264 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 355278003265 C-terminal peptidase (prc); Region: prc; TIGR00225 355278003266 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 355278003267 protein binding site [polypeptide binding]; other site 355278003268 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 355278003269 Catalytic dyad [active] 355278003270 UGMP family protein; Validated; Region: PRK09604 355278003271 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 355278003272 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 355278003273 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 355278003274 anti sigma factor interaction site; other site 355278003275 regulatory phosphorylation site [posttranslational modification]; other site 355278003276 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278003277 glycerol kinase; Provisional; Region: glpK; PRK00047 355278003278 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 355278003279 N- and C-terminal domain interface [polypeptide binding]; other site 355278003280 active site 355278003281 MgATP binding site [chemical binding]; other site 355278003282 catalytic site [active] 355278003283 metal binding site [ion binding]; metal-binding site 355278003284 glycerol binding site [chemical binding]; other site 355278003285 homotetramer interface [polypeptide binding]; other site 355278003286 homodimer interface [polypeptide binding]; other site 355278003287 FBP binding site [chemical binding]; other site 355278003288 protein IIAGlc interface [polypeptide binding]; other site 355278003289 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 355278003290 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 355278003291 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 355278003292 active site 355278003293 NAD binding site [chemical binding]; other site 355278003294 metal binding site [ion binding]; metal-binding site 355278003295 seryl-tRNA synthetase; Provisional; Region: PRK05431 355278003296 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355278003297 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355278003298 NAD synthetase; Provisional; Region: PRK13981 355278003299 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 355278003300 multimer interface [polypeptide binding]; other site 355278003301 active site 355278003302 catalytic triad [active] 355278003303 protein interface 1 [polypeptide binding]; other site 355278003304 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 355278003305 Ligand Binding Site [chemical binding]; other site 355278003306 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 355278003307 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 355278003308 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 355278003309 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278003310 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 355278003311 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355278003312 catalytic residue [active] 355278003313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003314 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 355278003315 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278003316 GAF domain; Region: GAF; cl15785 355278003317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278003318 metal binding site [ion binding]; metal-binding site 355278003319 active site 355278003320 I-site; other site 355278003321 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 355278003322 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 355278003323 Ligand Binding Site [chemical binding]; other site 355278003324 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 355278003325 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278003326 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 355278003327 active site 355278003328 substrate binding site [chemical binding]; other site 355278003329 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 355278003330 FMN binding site [chemical binding]; other site 355278003331 putative catalytic residues [active] 355278003332 PilZ domain; Region: PilZ; cl01260 355278003333 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 355278003334 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278003335 active site 355278003336 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; cl16911 355278003337 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278003338 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278003339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355278003340 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 355278003341 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278003342 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355278003343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278003344 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 355278003345 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; cl16911 355278003346 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; cl02713 355278003347 active site 355278003348 metal binding site [ion binding]; metal-binding site 355278003349 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 355278003350 CoenzymeA binding site [chemical binding]; other site 355278003351 subunit interaction site [polypeptide binding]; other site 355278003352 PHB binding site; other site 355278003353 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 355278003354 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278003355 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278003356 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278003357 tryparedoxin peroxidase; Provisional; Region: PTZ00253 355278003358 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 355278003359 dimer interface [polypeptide binding]; other site 355278003360 decamer (pentamer of dimers) interface [polypeptide binding]; other site 355278003361 catalytic triad [active] 355278003362 peroxidatic and resolving cysteines [active] 355278003363 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 355278003364 FeS assembly protein SufB; Region: sufB; TIGR01980 355278003365 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 355278003366 Sulfatase; Region: Sulfatase; cl10460 355278003367 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 355278003368 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14465 355278003369 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 355278003370 FeS/SAM binding site; other site 355278003371 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278003372 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355278003373 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 355278003374 heme-binding residues [chemical binding]; other site 355278003375 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 355278003376 molybdopterin cofactor binding site; other site 355278003377 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 355278003378 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 355278003379 Polysulphide reductase, NrfD; Region: NrfD; cl01295 355278003380 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 355278003381 Cytochrome c; Region: Cytochrom_C; cl11414 355278003382 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278003383 Helix-turn-helix domains; Region: HTH; cl00088 355278003384 cyclase homology domain; Region: CHD; cd07302 355278003385 nucleotidyl binding site; other site 355278003386 metal binding site [ion binding]; metal-binding site 355278003387 dimer interface [polypeptide binding]; other site 355278003388 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003389 Family description; Region: UvrD_C_2; cl15862 355278003390 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 355278003391 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 355278003392 binding surface 355278003393 TPR motif; other site 355278003394 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 355278003395 enoyl-CoA hydratase; Provisional; Region: PRK06142 355278003396 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 355278003397 substrate binding site [chemical binding]; other site 355278003398 oxyanion hole (OAH) forming residues; other site 355278003399 trimer interface [polypeptide binding]; other site 355278003400 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 355278003401 DoxX; Region: DoxX; cl00976 355278003402 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278003403 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 355278003404 active site 355278003405 NTP binding site [chemical binding]; other site 355278003406 metal binding triad [ion binding]; metal-binding site 355278003407 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 355278003408 thiamine monophosphate kinase; Provisional; Region: PRK05731 355278003409 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 355278003410 ATP binding site [chemical binding]; other site 355278003411 dimerization interface [polypeptide binding]; other site 355278003412 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 355278003413 23S rRNA interface [nucleotide binding]; other site 355278003414 L3 interface [polypeptide binding]; other site 355278003415 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 355278003416 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 355278003417 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 355278003418 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 formation of...; Region: AlaRS_core; cd00673 355278003419 motif 1; other site 355278003420 active site 355278003421 motif 2; other site 355278003422 motif 3; other site 355278003423 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 355278003424 DHHA1 domain; Region: DHHA1; pfam02272 355278003425 Protein of unknown function (DUF520); Region: DUF520; cl00723 355278003426 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 355278003427 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003428 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 355278003429 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 355278003430 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 355278003431 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278003432 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 355278003433 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 355278003434 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355278003435 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 355278003436 FeS/SAM binding site; other site 355278003437 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 355278003438 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 355278003439 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 355278003440 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 355278003441 Preprotein translocase subunit; Region: YajC; cl00806 355278003442 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 355278003443 Protein export membrane protein; Region: SecD_SecF; cl14618 355278003444 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 355278003445 Protein export membrane protein; Region: SecD_SecF; cl14618 355278003446 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 355278003447 catalytic motif [active] 355278003448 Zn binding site [ion binding]; other site 355278003449 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; cl00161 355278003450 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 355278003451 Lumazine binding domain; Region: Lum_binding; pfam00677 355278003452 Lumazine binding domain; Region: Lum_binding; pfam00677 355278003453 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 355278003454 anti sigma factor interaction site; other site 355278003455 regulatory phosphorylation site [posttranslational modification]; other site 355278003456 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 355278003457 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 355278003458 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 355278003459 dimerization interface [polypeptide binding]; other site 355278003460 active site 355278003461 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 355278003462 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 355278003463 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 355278003464 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 355278003465 aspartate aminotransferase; Provisional; Region: PRK05764 355278003466 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 355278003467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003468 homodimer interface [polypeptide binding]; other site 355278003469 catalytic residue [active] 355278003470 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 355278003471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003472 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003473 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 355278003474 SmpB-tmRNA interface; other site 355278003475 GTP-binding protein Der; Reviewed; Region: PRK00093 355278003476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003477 G1 box; other site 355278003478 GTP/Mg2+ binding site [chemical binding]; other site 355278003479 G2 box; other site 355278003480 Switch I region; other site 355278003481 G3 box; other site 355278003482 Switch II region; other site 355278003483 G4 box; other site 355278003484 G5 box; other site 355278003485 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 355278003486 G1 box; other site 355278003487 GTP/Mg2+ binding site [chemical binding]; other site 355278003488 Switch I region; other site 355278003489 G2 box; other site 355278003490 G3 box; other site 355278003491 Switch II region; other site 355278003492 G4 box; other site 355278003493 G5 box; other site 355278003494 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 355278003495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 355278003496 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 355278003497 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 355278003498 Walker A/P-loop; other site 355278003499 ATP binding site [chemical binding]; other site 355278003500 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 355278003501 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 355278003502 ABC transporter signature motif; other site 355278003503 Walker B; other site 355278003504 D-loop; other site 355278003505 H-loop/switch region; other site 355278003506 glutamine synthetase, type I; Region: GlnA; TIGR00653 355278003507 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 355278003508 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 355278003509 GAF domain; Region: GAF_2; pfam13185 355278003510 GAF domain; Region: GAF; cl15785 355278003511 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278003512 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355278003513 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003514 active site 355278003515 phosphorylation site [posttranslational modification] 355278003516 intermolecular recognition site; other site 355278003517 dimerization interface [polypeptide binding]; other site 355278003518 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 355278003519 DNA binding site [nucleotide binding] 355278003520 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278003521 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 355278003522 dimer interface [polypeptide binding]; other site 355278003523 phosphorylation site [posttranslational modification] 355278003524 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003525 ATP binding site [chemical binding]; other site 355278003526 Mg2+ binding site [ion binding]; other site 355278003527 G-X-G motif; other site 355278003528 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 355278003529 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 355278003530 putative active site; other site 355278003531 catalytic residue [active] 355278003532 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 355278003533 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 355278003534 Protein of unknown function (DUF962); Region: DUF962; cl01879 355278003535 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 355278003536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 355278003537 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 355278003538 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 355278003539 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278003540 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278003541 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 355278003542 Transglycosylase; Region: Transgly; cl07896 355278003543 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278003544 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 355278003545 diaminopimelate decarboxylase; Provisional; Region: PRK11165 355278003546 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 355278003547 active site 355278003548 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355278003549 substrate binding site [chemical binding]; other site 355278003550 catalytic residues [active] 355278003551 dimer interface [polypeptide binding]; other site 355278003552 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 355278003553 substrate binding site; other site 355278003554 dimer interface; other site 355278003555 PilZ domain; Region: PilZ; cl01260 355278003556 PilZ domain; Region: PilZ; cl01260 355278003557 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 355278003558 ligand binding site [chemical binding]; other site 355278003559 flexible hinge region; other site 355278003560 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 355278003561 ligand binding site [chemical binding]; other site 355278003562 flexible hinge region; other site 355278003563 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 355278003564 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 355278003565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278003566 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 355278003567 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278003568 Family description; Region: VCBS; pfam13517 355278003569 FG-GAP repeat; Region: FG-GAP; cl15299 355278003570 Family description; Region: VCBS; pfam13517 355278003571 Family description; Region: VCBS; pfam13517 355278003572 FG-GAP repeat; Region: FG-GAP; cl15299 355278003573 FG-GAP repeat; Region: FG-GAP; cl15299 355278003574 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 355278003575 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 355278003576 Sporulation related domain; Region: SPOR; cl10051 355278003577 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 355278003578 dephospho-CoA kinase; Region: TIGR00152 355278003579 CoA-binding site [chemical binding]; other site 355278003580 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 becoming...; Region: Lipase; cl14883 355278003581 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278003582 nucleophilic elbow; other site 355278003583 catalytic triad; other site 355278003584 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 355278003585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 355278003586 DNA-binding site [nucleotide binding]; DNA binding site 355278003587 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 355278003588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003589 homodimer interface [polypeptide binding]; other site 355278003590 catalytic residue [active] 355278003591 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 355278003592 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 355278003593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003594 homodimer interface [polypeptide binding]; other site 355278003595 catalytic residue [active] 355278003596 FecR protein; Region: FecR; pfam04773 355278003597 MAEBL; Provisional; Region: PTZ00121 355278003598 lipoyl synthase; Provisional; Region: PRK05481 355278003599 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 355278003600 FeS/SAM binding site; other site 355278003601 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 355278003602 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 355278003603 RNA binding surface [nucleotide binding]; other site 355278003604 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 355278003605 active site 355278003606 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278003607 HPP family; Region: HPP; pfam04982 355278003608 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 355278003609 active site 355278003610 intersubunit interactions; other site 355278003611 catalytic residue [active] 355278003612 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 355278003613 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 355278003614 purine monophosphate binding site [chemical binding]; other site 355278003615 dimer interface [polypeptide binding]; other site 355278003616 putative catalytic residues [active] 355278003617 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 355278003618 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 355278003619 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 355278003620 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 355278003621 active site 355278003622 substrate binding site [chemical binding]; other site 355278003623 cosubstrate binding site; other site 355278003624 catalytic site [active] 355278003625 Flagellar protein FliS; Region: FliS; cl00654 355278003626 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 355278003627 HSP70 interaction site [polypeptide binding]; other site 355278003628 DctM-like transporters; Region: DctM; pfam06808 355278003629 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 355278003630 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 355278003631 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 355278003632 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 355278003633 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355278003634 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 355278003635 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278003636 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 355278003637 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278003638 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278003639 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278003640 N-terminal domain interface [polypeptide binding]; other site 355278003641 dimer interface [polypeptide binding]; other site 355278003642 substrate binding pocket (H-site) [chemical binding]; other site 355278003643 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355278003644 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 355278003645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003646 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 355278003647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 355278003648 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 355278003649 dimer interface [polypeptide binding]; other site 355278003650 phosphorylation site [posttranslational modification] 355278003651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003652 ATP binding site [chemical binding]; other site 355278003653 Mg2+ binding site [ion binding]; other site 355278003654 G-X-G motif; other site 355278003655 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 355278003656 PAS domain S-box; Region: sensory_box; TIGR00229 355278003657 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 355278003658 putative active site [active] 355278003659 heme pocket [chemical binding]; other site 355278003660 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 355278003661 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 355278003662 dimer interface [polypeptide binding]; other site 355278003663 phosphorylation site [posttranslational modification] 355278003664 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003665 ATP binding site [chemical binding]; other site 355278003666 Mg2+ binding site [ion binding]; other site 355278003667 G-X-G motif; other site 355278003668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003669 active site 355278003670 phosphorylation site [posttranslational modification] 355278003671 intermolecular recognition site; other site 355278003672 dimerization interface [polypeptide binding]; other site 355278003673 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 355278003674 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278003675 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003676 dimer interface [polypeptide binding]; other site 355278003677 putative CheW interface [polypeptide binding]; other site 355278003678 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278003679 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 355278003680 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003681 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 355278003682 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 355278003683 Active site serine [active] 355278003684 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 355278003685 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278003686 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 355278003687 dimer interface [polypeptide binding]; other site 355278003688 substrate binding site [chemical binding]; other site 355278003689 metal binding site [ion binding]; metal-binding site 355278003690 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 355278003691 Predicted integral membrane protein [Function unknown]; Region: COG0392 355278003692 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 355278003693 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 355278003694 nucleotide binding site/active site [active] 355278003695 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 355278003696 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 355278003697 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278003698 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 355278003699 Walker A/P-loop; other site 355278003700 ATP binding site [chemical binding]; other site 355278003701 Q-loop/lid; other site 355278003702 ABC transporter signature motif; other site 355278003703 Walker B; other site 355278003704 D-loop; other site 355278003705 H-loop/switch region; other site 355278003706 Restriction endonuclease; Region: Mrr_cat; cl00516 355278003707 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 355278003708 RuvA N terminal domain; Region: RuvA_N; pfam01330 355278003709 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 355278003710 ligand binding site [chemical binding]; other site 355278003711 flexible hinge region; other site 355278003712 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 355278003713 nucleophile elbow; other site 355278003714 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278003715 NlpC/P60 family; Region: NLPC_P60; cl11438 355278003716 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278003717 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 355278003718 active site 355278003719 nucleophile elbow; other site 355278003720 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; cl01155 355278003721 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 355278003722 Peptidase family M48; Region: Peptidase_M48; cl12018 355278003723 CHASE2 domain; Region: CHASE2; cl01732 355278003724 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278003725 cyclase homology domain; Region: CHD; cd07302 355278003726 nucleotidyl binding site; other site 355278003727 metal binding site [ion binding]; metal-binding site 355278003728 dimer interface [polypeptide binding]; other site 355278003729 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278003730 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 355278003731 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003732 dimer interface [polypeptide binding]; other site 355278003733 putative CheW interface [polypeptide binding]; other site 355278003734 Surface antigen; Region: Bac_surface_Ag; cl03097 355278003735 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 355278003736 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278003737 active site 355278003738 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278003739 Helix-turn-helix domains; Region: HTH; cl00088 355278003740 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 355278003741 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 355278003742 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 355278003743 putative substrate binding site [chemical binding]; other site 355278003744 putative ATP binding site [chemical binding]; other site 355278003745 ribosome maturation protein RimP; Reviewed; Region: PRK00092 355278003746 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 355278003747 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 355278003748 Sm1 motif; other site 355278003749 D1 - D2 interaction site; other site 355278003750 D3 - B interaction site; other site 355278003751 Hfq - Hfq interaction site; other site 355278003752 RNA binding pocket [nucleotide binding]; other site 355278003753 Sm2 motif; other site 355278003754 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 355278003755 NusA N-terminal domain; Region: NusA_N; pfam08529 355278003756 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 355278003757 RNA binding site [nucleotide binding]; other site 355278003758 homodimer interface [polypeptide binding]; other site 355278003759 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 355278003760 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 355278003761 G-X-X-G motif; other site 355278003762 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 355278003763 translation initiation factor IF-2; Region: IF-2; TIGR00487 355278003764 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 355278003765 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 355278003766 G1 box; other site 355278003767 putative GEF interaction site [polypeptide binding]; other site 355278003768 GTP/Mg2+ binding site [chemical binding]; other site 355278003769 Switch I region; other site 355278003770 G2 box; other site 355278003771 G3 box; other site 355278003772 Switch II region; other site 355278003773 G4 box; other site 355278003774 G5 box; other site 355278003775 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 355278003776 Translation-initiation factor 2; Region: IF-2; pfam11987 355278003777 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 355278003778 Ribosome-binding factor A; Region: RBFA; cl00542 355278003779 Pseudouridine synthase [Translation, ribosomal structure and biogenesis]; Region: TruB; COG0130 355278003780 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 355278003781 active site 355278003782 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 355278003783 16S/18S rRNA binding site [nucleotide binding]; other site 355278003784 S13e-L30e interaction site [polypeptide binding]; other site 355278003785 25S rRNA binding site [nucleotide binding]; other site 355278003786 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 355278003787 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 355278003788 RNase E interface [polypeptide binding]; other site 355278003789 trimer interface [polypeptide binding]; other site 355278003790 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 355278003791 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 355278003792 RNase E interface [polypeptide binding]; other site 355278003793 trimer interface [polypeptide binding]; other site 355278003794 active site 355278003795 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 355278003796 putative nucleic acid binding region [nucleotide binding]; other site 355278003797 G-X-X-G motif; other site 355278003798 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 355278003799 RNA binding site [nucleotide binding]; other site 355278003800 domain interface; other site 355278003801 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 355278003802 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278003803 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355278003804 Bacteriophage T4-like capsid assembly protein (Gp20); Region: Phage_T4_Gp20; pfam07230 355278003805 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 355278003806 trimer interface [polypeptide binding]; other site 355278003807 active site 355278003808 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12816 355278003809 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355278003810 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 355278003811 Flagellar L-ring protein; Region: FlgH; cl00905 355278003812 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 355278003813 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 355278003814 Rod binding protein; Region: Rod-binding; cl01626 355278003815 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 355278003816 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 355278003817 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 355278003818 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 355278003819 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 355278003820 S-adenosylmethionine binding site [chemical binding]; other site 355278003821 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 355278003822 S-adenosylmethionine binding site [chemical binding]; other site 355278003823 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 355278003824 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278003825 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 355278003826 RNA/DNA binding site [nucleotide binding]; other site 355278003827 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 355278003828 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 355278003829 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355278003830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278003831 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278003832 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 355278003833 putative NAD(P) binding site [chemical binding]; other site 355278003834 short chain dehydrogenase; Provisional; Region: PRK06179 355278003835 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 355278003836 NADP binding site [chemical binding]; other site 355278003837 active site 355278003838 steroid binding site; other site 355278003839 Helix-turn-helix domains; Region: HTH; cl00088 355278003840 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355278003841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003842 NAD(P) binding site [chemical binding]; other site 355278003843 active site 355278003844 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 355278003845 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 355278003846 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 355278003847 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 355278003848 PAS domain S-box; Region: sensory_box; TIGR00229 355278003849 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 355278003850 putative active site [active] 355278003851 heme pocket [chemical binding]; other site 355278003852 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 355278003853 putative active site [active] 355278003854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278003855 heme pocket [chemical binding]; other site 355278003856 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 355278003857 dimer interface [polypeptide binding]; other site 355278003858 phosphorylation site [posttranslational modification] 355278003859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003860 ATP binding site [chemical binding]; other site 355278003861 Mg2+ binding site [ion binding]; other site 355278003862 G-X-G motif; other site 355278003863 Response regulator receiver domain; Region: Response_reg; pfam00072 355278003864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003865 active site 355278003866 phosphorylation site [posttranslational modification] 355278003867 intermolecular recognition site; other site 355278003868 dimerization interface [polypeptide binding]; other site 355278003869 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 355278003870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003871 active site 355278003872 phosphorylation site [posttranslational modification] 355278003873 intermolecular recognition site; other site 355278003874 dimerization interface [polypeptide binding]; other site 355278003875 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278003876 Zn2+ binding site [ion binding]; other site 355278003877 Mg2+ binding site [ion binding]; other site 355278003878 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 355278003879 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 355278003880 intersubunit interface [polypeptide binding]; other site 355278003881 active site 355278003882 Zn2+ binding site [ion binding]; other site 355278003883 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278003884 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 355278003885 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 355278003886 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 355278003887 FliG C-terminal domain; Region: FliG_C; pfam01706 355278003888 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 355278003889 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 355278003890 E3 interaction surface; other site 355278003891 lipoyl attachment site [posttranslational modification]; other site 355278003892 e3 binding domain; Region: E3_binding; pfam02817 355278003893 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 355278003894 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 355278003895 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 355278003896 alpha subunit interface [polypeptide binding]; other site 355278003897 TPP binding site [chemical binding]; other site 355278003898 heterodimer interface [polypeptide binding]; other site 355278003899 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355278003900 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 355278003901 AMP binding site [chemical binding]; other site 355278003902 metal binding site [ion binding]; metal-binding site 355278003903 active site 355278003904 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 355278003905 GatB domain; Region: GatB_Yqey; cl11497 355278003906 CHC2 zinc finger; Region: zf-CHC2; cl15369 355278003907 DNA primase; Validated; Region: dnaG; PRK05667 355278003908 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 355278003909 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 355278003910 active site 355278003911 metal binding site [ion binding]; metal-binding site 355278003912 interdomain interaction site; other site 355278003913 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 355278003914 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 355278003915 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 355278003916 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278003917 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 355278003918 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 355278003919 DNA binding residues [nucleotide binding] 355278003920 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 355278003921 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 355278003922 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 355278003923 active site 355278003924 HIGH motif; other site 355278003925 dimer interface [polypeptide binding]; other site 355278003926 KMSKS motif; other site 355278003927 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; cl09940 355278003928 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 355278003929 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278003930 Protein export membrane protein; Region: SecD_SecF; cl14618 355278003931 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 355278003932 active site 355278003933 catalytic residues [active] 355278003934 metal binding site [ion binding]; metal-binding site 355278003935 GAF domain; Region: GAF; cl15785 355278003936 GAF domain; Region: GAF_2; pfam13185 355278003937 GAF domain; Region: GAF; cl15785 355278003938 GAF domain; Region: GAF_2; pfam13185 355278003939 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278003940 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278003941 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278003942 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278003943 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 355278003944 anti sigma factor interaction site; other site 355278003945 regulatory phosphorylation site [posttranslational modification]; other site 355278003946 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 355278003947 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 355278003948 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 355278003949 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 355278003950 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278003951 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 355278003952 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 355278003953 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 355278003954 carboxyltransferase (CT) interaction site; other site 355278003955 biotinylation site [posttranslational modification]; other site 355278003956 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355278003957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003958 active site 355278003959 phosphorylation site [posttranslational modification] 355278003960 intermolecular recognition site; other site 355278003961 dimerization interface [polypeptide binding]; other site 355278003962 CheB methylesterase; Region: CheB_methylest; pfam01339 355278003963 CheD chemotactic sensory transduction; Region: CheD; cl00810 355278003964 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 355278003965 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 355278003966 PAS domain; Region: PAS_9; pfam13426 355278003967 putative active site [active] 355278003968 heme pocket [chemical binding]; other site 355278003969 PAS domain; Region: PAS_9; pfam13426 355278003970 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 355278003971 putative active site [active] 355278003972 heme pocket [chemical binding]; other site 355278003973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003974 dimer interface [polypeptide binding]; other site 355278003975 putative CheW interface [polypeptide binding]; other site 355278003976 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 355278003977 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 355278003978 putative binding surface; other site 355278003979 active site 355278003980 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 355278003981 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003982 ATP binding site [chemical binding]; other site 355278003983 Mg2+ binding site [ion binding]; other site 355278003984 G-X-G motif; other site 355278003985 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 355278003986 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 355278003987 anti sigma factor interaction site; other site 355278003988 regulatory phosphorylation site [posttranslational modification]; other site 355278003989 Response regulator receiver domain; Region: Response_reg; pfam00072 355278003990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003991 active site 355278003992 phosphorylation site [posttranslational modification] 355278003993 intermolecular recognition site; other site 355278003994 dimerization interface [polypeptide binding]; other site 355278003995 Response regulator receiver domain; Region: Response_reg; pfam00072 355278003996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003997 active site 355278003998 phosphorylation site [posttranslational modification] 355278003999 intermolecular recognition site; other site 355278004000 dimerization interface [polypeptide binding]; other site 355278004001 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278004002 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 355278004003 dimer interface [polypeptide binding]; other site 355278004004 phosphorylation site [posttranslational modification] 355278004005 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278004006 ATP binding site [chemical binding]; other site 355278004007 Mg2+ binding site [ion binding]; other site 355278004008 G-X-G motif; other site 355278004009 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 355278004010 LytB protein; Region: LYTB; cl00507 355278004011 flagellin; Provisional; Region: PRK12804 355278004012 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278004013 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355278004014 threonine dehydratase; Validated; Region: PRK08639 355278004015 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 355278004016 tetramer interface [polypeptide binding]; other site 355278004017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004018 catalytic residue [active] 355278004019 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278004020 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 355278004021 S-adenosylmethionine binding site [chemical binding]; other site 355278004022 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 355278004023 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; cl12031 355278004024 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 355278004025 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 355278004026 homodimer interface [polypeptide binding]; other site 355278004027 substrate-cofactor binding pocket; other site 355278004028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004029 catalytic residue [active] 355278004030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 355278004031 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 355278004032 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 355278004033 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355278004034 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004035 Walker A motif; other site 355278004036 ATP binding site [chemical binding]; other site 355278004037 Walker B motif; other site 355278004038 arginine finger; other site 355278004039 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 355278004040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278004041 Predicted acetyltransferase [General function prediction only]; Region: COG3153 355278004042 Coenzyme A binding pocket [chemical binding]; other site 355278004043 RNHCP domain; Region: RNHCP; pfam12647 355278004044 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 355278004045 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 355278004046 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 355278004047 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 355278004048 Haem-binding domain; Region: Haem_bd; pfam14376 355278004049 argininosuccinate lyase; Provisional; Region: PRK00855 355278004050 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 355278004051 active sites [active] 355278004052 tetramer interface [polypeptide binding]; other site 355278004053 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 355278004054 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 355278004055 active site 355278004056 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 355278004057 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 355278004058 Sulfatase; Region: Sulfatase; cl10460 355278004059 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 355278004060 PQ loop repeat; Region: PQ-loop; cl12056 355278004061 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 355278004062 GMP synthase; Reviewed; Region: guaA; PRK00074 355278004063 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 355278004064 AMP/PPi binding site [chemical binding]; other site 355278004065 candidate oxyanion hole; other site 355278004066 catalytic triad [active] 355278004067 potential glutamine specificity residues [chemical binding]; other site 355278004068 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 355278004069 ATP Binding subdomain [chemical binding]; other site 355278004070 Ligand Binding sites [chemical binding]; other site 355278004071 Dimerization subdomain; other site 355278004072 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 355278004073 O-Antigen ligase; Region: Wzy_C; cl04850 355278004074 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 355278004075 putative metal binding site; other site 355278004076 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 355278004077 dimer interface [polypeptide binding]; other site 355278004078 active site 355278004079 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 355278004080 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355278004081 Walker A/P-loop; other site 355278004082 ATP binding site [chemical binding]; other site 355278004083 Q-loop/lid; other site 355278004084 ABC transporter signature motif; other site 355278004085 Walker B; other site 355278004086 D-loop; other site 355278004087 H-loop/switch region; other site 355278004088 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 355278004089 phosphopeptide binding site; other site 355278004090 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 355278004091 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 355278004092 substrate binding site [chemical binding]; other site 355278004093 ligand binding site [chemical binding]; other site 355278004094 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 355278004095 substrate binding site [chemical binding]; other site 355278004096 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 355278004097 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355278004098 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 355278004099 dimer interface [polypeptide binding]; other site 355278004100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004101 catalytic residue [active] 355278004102 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 355278004103 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 355278004104 ligand binding site [chemical binding]; other site 355278004105 flexible hinge region; other site 355278004106 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278004107 nucleophile elbow; other site 355278004108 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 355278004109 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 355278004110 Walker A/P-loop; other site 355278004111 ATP binding site [chemical binding]; other site 355278004112 Q-loop/lid; other site 355278004113 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 355278004114 ABC transporter signature motif; other site 355278004115 Walker B; other site 355278004116 D-loop; other site 355278004117 H-loop/switch region; other site 355278004118 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278004119 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355278004120 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 355278004121 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355278004122 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355278004123 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355278004124 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355278004125 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355278004126 Surface antigen; Region: Bac_surface_Ag; cl03097 355278004127 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 355278004128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278004129 Family description; Region: UvrD_C_2; cl15862 355278004130 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 cysteine...; Region: CysQ; cd01638 355278004131 active site 355278004132 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278004133 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 355278004134 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 355278004135 catalytic residues [active] 355278004136 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278004137 AMP-binding enzyme; Region: AMP-binding; cl15778 355278004138 AMP-binding enzyme; Region: AMP-binding; cl15778 355278004139 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 355278004140 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 355278004141 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 355278004142 putative ribose interaction site [chemical binding]; other site 355278004143 putative ADP binding site [chemical binding]; other site 355278004144 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278004145 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 355278004146 active site 355278004147 nucleotide binding site [chemical binding]; other site 355278004148 HIGH motif; other site 355278004149 KMSKS motif; other site 355278004150 CTP synthetase; Validated; Region: pyrG; PRK05380 355278004151 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 355278004152 Catalytic site [active] 355278004153 active site 355278004154 UTP binding site [chemical binding]; other site 355278004155 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 355278004156 active site 355278004157 putative oxyanion hole; other site 355278004158 catalytic triad [active] 355278004159 NeuB family; Region: NeuB; cl00496 355278004160 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 355278004161 OstA-like protein; Region: OstA; cl00844 355278004162 OstA-like protein; Region: OstA; cl00844 355278004163 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 355278004164 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 355278004165 Walker A/P-loop; other site 355278004166 ATP binding site [chemical binding]; other site 355278004167 Q-loop/lid; other site 355278004168 ABC transporter signature motif; other site 355278004169 Walker B; other site 355278004170 D-loop; other site 355278004171 H-loop/switch region; other site 355278004172 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 355278004173 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 355278004174 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 355278004175 HPr kinase/phosphorylase; Provisional; Region: PRK05428 355278004176 DRTGG domain; Region: DRTGG; cl12147 355278004177 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 355278004178 Hpr binding site; other site 355278004179 active site 355278004180 homohexamer subunit interaction site [polypeptide binding]; other site 355278004181 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 355278004182 regulatory protein interface [polypeptide binding]; other site 355278004183 active site 355278004184 regulatory phosphorylation site [posttranslational modification]; other site 355278004185 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 355278004186 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 355278004187 dimerization interface [polypeptide binding]; other site 355278004188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278004189 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 355278004190 dimer interface [polypeptide binding]; other site 355278004191 phosphorylation site [posttranslational modification] 355278004192 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278004193 ATP binding site [chemical binding]; other site 355278004194 Mg2+ binding site [ion binding]; other site 355278004195 G-X-G motif; other site 355278004196 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 355278004197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004198 active site 355278004199 phosphorylation site [posttranslational modification] 355278004200 intermolecular recognition site; other site 355278004201 dimerization interface [polypeptide binding]; other site 355278004202 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004203 Walker A motif; other site 355278004204 ATP binding site [chemical binding]; other site 355278004205 Walker B motif; other site 355278004206 arginine finger; other site 355278004207 Helix-turn-helix domains; Region: HTH; cl00088 355278004208 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 355278004209 primosome assembly protein PriA; Validated; Region: PRK05580 355278004210 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 355278004211 ATP binding site [chemical binding]; other site 355278004212 putative Mg++ binding site [ion binding]; other site 355278004213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278004214 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 355278004215 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 355278004216 putative active site [active] 355278004217 substrate binding site [chemical binding]; other site 355278004218 putative cosubstrate binding site; other site 355278004219 catalytic site [active] 355278004220 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 355278004221 substrate binding site [chemical binding]; other site 355278004222 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 355278004223 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 355278004224 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 355278004225 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 355278004226 substrate binding site [chemical binding]; other site 355278004227 hexamer interface [polypeptide binding]; other site 355278004228 metal binding site [ion binding]; metal-binding site 355278004229 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 355278004230 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 355278004231 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 355278004232 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14590 355278004233 RimM N-terminal domain; Region: RimM; pfam01782 355278004234 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 355278004235 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 355278004236 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 355278004237 RNA/DNA hybrid binding site [nucleotide binding]; other site 355278004238 active site 355278004239 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 355278004240 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278004241 Zn2+ binding site [ion binding]; other site 355278004242 Mg2+ binding site [ion binding]; other site 355278004243 Restriction endonuclease; Region: Mrr_cat; cl00516 355278004244 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 355278004245 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 355278004246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278004247 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 355278004248 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278004249 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278004250 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 355278004251 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 355278004252 type II secretion system protein D; Region: type_II_gspD; TIGR02517 355278004253 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 355278004254 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 355278004255 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 355278004256 type II secretion system protein E; Region: type_II_gspE; TIGR02533 355278004257 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 355278004258 Walker A motif; other site 355278004259 ATP binding site [chemical binding]; other site 355278004260 Walker B motif; other site 355278004261 type II secretion system protein F; Region: GspF; TIGR02120 355278004262 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 355278004263 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 355278004264 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355278004265 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 355278004266 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355278004267 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 355278004268 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355278004269 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 355278004270 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 355278004271 Cell division protein FtsA; Region: FtsA; cl11496 355278004272 AsmA-like C-terminal region; Region: AsmA_2; cl15864 355278004273 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 355278004274 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 355278004275 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355278004276 Transcriptional regulator; Region: Transcrip_reg; cl00361 355278004277 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 355278004278 active site 355278004279 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355278004280 TSCPD domain; Region: TSCPD; cl14834 355278004281 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 355278004282 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 355278004283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278004284 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278004285 Sulfate transporter family; Region: Sulfate_transp; cl15842 355278004286 Sulfate transporter family; Region: Sulfate_transp; cl15842 355278004287 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 355278004288 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 355278004289 active site clefts [active] 355278004290 zinc binding site [ion binding]; other site 355278004291 dimer interface [polypeptide binding]; other site 355278004292 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 355278004293 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 355278004294 putative Iron-sulfur protein interface [polypeptide binding]; other site 355278004295 proximal heme binding site [chemical binding]; other site 355278004296 distal heme binding site [chemical binding]; other site 355278004297 putative dimer interface [polypeptide binding]; other site 355278004298 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 355278004299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278004300 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355278004301 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 355278004302 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 355278004303 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 355278004304 active site 355278004305 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 355278004306 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 355278004307 GTP-binding protein LepA; Provisional; Region: PRK05433 355278004308 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 355278004309 G1 box; other site 355278004310 putative GEF interaction site [polypeptide binding]; other site 355278004311 GTP/Mg2+ binding site [chemical binding]; other site 355278004312 Switch I region; other site 355278004313 G2 box; other site 355278004314 G3 box; other site 355278004315 Switch II region; other site 355278004316 G4 box; other site 355278004317 G5 box; other site 355278004318 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 355278004319 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 355278004320 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 355278004321 enolase; Provisional; Region: eno; PRK00077 355278004322 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 355278004323 dimer interface [polypeptide binding]; other site 355278004324 metal binding site [ion binding]; metal-binding site 355278004325 substrate binding pocket [chemical binding]; other site 355278004326 Septum formation initiator; Region: DivIC; cl11433 355278004327 Clp protease; Region: CLP_protease; pfam00574 355278004328 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 355278004329 oligomer interface [polypeptide binding]; other site 355278004330 active site residues [active] 355278004331 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 355278004332 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 355278004333 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 355278004334 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 355278004335 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 355278004336 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 355278004337 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 355278004338 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 355278004339 anti sigma factor interaction site; other site 355278004340 regulatory phosphorylation site [posttranslational modification]; other site 355278004341 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 355278004342 non-specific DNA binding site [nucleotide binding]; other site 355278004343 salt bridge; other site 355278004344 sequence-specific DNA binding site [nucleotide binding]; other site 355278004345 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278004346 Aquifex aeolicus LeuT and related proteins; solute binding domain; Region: LeuT-like_sbd; cd10333 355278004347 Na2 binding site [ion binding]; other site 355278004348 substrate binding site 1 [chemical binding]; other site 355278004349 Na binding site 1 [ion binding]; other site 355278004350 substrate binding site 2 [chemical binding]; other site 355278004351 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 355278004352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278004353 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 355278004354 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 355278004355 Dimer interface [polypeptide binding]; other site 355278004356 anticodon binding site; other site 355278004357 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 355278004358 homodimer interface [polypeptide binding]; other site 355278004359 motif 1; other site 355278004360 motif 2; other site 355278004361 active site 355278004362 motif 3; other site 355278004363 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14177 355278004364 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 355278004365 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 355278004366 homodimer interface [polypeptide binding]; other site 355278004367 NADP binding site [chemical binding]; other site 355278004368 substrate binding site [chemical binding]; other site 355278004369 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 355278004370 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278004371 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 355278004372 active site 355278004373 HIGH motif; other site 355278004374 nucleotide binding site [chemical binding]; other site 355278004375 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278004376 active site 355278004377 KMSKS motif; other site 355278004378 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 355278004379 tRNA binding surface [nucleotide binding]; other site 355278004380 anticodon binding site; other site 355278004381 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355278004382 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 355278004383 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355278004384 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 355278004385 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; cl12031 355278004386 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 355278004387 Na binding site [ion binding]; other site 355278004388 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 355278004389 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 355278004390 substrate binding site [chemical binding]; other site 355278004391 glutamase interaction surface [polypeptide binding]; other site 355278004392 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 355278004393 Amidase; Region: Amidase; cl11426 355278004394 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 355278004395 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 355278004396 Bacterial sugar transferase; Region: Bac_transf; cl00939 355278004397 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 355278004398 Response regulator receiver domain; Region: Response_reg; pfam00072 355278004399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004400 active site 355278004401 phosphorylation site [posttranslational modification] 355278004402 intermolecular recognition site; other site 355278004403 dimerization interface [polypeptide binding]; other site 355278004404 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278004405 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 355278004406 dimer interface [polypeptide binding]; other site 355278004407 phosphorylation site [posttranslational modification] 355278004408 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 355278004409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278004410 Family description; Region: UvrD_C_2; cl15862 355278004411 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 355278004412 MORN repeat; Region: MORN; cl14787 355278004413 MORN repeat; Region: MORN; cl14787 355278004414 Peptidase family M48; Region: Peptidase_M48; cl12018 355278004415 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 355278004416 PAS domain; Region: PAS_9; pfam13426 355278004417 putative active site [active] 355278004418 heme pocket [chemical binding]; other site 355278004419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278004420 metal binding site [ion binding]; metal-binding site 355278004421 active site 355278004422 I-site; other site 355278004423 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 355278004424 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 355278004425 anti sigma factor interaction site; other site 355278004426 regulatory phosphorylation site [posttranslational modification]; other site 355278004427 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 355278004428 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278004429 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 355278004430 dimerization interface [polypeptide binding]; other site 355278004431 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278004432 Protease prsW family; Region: PrsW-protease; cl15823 355278004433 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 355278004434 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004435 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355278004436 Walker A motif; other site 355278004437 ATP binding site [chemical binding]; other site 355278004438 Walker B motif; other site 355278004439 arginine finger; other site 355278004440 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278004441 active site 355278004442 catalytic triad [active] 355278004443 dimer interface [polypeptide binding]; other site 355278004444 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 355278004445 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 355278004446 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278004447 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; cd05120 355278004448 active site 355278004449 ATP binding site [chemical binding]; other site 355278004450 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355278004451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278004452 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355278004453 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 355278004454 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278004455 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278004456 AIR carboxylase; Region: AIRC; cl00310 355278004457 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 355278004458 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278004459 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 355278004460 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355278004461 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278004462 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278004463 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 355278004464 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 355278004465 homodimer interface [polypeptide binding]; other site 355278004466 active site 355278004467 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355278004468 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 355278004469 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 355278004470 Mg++ binding site [ion binding]; other site 355278004471 putative catalytic motif [active] 355278004472 putative substrate binding site [chemical binding]; other site 355278004473 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 355278004474 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278004475 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278004476 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 355278004477 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; cl16911 355278004478 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 355278004479 nucleotide binding site/active site [active] 355278004480 HIT family signature motif; other site 355278004481 catalytic residue [active] 355278004482 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 355278004483 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 355278004484 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; cl16911 355278004485 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 355278004486 NMT1-like family; Region: NMT1_2; cl15260 355278004487 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 355278004488 GAF domain; Region: GAF_2; pfam13185 355278004489 GAF domain; Region: GAF; cl15785 355278004490 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278004491 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278004492 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 355278004493 binding surface 355278004494 TPR motif; other site 355278004495 TPR repeat; Region: TPR_11; pfam13414 355278004496 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG4871 355278004497 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 355278004498 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 355278004499 G1 box; other site 355278004500 putative GEF interaction site [polypeptide binding]; other site 355278004501 GTP/Mg2+ binding site [chemical binding]; other site 355278004502 Switch I region; other site 355278004503 G2 box; other site 355278004504 G3 box; other site 355278004505 Switch II region; other site 355278004506 G4 box; other site 355278004507 G5 box; other site 355278004508 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 355278004509 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 355278004510 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 355278004511 Protein of unknown function (DUF464); Region: DUF464; cl01080 355278004512 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 355278004513 GTPase CgtA; Reviewed; Region: obgE; PRK12299 355278004514 GTP1/OBG; Region: GTP1_OBG; pfam01018 355278004515 Obg GTPase; Region: Obg; cd01898 355278004516 G1 box; other site 355278004517 GTP/Mg2+ binding site [chemical binding]; other site 355278004518 Switch I region; other site 355278004519 G2 box; other site 355278004520 G3 box; other site 355278004521 Switch II region; other site 355278004522 G4 box; other site 355278004523 G5 box; other site 355278004524 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 355278004525 nucleotide binding site [chemical binding]; other site 355278004526 homotetrameric interface [polypeptide binding]; other site 355278004527 putative phosphate binding site [ion binding]; other site 355278004528 putative allosteric binding site; other site 355278004529 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 355278004530 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 355278004531 putative catalytic cysteine [active] 355278004532 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 355278004533 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 355278004534 active site 355278004535 (T/H)XGH motif; other site 355278004536 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 355278004537 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278004538 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 355278004539 Oligomerisation domain; Region: Oligomerisation; cl00519 355278004540 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 355278004541 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 355278004542 catalytic residues [active] 355278004543 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278004544 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 355278004545 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 355278004546 metal binding site [ion binding]; metal-binding site 355278004547 dimer interface [polypeptide binding]; other site 355278004548 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278004549 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 355278004550 substrate binding site [chemical binding]; other site 355278004551 oxyanion hole (OAH) forming residues; other site 355278004552 trimer interface [polypeptide binding]; other site 355278004553 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278004554 Helix-turn-helix domains; Region: HTH; cl00088 355278004555 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 355278004556 proline aminopeptidase P II; Provisional; Region: PRK10879 355278004557 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 355278004558 active site 355278004559 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 355278004560 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 355278004561 putative active site [active] 355278004562 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 355278004563 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 355278004564 active site 355278004565 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 355278004566 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 355278004567 heme binding site [chemical binding]; other site 355278004568 ferroxidase pore; other site 355278004569 ferroxidase diiron center [ion binding]; other site 355278004570 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 355278004571 THUMP domain; Region: THUMP; cl12076 355278004572 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; cl16911 355278004573 acetylglutamate kinase; Provisional; Region: PRK04531 355278004574 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 355278004575 nucleotide binding site [chemical binding]; other site 355278004576 substrate binding site [chemical binding]; other site 355278004577 DUF619 domain of various N-acetylglutamate Kinases and N-acetylglutamate Synthases; Region: DUF619-like; cl14605 355278004578 Protein of unknown function, DUF393; Region: DUF393; cl01136 355278004579 Domain of Unknown Function with PDB structure (DUF3865); Region: DUF3865; pfam12981 355278004580 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278004581 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 355278004582 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 355278004583 FeS/SAM binding site; other site 355278004584 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 355278004585 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 355278004586 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 355278004587 motif II; other site 355278004588 Sporulation and spore germination; Region: Germane; cl11253 355278004589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278004590 metal binding site [ion binding]; metal-binding site 355278004591 active site 355278004592 I-site; other site 355278004593 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 355278004594 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 355278004595 FeS/SAM binding site; other site 355278004596 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 355278004597 Cysteine-rich domain; Region: CCG; pfam02754 355278004598 Cysteine-rich domain; Region: CCG; pfam02754 355278004599 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278004600 FecR protein; Region: FecR; pfam04773 355278004601 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278004602 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 355278004603 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 355278004604 G1 box; other site 355278004605 putative GEF interaction site [polypeptide binding]; other site 355278004606 GTP/Mg2+ binding site [chemical binding]; other site 355278004607 Switch I region; other site 355278004608 G2 box; other site 355278004609 G3 box; other site 355278004610 Switch II region; other site 355278004611 G4 box; other site 355278004612 G5 box; other site 355278004613 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 355278004614 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 355278004615 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278004616 binding surface 355278004617 TPR motif; other site 355278004618 Uncharacterized conserved protein [Function unknown]; Region: COG3391 355278004619 NHL repeat; Region: NHL; pfam01436 355278004620 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 355278004621 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 355278004622 binding surface 355278004623 TPR motif; other site 355278004624 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 355278004625 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278004626 TPR motif; other site 355278004627 binding surface 355278004628 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278004629 hydrophobic ligand binding site; other site 355278004630 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 355278004631 active site 355278004632 dimer interfaces [polypeptide binding]; other site 355278004633 catalytic residues [active] 355278004634 chromosome segregation protein; Provisional; Region: PRK02224 355278004635 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355278004636 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355278004637 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14332 355278004638 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355278004639 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 355278004640 FeS/SAM binding site; other site 355278004641 TRAM domain; Region: TRAM; cl01282 355278004642 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; cl02542 355278004643 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278004644 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278004645 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 355278004646 PUA domain; Region: PUA; cl00607 355278004647 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 355278004648 putative RNA binding site [nucleotide binding]; other site 355278004649 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; cl16911 355278004650 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278004651 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 355278004652 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278004653 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278004654 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 355278004655 TPR motif; other site 355278004656 binding surface 355278004657 Bacitracin resistance protein BacA; Region: BacA; cl00858 355278004658 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 355278004659 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 355278004660 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 355278004661 ATP binding site [chemical binding]; other site 355278004662 putative Mg++ binding site [ion binding]; other site 355278004663 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 355278004664 nucleotide binding region [chemical binding]; other site 355278004665 ATP-binding site [chemical binding]; other site 355278004666 TRCF domain; Region: TRCF; cl04088 355278004667 pantoate--beta-alanine ligase; Region: panC; TIGR00018 355278004668 Pantoate-beta-alanine ligase; Region: PanC; cd00560 355278004669 active site 355278004670 ATP-binding site [chemical binding]; other site 355278004671 pantoate-binding site; other site 355278004672 HXXH motif; other site 355278004673 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 355278004674 histidinol dehydrogenase; Region: hisD; TIGR00069 355278004675 NAD binding site [chemical binding]; other site 355278004676 dimerization interface [polypeptide binding]; other site 355278004677 product binding site; other site 355278004678 substrate binding site [chemical binding]; other site 355278004679 zinc binding site [ion binding]; other site 355278004680 catalytic residues [active] 355278004681 FecR protein; Region: FecR; pfam04773 355278004682 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 355278004683 dimerization interface [polypeptide binding]; other site 355278004684 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278004685 cyclase homology domain; Region: CHD; cd07302 355278004686 nucleotidyl binding site; other site 355278004687 metal binding site [ion binding]; metal-binding site 355278004688 dimer interface [polypeptide binding]; other site 355278004689 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 355278004690 putative catalytic site [active] 355278004691 putative metal binding site [ion binding]; other site 355278004692 putative phosphate binding site [ion binding]; other site 355278004693 Late embryogenesis abundant protein; Region: LEA_2; cl12118 355278004694 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 355278004695 MgtE intracellular N domain; Region: MgtE_N; cl15244 355278004696 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 355278004697 Divalent cation transporter; Region: MgtE; cl00786 355278004698 hypothetical protein; Validated; Region: PRK09039 355278004699 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278004700 ligand binding site [chemical binding]; other site 355278004701 Cation efflux family; Region: Cation_efflux; cl00316 355278004702 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278004703 Acyl-CoA dehydrogenase, middle domain; Region: Acyl-CoA_dh_M; pfam02770 355278004704 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 355278004705 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 355278004706 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 355278004707 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 355278004708 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 355278004709 active site 355278004710 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 355278004711 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355278004712 tandem repeat interface [polypeptide binding]; other site 355278004713 oligomer interface [polypeptide binding]; other site 355278004714 active site residues [active] 355278004715 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 355278004716 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 355278004717 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 355278004718 active site 355278004719 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 355278004720 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 355278004721 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 355278004722 active site 355278004723 catalytic site [active] 355278004724 2-isopropylmalate synthase; Validated; Region: PRK00915 355278004725 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 355278004726 active site 355278004727 catalytic residues [active] 355278004728 metal binding site [ion binding]; metal-binding site 355278004729 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 355278004730 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 355278004731 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 355278004732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004733 homodimer interface [polypeptide binding]; other site 355278004734 catalytic residue [active] 355278004735 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 355278004736 putative dimer interface [polypeptide binding]; other site 355278004737 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 355278004738 putative dimer interface [polypeptide binding]; other site 355278004739 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 355278004740 homotrimer interaction site [polypeptide binding]; other site 355278004741 putative active site [active] 355278004742 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 355278004743 Clp amino terminal domain; Region: Clp_N; pfam02861 355278004744 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004745 Walker A motif; other site 355278004746 ATP binding site [chemical binding]; other site 355278004747 Walker B motif; other site 355278004748 arginine finger; other site 355278004749 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004750 Walker A motif; other site 355278004751 ATP binding site [chemical binding]; other site 355278004752 Walker B motif; other site 355278004753 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355278004754 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 355278004755 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278004756 Protein of unknown function, DUF482; Region: DUF482; pfam04339 355278004757 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 355278004758 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 355278004759 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 355278004760 dimerization interface [polypeptide binding]; other site 355278004761 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278004762 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 355278004763 binding surface 355278004764 TPR motif; other site 355278004765 TPR repeat; Region: TPR_11; pfam13414 355278004766 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355278004767 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 355278004768 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 355278004769 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 355278004770 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 355278004771 generic binding surface II; other site 355278004772 generic binding surface I; other site 355278004773 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 355278004774 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 355278004775 Na binding site [ion binding]; other site 355278004776 putative glycosylation site [posttranslational modification]; other site 355278004777 putative glycosylation site [posttranslational modification]; other site 355278004778 D-alanyl-alanine synthetase A; Provisional; Region: PRK14572 355278004779 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 355278004780 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278004781 Permease; Region: Permease; cl00510 355278004782 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 355278004783 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 355278004784 Walker A/P-loop; other site 355278004785 ATP binding site [chemical binding]; other site 355278004786 Q-loop/lid; other site 355278004787 ABC transporter signature motif; other site 355278004788 Walker B; other site 355278004789 D-loop; other site 355278004790 H-loop/switch region; other site 355278004791 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 355278004792 mce related protein; Region: MCE; pfam02470 355278004793 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 355278004794 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 355278004795 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 355278004796 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 355278004797 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 355278004798 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; cl09155 355278004799 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 355278004800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 355278004801 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 355278004802 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 355278004803 flagellin; Provisional; Region: PRK12804 355278004804 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278004805 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355278004806 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278004807 ligand binding site [chemical binding]; other site 355278004808 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 355278004809 Voltage-dependent potassium channel; Provisional; Region: PLN03192 355278004810 Ion channel; Region: Ion_trans_2; cl11596 355278004811 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 355278004812 ligand binding site [chemical binding]; other site 355278004813 flexible hinge region; other site 355278004814 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 355278004815 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 355278004816 P-loop; other site 355278004817 Magnesium ion binding site [ion binding]; other site 355278004818 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 355278004819 Magnesium ion binding site [ion binding]; other site 355278004820 YopX protein; Region: YopX; cl09859 355278004821 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278004822 AMP-binding enzyme; Region: AMP-binding; cl15778 355278004823 AMP-binding enzyme; Region: AMP-binding; cl15778 355278004824 aminopeptidase N; Provisional; Region: pepN; PRK14015 355278004825 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 355278004826 active site 355278004827 Zn binding site [ion binding]; other site 355278004828 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 355278004829 RNA/DNA binding site [nucleotide binding]; other site 355278004830 RRM dimerization site [polypeptide binding]; other site 355278004831 Response regulator receiver domain; Region: Response_reg; pfam00072 355278004832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004833 active site 355278004834 phosphorylation site [posttranslational modification] 355278004835 intermolecular recognition site; other site 355278004836 dimerization interface [polypeptide binding]; other site 355278004837 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 355278004838 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 355278004839 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 355278004840 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 355278004841 N-terminal plug; other site 355278004842 ligand-binding site [chemical binding]; other site 355278004843 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 355278004844 Spore germination protein; Region: Spore_permease; cl15802 355278004845 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 355278004846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278004847 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 355278004848 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 355278004849 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 355278004850 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 355278004851 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 355278004852 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 355278004853 dimer interface [polypeptide binding]; other site 355278004854 putative anticodon binding site; other site 355278004855 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 355278004856 motif 1; other site 355278004857 active site 355278004858 motif 2; other site 355278004859 motif 3; other site 355278004860 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 355278004861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278004862 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 355278004863 L-serine binding site [chemical binding]; other site 355278004864 ACT domain interface; other site 355278004865 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 355278004866 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278004867 MAPEG family; Region: MAPEG; cl09190 355278004868 Endonuclease I; Region: Endonuclease_1; cl01003 355278004869 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 355278004870 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278004871 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278004872 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 355278004873 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 355278004874 active site residue [active] 355278004875 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355278004876 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 355278004877 Walker A/P-loop; other site 355278004878 ATP binding site [chemical binding]; other site 355278004879 Q-loop/lid; other site 355278004880 ABC transporter signature motif; other site 355278004881 Walker B; other site 355278004882 D-loop; other site 355278004883 H-loop/switch region; other site 355278004884 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355278004885 BolA-like protein; Region: BolA; cl00386 355278004886 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278004887 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278004888 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278004889 N-terminal domain interface [polypeptide binding]; other site 355278004890 dimer interface [polypeptide binding]; other site 355278004891 substrate binding pocket (H-site) [chemical binding]; other site 355278004892 BolA-like protein; Region: BolA; cl00386 355278004893 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 355278004894 putative GSH binding site [chemical binding]; other site 355278004895 catalytic residues [active] 355278004896 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278004897 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 355278004898 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278004899 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 355278004900 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 355278004901 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 355278004902 Domain of unknown function DUF59; Region: DUF59; cl00941 355278004903 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 355278004904 active site 355278004905 trimerization site [polypeptide binding]; other site 355278004906 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 355278004907 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 355278004908 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278004909 catalytic residue [active] 355278004910 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 355278004911 [2Fe-2S] cluster binding site [ion binding]; other site 355278004912 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 355278004913 FeS assembly ATPase SufC; Region: sufC; TIGR01978 355278004914 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 355278004915 Walker A/P-loop; other site 355278004916 ATP binding site [chemical binding]; other site 355278004917 Q-loop/lid; other site 355278004918 ABC transporter signature motif; other site 355278004919 Walker B; other site 355278004920 D-loop; other site 355278004921 H-loop/switch region; other site 355278004922 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 355278004923 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 355278004924 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 355278004925 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 355278004926 ligand binding site; other site 355278004927 oligomer interface; other site 355278004928 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 355278004929 dimer interface [polypeptide binding]; other site 355278004930 N-terminal domain interface [polypeptide binding]; other site 355278004931 sulfate 1 binding site; other site 355278004932 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 355278004933 putative active site [active] 355278004934 catalytic triad [active] 355278004935 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 355278004936 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 355278004937 ATP binding site [chemical binding]; other site 355278004938 active site 355278004939 substrate binding site [chemical binding]; other site 355278004940 Response regulator receiver domain; Region: Response_reg; pfam00072 355278004941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004942 active site 355278004943 phosphorylation site [posttranslational modification] 355278004944 intermolecular recognition site; other site 355278004945 dimerization interface [polypeptide binding]; other site 355278004946 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278004947 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 355278004948 CcmB protein; Region: CcmB; cl01016 355278004949 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 355278004950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278004951 Walker A/P-loop; other site 355278004952 ATP binding site [chemical binding]; other site 355278004953 Q-loop/lid; other site 355278004954 ABC transporter signature motif; other site 355278004955 Walker B; other site 355278004956 D-loop; other site 355278004957 H-loop/switch region; other site 355278004958 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 355278004959 binding surface 355278004960 TPR motif; other site 355278004961 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 355278004962 binding surface 355278004963 TPR motif; other site 355278004964 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 355278004965 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355278004966 Walker A/P-loop; other site 355278004967 ATP binding site [chemical binding]; other site 355278004968 Q-loop/lid; other site 355278004969 ABC transporter signature motif; other site 355278004970 Walker B; other site 355278004971 D-loop; other site 355278004972 H-loop/switch region; other site 355278004973 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 355278004974 active site 355278004975 catalytic residues [active] 355278004976 metal binding site [ion binding]; metal-binding site 355278004977 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 355278004978 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 355278004979 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 355278004980 GDP-binding site [chemical binding]; other site 355278004981 ACT binding site; other site 355278004982 IMP binding site; other site 355278004983 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 355278004984 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 ATP-dependent...; Region: HisRS-like_core; cd00773 355278004985 dimer interface [polypeptide binding]; other site 355278004986 motif 1; other site 355278004987 active site 355278004988 motif 2; other site 355278004989 motif 3; other site 355278004990 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278004991 putative acyl-acceptor binding pocket; other site 355278004992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278004993 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 355278004994 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355278004995 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 355278004996 PAS domain; Region: PAS_9; pfam13426 355278004997 putative active site [active] 355278004998 heme pocket [chemical binding]; other site 355278004999 PAS domain S-box; Region: sensory_box; TIGR00229 355278005000 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 355278005001 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278005002 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 355278005003 dimer interface [polypeptide binding]; other site 355278005004 phosphorylation site [posttranslational modification] 355278005005 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 355278005006 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005007 ATP binding site [chemical binding]; other site 355278005008 Mg2+ binding site [ion binding]; other site 355278005009 G-X-G motif; other site 355278005010 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 355278005011 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 355278005012 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 355278005013 alphaNTD - beta interaction site [polypeptide binding]; other site 355278005014 alphaNTD homodimer interface [polypeptide binding]; other site 355278005015 alphaNTD - beta' interaction site [polypeptide binding]; other site 355278005016 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 355278005017 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 355278005018 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 355278005019 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 355278005020 RNA binding surface [nucleotide binding]; other site 355278005021 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 355278005022 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 355278005023 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 355278005024 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 355278005025 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 355278005026 rRNA binding site [nucleotide binding]; other site 355278005027 predicted 30S ribosome binding site; other site 355278005028 adenylate kinase; Provisional; Region: PRK14528 355278005029 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 355278005030 AMP-binding site [chemical binding]; other site 355278005031 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 355278005032 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 355278005033 SecY translocase; Region: SecY; pfam00344 355278005034 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 355278005035 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 355278005036 23S rRNA binding site [nucleotide binding]; other site 355278005037 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 355278005038 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 355278005039 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 355278005040 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 355278005041 5S rRNA interface [nucleotide binding]; other site 355278005042 L27 interface [polypeptide binding]; other site 355278005043 23S rRNA interface [nucleotide binding]; other site 355278005044 L5 interface [polypeptide binding]; other site 355278005045 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 355278005046 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355278005047 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355278005048 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 355278005049 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 355278005050 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 355278005051 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 355278005052 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 355278005053 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 355278005054 KOW motif; Region: KOW; cl00354 355278005055 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 355278005056 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 355278005057 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; cl09943 355278005058 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 355278005059 23S rRNA interface [nucleotide binding]; other site 355278005060 5S rRNA interface [nucleotide binding]; other site 355278005061 putative antibiotic binding site [chemical binding]; other site 355278005062 L25 interface [polypeptide binding]; other site 355278005063 L27 interface [polypeptide binding]; other site 355278005064 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 355278005065 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 355278005066 G-X-X-G motif; other site 355278005067 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 355278005068 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 355278005069 putative translocon binding site; other site 355278005070 protein-rRNA interface [nucleotide binding]; other site 355278005071 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 355278005072 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 355278005073 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 355278005074 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 355278005075 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 355278005076 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 355278005077 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 355278005078 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 355278005079 elongation factor Tu; Reviewed; Region: PRK00049 355278005080 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 355278005081 G1 box; other site 355278005082 GEF interaction site [polypeptide binding]; other site 355278005083 GTP/Mg2+ binding site [chemical binding]; other site 355278005084 Switch I region; other site 355278005085 G2 box; other site 355278005086 G3 box; other site 355278005087 Switch II region; other site 355278005088 G4 box; other site 355278005089 G5 box; other site 355278005090 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 355278005091 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 355278005092 Antibiotic Binding Site [chemical binding]; other site 355278005093 elongation factor G; Reviewed; Region: PRK13351 355278005094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005095 G1 box; other site 355278005096 GTP/Mg2+ binding site [chemical binding]; other site 355278005097 G2 box; other site 355278005098 Switch I region; other site 355278005099 G3 box; other site 355278005100 Switch II region; other site 355278005101 G4 box; other site 355278005102 G5 box; other site 355278005103 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 355278005104 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 355278005105 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 355278005106 S17 interaction site [polypeptide binding]; other site 355278005107 S8 interaction site; other site 355278005108 16S rRNA interaction site [nucleotide binding]; other site 355278005109 streptomycin interaction site [chemical binding]; other site 355278005110 23S rRNA interaction site [nucleotide binding]; other site 355278005111 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 355278005112 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 355278005113 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 355278005114 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 355278005115 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 355278005116 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 355278005117 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 355278005118 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 355278005119 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 355278005120 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 355278005121 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 355278005122 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 355278005123 DNA binding site [nucleotide binding] 355278005124 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 355278005125 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 355278005126 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; cl04593 355278005127 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 355278005128 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 355278005129 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 355278005130 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 355278005131 RPB10 interaction site [polypeptide binding]; other site 355278005132 RPB1 interaction site [polypeptide binding]; other site 355278005133 RPB11 interaction site [polypeptide binding]; other site 355278005134 RPB3 interaction site [polypeptide binding]; other site 355278005135 RPB12 interaction site [polypeptide binding]; other site 355278005136 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 355278005137 core dimer interface [polypeptide binding]; other site 355278005138 peripheral dimer interface [polypeptide binding]; other site 355278005139 L10 interface [polypeptide binding]; other site 355278005140 L11 interface [polypeptide binding]; other site 355278005141 putative EF-Tu interaction site [polypeptide binding]; other site 355278005142 putative EF-G interaction site [polypeptide binding]; other site 355278005143 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 355278005144 23S rRNA interface [nucleotide binding]; other site 355278005145 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 355278005146 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 355278005147 mRNA/rRNA interface [nucleotide binding]; other site 355278005148 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 355278005149 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 355278005150 23S rRNA interface [nucleotide binding]; other site 355278005151 L7/L12 interface [polypeptide binding]; other site 355278005152 putative thiostrepton binding site; other site 355278005153 L25 interface [polypeptide binding]; other site 355278005154 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 355278005155 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 355278005156 putative homodimer interface [polypeptide binding]; other site 355278005157 KOW motif; Region: KOW; cl00354 355278005158 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 355278005159 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355278005160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005161 NAD(P) binding site [chemical binding]; other site 355278005162 active site 355278005163 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 355278005164 dimerization interface [polypeptide binding]; other site 355278005165 putative DNA binding site [nucleotide binding]; other site 355278005166 putative Zn2+ binding site [ion binding]; other site 355278005167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005168 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 355278005169 NAD(P) binding site [chemical binding]; other site 355278005170 active site 355278005171 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 355278005172 Uncharacterized conserved protein [Function unknown]; Region: COG4850 355278005173 OpgC protein; Region: OpgC_C; cl00792 355278005174 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 355278005175 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 355278005176 Ligand binding site; other site 355278005177 Putative Catalytic site; other site 355278005178 DXD motif; other site 355278005179 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355278005180 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278005181 Ligand binding site; other site 355278005182 Putative Catalytic site; other site 355278005183 DXD motif; other site 355278005184 O-Antigen ligase; Region: Wzy_C; cl04850 355278005185 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278005186 Ligand binding site; other site 355278005187 Putative Catalytic site; other site 355278005188 DXD motif; other site 355278005189 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 355278005190 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 355278005191 active site 355278005192 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 355278005193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005194 UDP-galactopyranose mutase; Region: GLF; pfam03275 355278005195 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 355278005196 metal-binding site 355278005197 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 355278005198 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 355278005199 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 355278005200 metal-binding site 355278005201 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 355278005202 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 355278005203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005204 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 355278005205 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 355278005206 active site 355278005207 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278005208 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 355278005209 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 355278005210 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 355278005211 inhibitor-cofactor binding pocket; inhibition site 355278005212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005213 catalytic residue [active] 355278005214 Cupin domain; Region: Cupin_2; cl09118 355278005215 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; cl16911 355278005216 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 355278005217 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; cl16911 355278005218 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 355278005219 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 355278005220 Walker A/P-loop; other site 355278005221 ATP binding site [chemical binding]; other site 355278005222 Q-loop/lid; other site 355278005223 ABC transporter signature motif; other site 355278005224 Walker B; other site 355278005225 D-loop; other site 355278005226 H-loop/switch region; other site 355278005227 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355278005228 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 355278005229 trimer interface [polypeptide binding]; other site 355278005230 active site 355278005231 substrate binding site [chemical binding]; other site 355278005232 CoA binding site [chemical binding]; other site 355278005233 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 355278005234 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 355278005235 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 355278005236 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278005237 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 355278005238 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 355278005239 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 355278005240 inhibitor-cofactor binding pocket; inhibition site 355278005241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005242 catalytic residue [active] 355278005243 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355278005244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005245 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355278005246 ligand binding site; other site 355278005247 pseudaminic acid synthase; Region: PseI; TIGR03586 355278005248 NeuB family; Region: NeuB; cl00496 355278005249 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 355278005250 NeuB binding interface [polypeptide binding]; other site 355278005251 putative substrate binding site [chemical binding]; other site 355278005252 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_1; cd08821 355278005253 putative active site [active] 355278005254 putative substrate binding site [chemical binding]; other site 355278005255 putative cosubstrate binding site; other site 355278005256 catalytic site [active] 355278005257 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 355278005258 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 355278005259 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 355278005260 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278005261 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 355278005262 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355278005263 ligand binding site; other site 355278005264 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 355278005265 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 355278005266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278005267 catalytic residue [active] 355278005268 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 355278005269 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278005270 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 355278005271 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 355278005272 active site 355278005273 catalytic tetrad [active] 355278005274 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278005275 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 355278005276 inhibitor-cofactor binding pocket; inhibition site 355278005277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005278 catalytic residue [active] 355278005279 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 355278005280 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 355278005281 NAD(P) binding site [chemical binding]; other site 355278005282 homodimer interface [polypeptide binding]; other site 355278005283 substrate binding site [chemical binding]; other site 355278005284 active site 355278005285 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 355278005286 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 355278005287 NADP binding site [chemical binding]; other site 355278005288 active site 355278005289 putative substrate binding site [chemical binding]; other site 355278005290 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 355278005291 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 355278005292 NAD binding site [chemical binding]; other site 355278005293 substrate binding site [chemical binding]; other site 355278005294 homodimer interface [polypeptide binding]; other site 355278005295 active site 355278005296 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 355278005297 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 355278005298 substrate binding site; other site 355278005299 tetramer interface; other site 355278005300 Helix-turn-helix domains; Region: HTH; cl00088 355278005301 OpgC protein; Region: OpgC_C; cl00792 355278005302 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355278005303 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278005304 putative acyl-acceptor binding pocket; other site 355278005305 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355278005306 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355278005307 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 355278005308 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 355278005309 active site 355278005310 FMN binding site [chemical binding]; other site 355278005311 2,4-decadienoyl-CoA binding site; other site 355278005312 catalytic residue [active] 355278005313 4Fe-4S cluster binding site [ion binding]; other site 355278005314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005315 Response regulator receiver domain; Region: Response_reg; pfam00072 355278005316 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005317 active site 355278005318 phosphorylation site [posttranslational modification] 355278005319 intermolecular recognition site; other site 355278005320 dimerization interface [polypeptide binding]; other site 355278005321 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 355278005322 PAS domain; Region: PAS_9; pfam13426 355278005323 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 355278005324 PAS fold; Region: PAS_3; pfam08447 355278005325 putative active site [active] 355278005326 heme pocket [chemical binding]; other site 355278005327 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 355278005328 PAS fold; Region: PAS_3; pfam08447 355278005329 putative active site [active] 355278005330 heme pocket [chemical binding]; other site 355278005331 PAS domain S-box; Region: sensory_box; TIGR00229 355278005332 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 355278005333 putative active site [active] 355278005334 heme pocket [chemical binding]; other site 355278005335 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278005336 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 355278005337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005338 ATP binding site [chemical binding]; other site 355278005339 Mg2+ binding site [ion binding]; other site 355278005340 G-X-G motif; other site 355278005341 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278005342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005343 NAD(P) binding site [chemical binding]; other site 355278005344 active site 355278005345 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278005346 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278005347 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278005348 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 355278005349 binding surface 355278005350 TPR motif; other site 355278005351 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355278005352 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355278005353 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 355278005354 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 355278005355 Interdomain contacts; other site 355278005356 Cytokine receptor motif; other site 355278005357 calcium-activated chloride channel protein 1; Region: hCaCC; TIGR00868 355278005358 Thrombospondin type 1 domain; Region: TSP_1; cl15278 355278005359 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 355278005360 active site 355278005361 PAS domain; Region: PAS_9; pfam13426 355278005362 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 355278005363 PAS domain; Region: PAS_9; pfam13426 355278005364 putative active site [active] 355278005365 heme pocket [chemical binding]; other site 355278005366 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278005367 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005368 ATP binding site [chemical binding]; other site 355278005369 Mg2+ binding site [ion binding]; other site 355278005370 G-X-G motif; other site 355278005371 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 355278005372 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278005373 CoA-ligase; Region: Ligase_CoA; cl02894 355278005374 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 355278005375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005376 CoA-ligase; Region: Ligase_CoA; cl02894 355278005377 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278005378 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 355278005379 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 355278005380 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 355278005381 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 355278005382 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 355278005383 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 355278005384 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005385 Family description; Region: UvrD_C_2; cl15862 355278005386 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 355278005387 C-terminal domain interface [polypeptide binding]; other site 355278005388 GSH binding site (G-site) [chemical binding]; other site 355278005389 dimer interface [polypeptide binding]; other site 355278005390 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278005391 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 355278005392 dimer interface [polypeptide binding]; other site 355278005393 ADP-ribose binding site [chemical binding]; other site 355278005394 active site 355278005395 nudix motif; other site 355278005396 metal binding site [ion binding]; metal-binding site 355278005397 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278005398 FecR protein; Region: FecR; pfam04773 355278005399 enterobactin exporter EntS; Provisional; Region: PRK10489 355278005400 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278005401 putative substrate translocation pore; other site 355278005402 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 355278005403 putative active site [active] 355278005404 catalytic site [active] 355278005405 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 355278005406 PLD-like domain; Region: PLDc_2; pfam13091 355278005407 putative active site [active] 355278005408 catalytic site [active] 355278005409 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 355278005410 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 355278005411 GIY-YIG motif/motif A; other site 355278005412 active site 355278005413 catalytic site [active] 355278005414 putative DNA binding site [nucleotide binding]; other site 355278005415 metal binding site [ion binding]; metal-binding site 355278005416 UvrB/uvrC motif; Region: UVR; pfam02151 355278005417 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 355278005418 Paraquat-inducible protein A; Region: PqiA; pfam04403 355278005419 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278005420 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 355278005421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278005422 dimer interface [polypeptide binding]; other site 355278005423 putative CheW interface [polypeptide binding]; other site 355278005424 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 355278005425 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 355278005426 Catalytic site [active] 355278005427 GAF domain; Region: GAF; cl15785 355278005428 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278005429 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 355278005430 dimer interface [polypeptide binding]; other site 355278005431 phosphorylation site [posttranslational modification] 355278005432 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005433 ATP binding site [chemical binding]; other site 355278005434 Mg2+ binding site [ion binding]; other site 355278005435 G-X-G motif; other site 355278005436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005437 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 355278005438 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 355278005439 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 355278005440 Phosphoglycerate kinase; Region: PGK; pfam00162 355278005441 substrate binding site [chemical binding]; other site 355278005442 hinge regions; other site 355278005443 ADP binding site [chemical binding]; other site 355278005444 catalytic site [active] 355278005445 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 355278005446 substrate binding site [chemical binding]; other site 355278005447 dimer interface [polypeptide binding]; other site 355278005448 catalytic triad [active] 355278005449 Preprotein translocase SecG subunit; Region: SecG; cl09123 355278005450 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 355278005451 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 355278005452 dimer interface [polypeptide binding]; other site 355278005453 phosphorylation site [posttranslational modification] 355278005454 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005455 ATP binding site [chemical binding]; other site 355278005456 Mg2+ binding site [ion binding]; other site 355278005457 G-X-G motif; other site 355278005458 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278005459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005460 active site 355278005461 phosphorylation site [posttranslational modification] 355278005462 intermolecular recognition site; other site 355278005463 dimerization interface [polypeptide binding]; other site 355278005464 PQQ-like domain; Region: PQQ_2; pfam13360 355278005465 competence damage-inducible protein A; Provisional; Region: PRK00549 355278005466 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 355278005467 putative MPT binding site; other site 355278005468 Competence-damaged protein; Region: CinA; cl00666 355278005469 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 355278005470 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 355278005471 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278005472 active site 355278005473 HIGH motif; other site 355278005474 nucleotide binding site [chemical binding]; other site 355278005475 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 355278005476 KMSK motif region; other site 355278005477 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 355278005478 tRNA binding surface [nucleotide binding]; other site 355278005479 anticodon binding site; other site 355278005480 Recombination protein O N terminal; Region: RecO_N; cl15812 355278005481 DNA repair protein RecO; Region: reco; TIGR00613 355278005482 Recombination protein O C terminal; Region: RecO_C; pfam02565 355278005483 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 355278005484 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 355278005485 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 355278005486 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 355278005487 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278005488 Zn2+ binding site [ion binding]; other site 355278005489 Mg2+ binding site [ion binding]; other site 355278005490 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005491 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 355278005492 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 355278005493 dimer interface [polypeptide binding]; other site 355278005494 anticodon binding site; other site 355278005495 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 the...; Region: AspRS_core; cd00777 355278005496 homodimer interface [polypeptide binding]; other site 355278005497 motif 1; other site 355278005498 active site 355278005499 motif 2; other site 355278005500 GAD domain; Region: GAD; pfam02938 355278005501 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 attaches...; Region: class_II_aaRS-like_core; cl00268 355278005502 active site 355278005503 motif 3; other site 355278005504 replicative DNA helicase; Region: DnaB; TIGR00665 355278005505 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 355278005506 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 355278005507 Walker A motif; other site 355278005508 ATP binding site [chemical binding]; other site 355278005509 Walker B motif; other site 355278005510 DNA binding loops [nucleotide binding] 355278005511 ribosomal protein L9; Region: L9; TIGR00158 355278005512 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 355278005513 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 355278005514 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 355278005515 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 355278005516 dimer interface [polypeptide binding]; other site 355278005517 ssDNA binding site [nucleotide binding]; other site 355278005518 tetramer (dimer of dimers) interface [polypeptide binding]; other site 355278005519 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 355278005520 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 355278005521 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 355278005522 putative active site [active] 355278005523 putative metal binding site [ion binding]; other site 355278005524 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355278005525 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 355278005526 binding surface 355278005527 TPR motif; other site 355278005528 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 355278005529 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 355278005530 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278005531 catalytic residue [active] 355278005532 CHAT domain; Region: CHAT; pfam12770 355278005533 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355278005534 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 355278005535 DNA binding residues [nucleotide binding] 355278005536 GTP-binding protein YchF; Reviewed; Region: PRK09601 355278005537 YchF GTPase; Region: YchF; cd01900 355278005538 G1 box; other site 355278005539 GTP/Mg2+ binding site [chemical binding]; other site 355278005540 Switch I region; other site 355278005541 G2 box; other site 355278005542 Switch II region; other site 355278005543 G3 box; other site 355278005544 G4 box; other site 355278005545 G5 box; other site 355278005546 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 355278005547 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278005548 active site 355278005549 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 355278005550 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 355278005551 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278005552 GAF domain; Region: GAF; cl15785 355278005553 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 355278005554 dimer interface [polypeptide binding]; other site 355278005555 phosphorylation site [posttranslational modification] 355278005556 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005557 ATP binding site [chemical binding]; other site 355278005558 Mg2+ binding site [ion binding]; other site 355278005559 G-X-G motif; other site 355278005560 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 355278005561 active site residue [active] 355278005562 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 355278005563 active site 355278005564 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 355278005565 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 355278005566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005567 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 355278005568 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355278005569 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278005570 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278005571 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; cl12031 355278005572 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278005573 cyclase homology domain; Region: CHD; cd07302 355278005574 nucleotidyl binding site; other site 355278005575 metal binding site [ion binding]; metal-binding site 355278005576 dimer interface [polypeptide binding]; other site 355278005577 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 355278005578 binding surface 355278005579 TPR motif; other site 355278005580 flagellin; Provisional; Region: PRK12804 355278005581 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278005582 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355278005583 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 355278005584 active site 355278005585 metal binding site [ion binding]; metal-binding site 355278005586 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 355278005587 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 355278005588 ATP binding site [chemical binding]; other site 355278005589 Mg++ binding site [ion binding]; other site 355278005590 motif III; other site 355278005591 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 355278005592 nucleotide binding region [chemical binding]; other site 355278005593 ATP-binding site [chemical binding]; other site 355278005594 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; cl16911 355278005595 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278005596 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 355278005597 binding surface 355278005598 TPR motif; other site 355278005599 TPR repeat; Region: TPR_11; pfam13414 355278005600 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 355278005601 binding surface 355278005602 TPR motif; other site 355278005603 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278005604 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 355278005605 binding surface 355278005606 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278005607 TPR motif; other site 355278005608 TPR repeat; Region: TPR_11; pfam13414 355278005609 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 355278005610 binding surface 355278005611 TPR repeat; Region: TPR_11; pfam13414 355278005612 TPR motif; other site 355278005613 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 355278005614 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 355278005615 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 355278005616 putative RNA binding site [nucleotide binding]; other site 355278005617 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 355278005618 homopentamer interface [polypeptide binding]; other site 355278005619 active site 355278005620 SET domain; Region: SET; cl02566 355278005621 Uncharacterized conserved protein [Function unknown]; Region: COG1543 355278005622 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 355278005623 active site 355278005624 substrate binding site [chemical binding]; other site 355278005625 catalytic site [active] 355278005626 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 355278005627 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 A site; Region: RaiA; cd00552 355278005628 30S subunit binding site; other site 355278005629 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 355278005630 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278005631 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 355278005632 DNA binding residues [nucleotide binding] 355278005633 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 355278005634 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005635 ATP binding site [chemical binding]; other site 355278005636 Mg2+ binding site [ion binding]; other site 355278005637 G-X-G motif; other site 355278005638 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 355278005639 ATP binding site [chemical binding]; other site 355278005640 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 355278005641 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278005642 metal binding site 2 [ion binding]; metal-binding site 355278005643 putative DNA binding helix; other site 355278005644 metal binding site 1 [ion binding]; metal-binding site 355278005645 dimer interface [polypeptide binding]; other site 355278005646 structural Zn2+ binding site [ion binding]; other site 355278005647 Flavin Reductases; Region: FlaRed; cl00801 355278005648 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 355278005649 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 355278005650 dimerization interface [polypeptide binding]; other site 355278005651 ATP binding site [chemical binding]; other site 355278005652 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 355278005653 dimerization interface [polypeptide binding]; other site 355278005654 ATP binding site [chemical binding]; other site 355278005655 TolB amino-terminal domain; Region: TolB_N; cl00639 355278005656 DNA polymerase I; Reviewed; Region: PRK05761 355278005657 DNA polymerase type-B B2 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no...; Region: POLBc_B2; cd05531 355278005658 active site 355278005659 metal-binding site 355278005660 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278005661 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_15; cd07264 355278005662 Protein of unknown function (DUF419); Region: DUF419; cl15265 355278005663 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 355278005664 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 355278005665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005666 Walker A/P-loop; other site 355278005667 ATP binding site [chemical binding]; other site 355278005668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005669 AAA domain; Region: AAA_21; pfam13304 355278005670 Walker A/P-loop; other site 355278005671 ATP binding site [chemical binding]; other site 355278005672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005673 Q-loop/lid; other site 355278005674 ABC transporter signature motif; other site 355278005675 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355278005676 Walker B; other site 355278005677 D-loop; other site 355278005678 H-loop/switch region; other site 355278005679 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 355278005680 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 355278005681 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 355278005682 S-adenosylmethionine binding site [chemical binding]; other site 355278005683 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 355278005684 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 355278005685 cyclase homology domain; Region: CHD; cd07302 355278005686 nucleotidyl binding site; other site 355278005687 metal binding site [ion binding]; metal-binding site 355278005688 dimer interface [polypeptide binding]; other site 355278005689 MerT mercuric transport protein; Region: MerT; cl03578 355278005690 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 355278005691 metal-binding site [ion binding] 355278005692 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 355278005693 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 355278005694 DNA binding residues [nucleotide binding] 355278005695 Domain of unknown function (DUF4209); Region: DUF4209; pfam13910 355278005696 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 355278005697 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 355278005698 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278005699 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 355278005700 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 355278005701 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 355278005702 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 355278005703 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 355278005704 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 355278005705 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 355278005706 non-specific DNA binding site [nucleotide binding]; other site 355278005707 salt bridge; other site 355278005708 sequence-specific DNA binding site [nucleotide binding]; other site 355278005709 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 355278005710 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 355278005711 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 355278005712 motif II; other site 355278005713 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 355278005714 Divergent AAA domain; Region: AAA_4; pfam04326 355278005715 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 355278005716 Helix-turn-helix domains; Region: HTH; cl00088 355278005717 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 355278005718 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278005719 putative active site [active] 355278005720 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 355278005721 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278005722 MerT mercuric transport protein; Region: MerT; cl03578 355278005723 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 355278005724 metal-binding site [ion binding] 355278005725 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 355278005726 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 355278005727 DNA binding residues [nucleotide binding] 355278005728 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 355278005729 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 355278005730 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 355278005731 putative active site [active] 355278005732 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 355278005733 Fic/DOC family; Region: Fic; cl00960 355278005734 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 355278005735 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278005736 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 355278005737 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 355278005738 oligomeric interface; other site 355278005739 putative active site [active] 355278005740 homodimer interface [polypeptide binding]; other site 355278005741 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 355278005742 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278005743 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 355278005744 oxyanion hole [active] 355278005745 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 355278005746 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278005747 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 355278005748 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 355278005749 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 355278005750 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 355278005751 DNA binding residues [nucleotide binding] 355278005752 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 355278005753 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 355278005754 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 355278005755 conserved cys residue [active] 355278005756 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278005757 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 355278005758 putative C-terminal domain interface [polypeptide binding]; other site 355278005759 putative GSH binding site (G-site) [chemical binding]; other site 355278005760 putative dimer interface [polypeptide binding]; other site 355278005761 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 355278005762 putative N-terminal domain interface [polypeptide binding]; other site 355278005763 putative dimer interface [polypeptide binding]; other site 355278005764 putative substrate binding pocket (H-site) [chemical binding]; other site 355278005765 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 355278005766 MepB protein; Region: MepB; cl01985 355278005767 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 355278005768 active site 355278005769 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 355278005770 active site 355278005771 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 355278005772 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 355278005773 RNA binding surface [nucleotide binding]; other site 355278005774 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 355278005775 active site 355278005776 uracil binding [chemical binding]; other site 355278005777 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278005778 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355278005779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005780 Walker A/P-loop; other site 355278005781 ATP binding site [chemical binding]; other site 355278005782 Q-loop/lid; other site 355278005783 ABC transporter signature motif; other site 355278005784 Walker B; other site 355278005785 D-loop; other site 355278005786 H-loop/switch region; other site 355278005787 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278005788 putative CheW interface [polypeptide binding]; other site 355278005789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005791 active site 355278005792 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 355278005793 DinB superfamily; Region: DinB_2; pfam12867 355278005794 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278005795 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355278005796 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 355278005797 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 355278005798 Ligand binding site; other site 355278005799 Putative Catalytic site; other site 355278005800 DXD motif; other site 355278005801 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 355278005802 anti sigma factor interaction site; other site 355278005803 regulatory phosphorylation site [posttranslational modification]; other site 355278005804 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 355278005805 Ca binding site [ion binding]; other site 355278005806 active site 355278005807 catalytic site [active] 355278005808 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 355278005809 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278005810 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278005811 dimer interface [polypeptide binding]; other site 355278005812 putative CheW interface [polypeptide binding]; other site 355278005813 hypothetical protein; Provisional; Region: PLN03150 355278005814 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 355278005815 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278005816 active site 355278005817 HIGH motif; other site 355278005818 nucleotide binding site [chemical binding]; other site 355278005819 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 355278005820 active site 355278005821 KMSKS motif; other site 355278005822 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 355278005823 tRNA binding surface [nucleotide binding]; other site 355278005824 anticodon binding site; other site 355278005825 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 355278005826 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 355278005827 anti sigma factor interaction site; other site 355278005828 regulatory phosphorylation site [posttranslational modification]; other site 355278005829 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 355278005830 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 355278005831 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 355278005832 tetramerization interface [polypeptide binding]; other site 355278005833 active site 355278005834 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 355278005835 catalytic residues [active] 355278005836 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278005837 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 355278005838 ligand binding site [chemical binding]; other site 355278005839 flexible hinge region; other site 355278005840 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 355278005841 ligand binding site [chemical binding]; other site 355278005842 flexible hinge region; other site 355278005843 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278005844 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278005845 active site 355278005846 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 355278005847 ThiC family; Region: ThiC; cl08031 355278005848 PilZ domain; Region: PilZ; cl01260 355278005849 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278005850 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278005851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 355278005852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278005853 Bifunctional nuclease; Region: DNase-RNase; cl00553 355278005854 UvrB/uvrC motif; Region: UVR; pfam02151 355278005855 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 355278005856 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 355278005857 FeS/SAM binding site; other site 355278005858 FOG: CBS domain [General function prediction only]; Region: COG0517 355278005859 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 355278005860 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 355278005861 transaminase; Validated; Region: PRK07324 355278005862 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 355278005863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005864 homodimer interface [polypeptide binding]; other site 355278005865 catalytic residue [active] 355278005866 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 355278005867 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 355278005868 active site 355278005869 substrate binding site [chemical binding]; other site 355278005870 metal binding site [ion binding]; metal-binding site 355278005871 acetylornithine aminotransferase; Provisional; Region: PRK02627 355278005872 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 355278005873 inhibitor-cofactor binding pocket; inhibition site 355278005874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005875 catalytic residue [active] 355278005876 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 355278005877 tartrate dehydrogenase; Provisional; Region: PRK08194 355278005878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005879 active site 355278005880 phosphorylation site [posttranslational modification] 355278005881 intermolecular recognition site; other site 355278005882 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 355278005883 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 355278005884 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 355278005885 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_1; cd11347 355278005886 active site 355278005887 catalytic site [active] 355278005888 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 355278005889 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278005890 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 355278005891 synthetase active site [active] 355278005892 NTP binding site [chemical binding]; other site 355278005893 metal binding site [ion binding]; metal-binding site 355278005894 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 355278005895 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 355278005896 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 355278005897 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 355278005898 dimerization interface [polypeptide binding]; other site 355278005899 active site 355278005900 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 355278005901 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278005902 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 355278005903 anti sigma factor interaction site; other site 355278005904 regulatory phosphorylation site [posttranslational modification]; other site 355278005905 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 355278005906 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 355278005907 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278005908 metal binding site 2 [ion binding]; metal-binding site 355278005909 putative DNA binding helix; other site 355278005910 metal binding site 1 [ion binding]; metal-binding site 355278005911 dimer interface [polypeptide binding]; other site 355278005912 structural Zn2+ binding site [ion binding]; other site 355278005913 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278005914 transcript cleavage factor/unknown domain fusion protein; Provisional; Region: PRK14720 355278005915 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 355278005916 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 355278005917 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278005918 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278005919 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 355278005920 ligand binding site [chemical binding]; other site 355278005921 flexible hinge region; other site 355278005922 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278005923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005924 active site 355278005925 phosphorylation site [posttranslational modification] 355278005926 intermolecular recognition site; other site 355278005927 dimerization interface [polypeptide binding]; other site 355278005928 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 355278005929 DNA binding residues [nucleotide binding] 355278005930 dimerization interface [polypeptide binding]; other site 355278005931 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278005932 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 355278005933 dimer interface [polypeptide binding]; other site 355278005934 phosphorylation site [posttranslational modification] 355278005935 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005936 ATP binding site [chemical binding]; other site 355278005937 Mg2+ binding site [ion binding]; other site 355278005938 G-X-G motif; other site 355278005939 Response regulator receiver domain; Region: Response_reg; pfam00072 355278005940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005941 active site 355278005942 phosphorylation site [posttranslational modification] 355278005943 intermolecular recognition site; other site 355278005944 dimerization interface [polypeptide binding]; other site 355278005945 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 355278005946 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005947 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 355278005948 oligomerisation interface [polypeptide binding]; other site 355278005949 mobile loop; other site 355278005950 roof hairpin; other site 355278005951 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 355278005952 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 355278005953 ring oligomerisation interface [polypeptide binding]; other site 355278005954 ATP/Mg binding site [chemical binding]; other site 355278005955 stacking interactions; other site 355278005956 hinge regions; other site 355278005957 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 355278005958 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 355278005959 oligomeric interface; other site 355278005960 putative active site [active] 355278005961 homodimer interface [polypeptide binding]; other site 355278005962 RF-1 domain; Region: RF-1; cl02875 355278005963 antiporter inner membrane protein; Provisional; Region: PRK11670 355278005964 Domain of unknown function DUF59; Region: DUF59; cl00941 355278005965 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 355278005966 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278005967 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 355278005968 putative active site [active] 355278005969 putative metal binding site [ion binding]; other site 355278005970 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278005971 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 355278005972 E3 interaction surface; other site 355278005973 lipoyl attachment site [posttranslational modification]; other site 355278005974 aminodeoxychorismate synthase; Provisional; Region: PRK07508 355278005975 chorismate binding enzyme; Region: Chorismate_bind; cl10555 355278005976 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 355278005977 substrate-cofactor binding pocket; other site 355278005978 homodimer interface [polypeptide binding]; other site 355278005979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005980 catalytic residue [active] 355278005981 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 355278005982 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278005983 Walker A motif; other site 355278005984 ATP binding site [chemical binding]; other site 355278005985 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278005986 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355278005987 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 355278005988 active site 355278005989 HslU subunit interaction site [polypeptide binding]; other site 355278005990 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278005991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005992 ATP binding site [chemical binding]; other site 355278005993 Mg2+ binding site [ion binding]; other site 355278005994 G-X-G motif; other site 355278005995 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 355278005996 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 355278005997 active site 355278005998 Int/Topo IB signature motif; other site 355278005999 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 355278006000 binding surface 355278006001 TPR motif; other site 355278006002 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 355278006003 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278006004 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 355278006005 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 355278006006 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 355278006007 putative valine binding site [chemical binding]; other site 355278006008 dimer interface [polypeptide binding]; other site 355278006009 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 355278006010 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 355278006011 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 355278006012 PYR/PP interface [polypeptide binding]; other site 355278006013 dimer interface [polypeptide binding]; other site 355278006014 TPP binding site [chemical binding]; other site 355278006015 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 355278006016 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 355278006017 TPP-binding site [chemical binding]; other site 355278006018 dimer interface [polypeptide binding]; other site 355278006019 Integrase core domain; Region: rve; cl01316 355278006020 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278006021 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278006022 putative substrate translocation pore; other site 355278006023 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 355278006024 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 355278006025 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 355278006026 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278006027 catalytic residue [active] 355278006028 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 355278006029 Sulfatase; Region: Sulfatase; cl10460 355278006030 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355278006031 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 355278006032 binding surface 355278006033 TPR motif; other site 355278006034 Tetratricopeptide repeat; Region: TPR_6; pfam13174 355278006035 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; cl16911 355278006036 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 355278006037 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006038 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 355278006039 Family description; Region: UvrD_C_2; cl15862 355278006040 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 355278006041 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 355278006042 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278006043 LemA family; Region: LemA; cl00742 355278006044 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 355278006045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006046 Chorismate mutase type II; Region: CM_2; cl00693 355278006047 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 355278006048 Prephenate dehydratase; Region: PDT; pfam00800 355278006049 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 355278006050 putative L-Phe binding site [chemical binding]; other site 355278006051 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 355278006052 ScpA/B protein; Region: ScpA_ScpB; cl00598 355278006053 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006055 active site 355278006056 phosphorylation site [posttranslational modification] 355278006057 intermolecular recognition site; other site 355278006058 dimerization interface [polypeptide binding]; other site 355278006059 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355278006060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006061 active site 355278006062 phosphorylation site [posttranslational modification] 355278006063 intermolecular recognition site; other site 355278006064 dimerization interface [polypeptide binding]; other site 355278006065 CheB methylesterase; Region: CheB_methylest; pfam01339 355278006066 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 355278006067 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 355278006068 putative binding surface; other site 355278006069 active site 355278006070 P2 response regulator binding domain; Region: P2; pfam07194 355278006071 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 355278006072 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006073 ATP binding site [chemical binding]; other site 355278006074 Mg2+ binding site [ion binding]; other site 355278006075 G-X-G motif; other site 355278006076 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 355278006077 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 355278006078 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355278006079 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 355278006080 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 355278006081 Cell division protein ZapA; Region: ZapA; cl01146 355278006082 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 355278006083 ribosomal protein L20; Region: rpl20; CHL00068 355278006084 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 355278006085 23S rRNA binding site [nucleotide binding]; other site 355278006086 L21 binding site [polypeptide binding]; other site 355278006087 L13 binding site [polypeptide binding]; other site 355278006088 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 355278006089 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 355278006090 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 355278006091 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 355278006092 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 355278006093 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 355278006094 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 355278006095 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 355278006096 active site 355278006097 dimer interface [polypeptide binding]; other site 355278006098 motif 1; other site 355278006099 motif 2; other site 355278006100 motif 3; other site 355278006101 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 355278006102 anticodon binding site; other site 355278006103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006104 WHG domain; Region: WHG; pfam13305 355278006105 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278006106 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355278006107 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278006108 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 355278006109 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 355278006110 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 355278006111 Nitrogen regulatory protein P-II; Region: P-II; cl00412 355278006112 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355278006113 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 355278006114 photolyase PhrII; Region: phr2; TIGR00591 355278006115 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 355278006116 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 355278006117 A new structural DNA glycosylase; Region: AlkD_like; cd06561 355278006118 active site 355278006119 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 355278006120 cyclase homology domain; Region: CHD; cd07302 355278006121 nucleotidyl binding site; other site 355278006122 metal binding site [ion binding]; metal-binding site 355278006123 dimer interface [polypeptide binding]; other site 355278006124 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 355278006125 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; cl16911 355278006126 Stage II sporulation protein; Region: SpoIID; pfam08486 355278006127 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 355278006128 HDOD domain; Region: HDOD; pfam08668 355278006129 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278006130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 355278006131 active site 355278006132 phosphorylation site [posttranslational modification] 355278006133 intermolecular recognition site; other site 355278006134 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278006135 cyclase homology domain; Region: CHD; cd07302 355278006136 nucleotidyl binding site; other site 355278006137 metal binding site [ion binding]; metal-binding site 355278006138 dimer interface [polypeptide binding]; other site 355278006139 ferredoxin; Validated; Region: PRK07118 355278006140 4Fe-4S binding domain; Region: Fer4; cl02805 355278006141 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 355278006142 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 355278006143 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355278006144 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 355278006145 NADH dehydrogenase; Region: NADHdh; cl00469 355278006146 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355278006147 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278006148 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 355278006149 Walker A/P-loop; other site 355278006150 ATP binding site [chemical binding]; other site 355278006151 Q-loop/lid; other site 355278006152 ABC transporter signature motif; other site 355278006153 Walker B; other site 355278006154 D-loop; other site 355278006155 H-loop/switch region; other site 355278006156 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355278006157 FtsX-like permease family; Region: FtsX; cl15850 355278006158 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278006159 active site 355278006160 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006161 Helix-turn-helix domains; Region: HTH; cl00088 355278006162 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 355278006163 PilZ domain; Region: PilZ; cl01260 355278006164 ornithine carbamoyltransferase; Provisional; Region: PRK14804 355278006165 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 355278006166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006167 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 355278006168 heme-binding site [chemical binding]; other site 355278006169 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; cl09155 355278006170 Cache domain; Region: Cache_1; pfam02743 355278006171 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 355278006172 dimerization interface [polypeptide binding]; other site 355278006173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278006174 dimer interface [polypeptide binding]; other site 355278006175 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278006176 putative CheW interface [polypeptide binding]; other site 355278006177 FecR protein; Region: FecR; pfam04773 355278006178 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 355278006179 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 355278006180 putative Cl- selectivity filter; other site 355278006181 putative pore gating glutamate residue; other site 355278006182 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278006183 putative acyl-acceptor binding pocket; other site 355278006184 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006186 active site 355278006187 phosphorylation site [posttranslational modification] 355278006188 intermolecular recognition site; other site 355278006189 dimerization interface [polypeptide binding]; other site 355278006190 PAS fold; Region: PAS; pfam00989 355278006191 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 355278006192 putative active site [active] 355278006193 heme pocket [chemical binding]; other site 355278006194 PAS fold; Region: PAS; pfam00989 355278006195 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 355278006196 putative active site [active] 355278006197 heme pocket [chemical binding]; other site 355278006198 PAS domain; Region: PAS_9; pfam13426 355278006199 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 355278006200 putative active site [active] 355278006201 heme pocket [chemical binding]; other site 355278006202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278006203 Histidine kinase; Region: HisKA_2; cl06527 355278006204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006205 ATP binding site [chemical binding]; other site 355278006206 Mg2+ binding site [ion binding]; other site 355278006207 G-X-G motif; other site 355278006208 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 355278006209 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 355278006210 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278006211 active site 355278006212 catalytic triad [active] 355278006213 dimer interface [polypeptide binding]; other site 355278006214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006215 Helix-turn-helix domains; Region: HTH; cl00088 355278006216 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 355278006217 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 355278006218 active site 355278006219 DNA binding site [nucleotide binding] 355278006220 Int/Topo IB signature motif; other site 355278006221 recombinase A; Provisional; Region: recA; PRK09354 355278006222 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 355278006223 hexamer interface [polypeptide binding]; other site 355278006224 Walker A motif; other site 355278006225 ATP binding site [chemical binding]; other site 355278006226 Walker B motif; other site 355278006227 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 355278006228 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 355278006229 active site 355278006230 catalytic tetrad [active] 355278006231 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 355278006232 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006233 Walker A motif; other site 355278006234 ATP binding site [chemical binding]; other site 355278006235 Walker B motif; other site 355278006236 arginine finger; other site 355278006237 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006238 Walker A motif; other site 355278006239 ATP binding site [chemical binding]; other site 355278006240 Walker B motif; other site 355278006241 arginine finger; other site 355278006242 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355278006243 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278006244 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278006245 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278006246 CHASE3 domain; Region: CHASE3; cl05000 355278006247 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 355278006248 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 355278006249 putative active site [active] 355278006250 heme pocket [chemical binding]; other site 355278006251 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 355278006252 dimer interface [polypeptide binding]; other site 355278006253 phosphorylation site [posttranslational modification] 355278006254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006255 ATP binding site [chemical binding]; other site 355278006256 Mg2+ binding site [ion binding]; other site 355278006257 G-X-G motif; other site 355278006258 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006260 active site 355278006261 phosphorylation site [posttranslational modification] 355278006262 intermolecular recognition site; other site 355278006263 dimerization interface [polypeptide binding]; other site 355278006264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006265 active site 355278006266 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 355278006267 phosphorylation site [posttranslational modification] 355278006268 intermolecular recognition site; other site 355278006269 dimerization interface [polypeptide binding]; other site 355278006270 sensory histidine kinase AtoS; Provisional; Region: PRK11360 355278006271 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 355278006272 dimer interface [polypeptide binding]; other site 355278006273 phosphorylation site [posttranslational modification] 355278006274 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006275 ATP binding site [chemical binding]; other site 355278006276 Mg2+ binding site [ion binding]; other site 355278006277 G-X-G motif; other site 355278006278 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278006279 Hypothetical patatin similar to WS1459 of Wolinella succinogenes; Region: Pat_hypo_W_succinogenes_WS1459_like; cd07210 355278006280 active site 355278006281 nucleophile elbow; other site 355278006282 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 355278006283 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 355278006284 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278006285 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355278006286 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355278006287 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 355278006288 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 355278006289 Peptidase family C69; Region: Peptidase_C69; pfam03577 355278006290 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 355278006291 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 355278006292 MOFRL family; Region: MOFRL; pfam05161 355278006293 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 355278006294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006295 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 355278006296 4Fe-4S binding domain; Region: Fer4_5; pfam12801 355278006297 4Fe-4S binding domain; Region: Fer4_5; pfam12801 355278006298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278006299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006300 ATP binding site [chemical binding]; other site 355278006301 Mg2+ binding site [ion binding]; other site 355278006302 G-X-G motif; other site 355278006303 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278006304 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278006305 metal binding site 2 [ion binding]; metal-binding site 355278006306 putative DNA binding helix; other site 355278006307 structural Zn2+ binding site [ion binding]; other site 355278006308 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 355278006309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006310 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 355278006311 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 355278006312 Predicted membrane protein [Function unknown]; Region: COG4270 355278006313 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 355278006314 ligand binding site [chemical binding]; other site 355278006315 flexible hinge region; other site 355278006316 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 355278006317 ligand binding site [chemical binding]; other site 355278006318 flexible hinge region; other site 355278006319 Sulfatase; Region: Sulfatase; cl10460 355278006320 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 355278006321 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 355278006322 active site 355278006323 metal binding site [ion binding]; metal-binding site 355278006324 UbiA prenyltransferase family; Region: UbiA; cl00337 355278006325 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 355278006326 active site 355278006327 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355278006328 Helix-turn-helix domains; Region: HTH; cl00088 355278006329 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 355278006330 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278006331 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 355278006332 putative NAD(P) binding site [chemical binding]; other site 355278006333 Haemolysin-III related; Region: HlyIII; cl03831 355278006334 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278006335 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278006336 active site 355278006337 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 355278006338 active site 355278006339 FMN binding site [chemical binding]; other site 355278006340 2,4-decadienoyl-CoA binding site; other site 355278006341 catalytic residue [active] 355278006342 4Fe-4S cluster binding site [ion binding]; other site 355278006343 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 355278006344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006345 Helix-turn-helix domains; Region: HTH; cl00088 355278006346 WHG domain; Region: WHG; pfam13305 355278006347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006348 Helix-turn-helix domains; Region: HTH; cl00088 355278006349 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 355278006350 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 355278006351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006352 NADH(P)-binding; Region: NAD_binding_10; pfam13460 355278006353 NAD(P) binding site [chemical binding]; other site 355278006354 active site 355278006355 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 355278006356 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278006357 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006358 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 355278006359 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 355278006360 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 355278006361 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; cl12031 355278006362 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 355278006363 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 355278006364 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 355278006365 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 355278006366 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 355278006367 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 355278006368 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 355278006369 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 355278006370 dimer interface [polypeptide binding]; other site 355278006371 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 355278006372 active site 355278006373 heme binding site [chemical binding]; other site 355278006374 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 355278006375 High potential iron-sulfur protein; Region: HIPIP; pfam01355 355278006376 DEAD-like helicases superfamily; Region: DEXDc; smart00487 355278006377 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 355278006378 ATP binding site [chemical binding]; other site 355278006379 putative Mg++ binding site [ion binding]; other site 355278006380 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 355278006381 nucleotide binding region [chemical binding]; other site 355278006382 ATP-binding site [chemical binding]; other site 355278006383 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 355278006384 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006385 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278006386 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006387 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278006388 cyclase homology domain; Region: CHD; cd07302 355278006389 nucleotidyl binding site; other site 355278006390 metal binding site [ion binding]; metal-binding site 355278006391 dimer interface [polypeptide binding]; other site 355278006392 YceI-like domain; Region: YceI; cl01001 355278006393 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006394 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006395 active site 355278006396 phosphorylation site [posttranslational modification] 355278006397 intermolecular recognition site; other site 355278006398 dimerization interface [polypeptide binding]; other site 355278006399 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278006400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006401 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006402 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 355278006403 Histidine kinase; Region: His_kinase; pfam06580 355278006404 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 355278006405 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 355278006406 ligand binding site [chemical binding]; other site 355278006407 flexible hinge region; other site 355278006408 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 355278006409 ligand binding site [chemical binding]; other site 355278006410 flexible hinge region; other site 355278006411 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 355278006412 nucleophile elbow; other site 355278006413 FG-GAP repeat; Region: FG-GAP; cl15299 355278006414 FG-GAP repeat; Region: FG-GAP; cl15299 355278006415 FG-GAP repeat; Region: FG-GAP; cl15299 355278006416 FG-GAP repeat; Region: FG-GAP; cl15299 355278006417 FG-GAP repeat; Region: FG-GAP; cl15299 355278006418 FG-GAP repeat; Region: FG-GAP; cl15299 355278006419 FG-GAP repeat; Region: FG-GAP; cl15299 355278006420 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006421 GAF domain; Region: GAF; cl15785 355278006422 GAF domain; Region: GAF_2; pfam13185 355278006423 GAF domain; Region: GAF; cl15785 355278006424 cyclase homology domain; Region: CHD; cd07302 355278006425 nucleotidyl binding site; other site 355278006426 metal binding site [ion binding]; metal-binding site 355278006427 dimer interface [polypeptide binding]; other site 355278006428 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278006429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006430 active site 355278006431 phosphorylation site [posttranslational modification] 355278006432 intermolecular recognition site; other site 355278006433 dimerization interface [polypeptide binding]; other site 355278006434 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 355278006435 DNA binding residues [nucleotide binding] 355278006436 dimerization interface [polypeptide binding]; other site 355278006437 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006438 Uncharacterized conserved protein [Function unknown]; Region: COG4938 355278006439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006440 Walker A/P-loop; other site 355278006441 ATP binding site [chemical binding]; other site 355278006442 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 355278006443 Protein of unknown function DUF262; Region: DUF262; cl14890 355278006444 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; cl12031 355278006445 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278006446 TolB amino-terminal domain; Region: TolB_N; cl00639 355278006447 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 355278006448 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 355278006449 dimerization interface [polypeptide binding]; other site 355278006450 DPS ferroxidase diiron center [ion binding]; other site 355278006451 ion pore; other site 355278006452 acyl-CoA esterase; Provisional; Region: PRK10673 355278006453 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; cl12031 355278006454 aspartate aminotransferase; Provisional; Region: PRK05764 355278006455 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 355278006456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006457 homodimer interface [polypeptide binding]; other site 355278006458 catalytic residue [active] 355278006459 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 355278006460 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 355278006461 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 355278006462 ATP binding site [chemical binding]; other site 355278006463 putative Mg++ binding site [ion binding]; other site 355278006464 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 355278006465 nucleotide binding region [chemical binding]; other site 355278006466 ATP-binding site [chemical binding]; other site 355278006467 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 355278006468 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 355278006469 FMN binding site [chemical binding]; other site 355278006470 active site 355278006471 catalytic residues [active] 355278006472 substrate binding site [chemical binding]; other site 355278006473 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 355278006474 FHIPEP family; Region: FHIPEP; pfam00771 355278006475 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12773 355278006476 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 355278006477 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 355278006478 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 355278006479 FliP family; Region: FliP; cl00593 355278006480 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 355278006481 flagellar motor switch protein; Validated; Region: PRK08119 355278006482 flagellar motor switch protein; Reviewed; Region: PRK06782 355278006483 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 355278006484 Protein of unknown function (DUF971); Region: DUF971; cl01414 355278006485 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 355278006486 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 355278006487 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 355278006488 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 355278006489 ArsC family; Region: ArsC; pfam03960 355278006490 catalytic residue [active] 355278006491 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278006492 hydrophobic ligand binding site; other site 355278006493 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 355278006494 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 355278006495 trimer interface [polypeptide binding]; other site 355278006496 active site 355278006497 UDP-GlcNAc binding site [chemical binding]; other site 355278006498 lipid binding site [chemical binding]; lipid-binding site 355278006499 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278006500 ligand binding site [chemical binding]; other site 355278006501 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 355278006502 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278006503 Ligand binding site; other site 355278006504 Putative Catalytic site; other site 355278006505 DXD motif; other site 355278006506 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 355278006507 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 355278006508 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 355278006509 active site residue [active] 355278006510 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 355278006511 active site residue [active] 355278006512 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 355278006513 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 355278006514 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 355278006515 homodimer interface [polypeptide binding]; other site 355278006516 substrate-cofactor binding pocket; other site 355278006517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006518 catalytic residue [active] 355278006519 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278006520 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 355278006521 Walker A/P-loop; other site 355278006522 ATP binding site [chemical binding]; other site 355278006523 Q-loop/lid; other site 355278006524 ABC transporter signature motif; other site 355278006525 Walker B; other site 355278006526 D-loop; other site 355278006527 H-loop/switch region; other site 355278006528 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355278006529 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278006530 FtsX-like permease family; Region: FtsX; cl15850 355278006531 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278006532 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 355278006533 carboxyltransferase (CT) interaction site; other site 355278006534 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 355278006535 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 355278006536 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355278006537 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 355278006538 FeS/SAM binding site; other site 355278006539 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 355278006540 binding surface 355278006541 TPR motif; other site 355278006542 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 355278006543 Clp protease ATP binding subunit; Region: clpC; CHL00095 355278006544 Clp amino terminal domain; Region: Clp_N; pfam02861 355278006545 Clp amino terminal domain; Region: Clp_N; pfam02861 355278006546 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006547 Walker A motif; other site 355278006548 ATP binding site [chemical binding]; other site 355278006549 Walker B motif; other site 355278006550 arginine finger; other site 355278006551 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006552 Walker A motif; other site 355278006553 ATP binding site [chemical binding]; other site 355278006554 Walker B motif; other site 355278006555 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355278006556 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 355278006557 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 355278006558 ADP binding site [chemical binding]; other site 355278006559 phosphagen binding site; other site 355278006560 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278006561 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 355278006562 Walker A/P-loop; other site 355278006563 ATP binding site [chemical binding]; other site 355278006564 Q-loop/lid; other site 355278006565 ABC transporter signature motif; other site 355278006566 Walker B; other site 355278006567 D-loop; other site 355278006568 H-loop/switch region; other site 355278006569 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355278006570 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278006571 FtsX-like permease family; Region: FtsX; cl15850 355278006572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278006573 Mechanosensitive ion channel; Region: MS_channel; pfam00924 355278006574 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 355278006575 active site 355278006576 dimer interface [polypeptide binding]; other site 355278006577 metal binding site [ion binding]; metal-binding site 355278006578 ribonuclease III; Reviewed; Region: rnc; PRK00102 355278006579 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 355278006580 dimerization interface [polypeptide binding]; other site 355278006581 active site 355278006582 metal binding site [ion binding]; metal-binding site 355278006583 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 355278006584 dsRNA binding site [nucleotide binding]; other site 355278006585 Phosphopantetheine attachment site; Region: PP-binding; cl09936 355278006586 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 355278006587 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 355278006588 active site residue [active] 355278006589 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006590 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006591 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006592 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006593 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355278006594 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 355278006595 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 355278006596 NAD(P) binding site [chemical binding]; other site 355278006597 homotetramer interface [polypeptide binding]; other site 355278006598 homodimer interface [polypeptide binding]; other site 355278006599 active site 355278006600 Integrase core domain; Region: rve; cl01316 355278006601 ATP phosphoribosyltransferase; Region: HisG; cl15266 355278006602 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278006603 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 355278006604 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 355278006605 RNA binding site [nucleotide binding]; other site 355278006606 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 355278006607 RNA binding site [nucleotide binding]; other site 355278006608 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 355278006609 RNA binding site [nucleotide binding]; other site 355278006610 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 355278006611 RNA binding site [nucleotide binding]; other site 355278006612 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 355278006613 RNA binding site [nucleotide binding]; other site 355278006614 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 355278006615 RNA binding site [nucleotide binding]; other site 355278006616 domain interface; other site 355278006617 cytidylate kinase; Provisional; Region: cmk; PRK00023 355278006618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006619 active site 355278006620 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 355278006621 CMP-binding site; other site 355278006622 The sites determining sugar specificity; other site 355278006623 GAF domain; Region: GAF_2; pfam13185 355278006624 GAF domain; Region: GAF; cl15785 355278006625 PAS domain S-box; Region: sensory_box; TIGR00229 355278006626 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 355278006627 putative active site [active] 355278006628 heme pocket [chemical binding]; other site 355278006629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278006630 Histidine kinase; Region: HisKA_2; cl06527 355278006631 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278006632 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 355278006633 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 355278006634 hinge; other site 355278006635 active site 355278006636 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 355278006637 ligand binding site [chemical binding]; other site 355278006638 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 355278006639 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 355278006640 binding surface 355278006641 TPR motif; other site 355278006642 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 355278006643 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 355278006644 TPP-binding site; other site 355278006645 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 355278006646 PYR/PP interface [polypeptide binding]; other site 355278006647 dimer interface [polypeptide binding]; other site 355278006648 TPP binding site [chemical binding]; other site 355278006649 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355278006650 CHASE2 domain; Region: CHASE2; cl01732 355278006651 cyclase homology domain; Region: CHD; cd07302 355278006652 nucleotidyl binding site; other site 355278006653 metal binding site [ion binding]; metal-binding site 355278006654 dimer interface [polypeptide binding]; other site 355278006655 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 355278006656 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 355278006657 substrate binding site [chemical binding]; other site 355278006658 active site 355278006659 catalytic residues [active] 355278006660 heterodimer interface [polypeptide binding]; other site 355278006661 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 355278006662 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 355278006663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006664 catalytic residue [active] 355278006665 prolyl-tRNA synthetase; Provisional; Region: PRK09194 355278006666 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 formation of...; Region: ProRS_core_prok; cd00779 355278006667 dimer interface [polypeptide binding]; other site 355278006668 motif 1; other site 355278006669 active site 355278006670 motif 2; other site 355278006671 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 355278006672 putative deacylase active site [active] 355278006673 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 attaches...; Region: class_II_aaRS-like_core; cl00268 355278006674 active site 355278006675 motif 3; other site 355278006676 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 355278006677 anticodon binding site; other site 355278006678 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 355278006679 active site 355278006680 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 355278006681 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 355278006682 RIP metalloprotease RseP; Region: TIGR00054 355278006683 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 355278006684 putative substrate binding region [chemical binding]; other site 355278006685 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 355278006686 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 355278006687 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 355278006688 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 355278006689 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 355278006690 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 355278006691 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 355278006692 catalytic residue [active] 355278006693 putative FPP diphosphate binding site; other site 355278006694 putative FPP binding hydrophobic cleft; other site 355278006695 dimer interface [polypeptide binding]; other site 355278006696 putative IPP diphosphate binding site; other site 355278006697 ribosome recycling factor; Reviewed; Region: frr; PRK00083 355278006698 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 round of...; Region: RRF; cd00520 355278006699 hinge region; other site 355278006700 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 355278006701 putative nucleotide binding site [chemical binding]; other site 355278006702 uridine monophosphate binding site [chemical binding]; other site 355278006703 homohexameric interface [polypeptide binding]; other site 355278006704 elongation factor Ts; Reviewed; Region: tsf; PRK12332 355278006705 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 355278006706 Elongation factor TS; Region: EF_TS; pfam00889 355278006707 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 355278006708 rRNA interaction site [nucleotide binding]; other site 355278006709 S8 interaction site; other site 355278006710 putative laminin-1 binding site; other site 355278006711 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 355278006712 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 355278006713 active site 355278006714 homotetramer interface [polypeptide binding]; other site 355278006715 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355278006716 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 355278006717 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 355278006718 putative diguanylate cyclase; Provisional; Region: PRK09776 355278006719 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 355278006720 putative active site [active] 355278006721 heme pocket [chemical binding]; other site 355278006722 PAS domain S-box; Region: sensory_box; TIGR00229 355278006723 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 355278006724 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278006725 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 355278006726 dimer interface [polypeptide binding]; other site 355278006727 phosphorylation site [posttranslational modification] 355278006728 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006729 ATP binding site [chemical binding]; other site 355278006730 Mg2+ binding site [ion binding]; other site 355278006731 G-X-G motif; other site 355278006732 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 355278006733 putative dimer interface [polypeptide binding]; other site 355278006734 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278006735 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 355278006736 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006737 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 355278006738 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 355278006739 active site 355278006740 oxyanion hole [active] 355278006741 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278006742 dimer interface [polypeptide binding]; other site 355278006743 putative CheW interface [polypeptide binding]; other site 355278006744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278006745 metal binding site [ion binding]; metal-binding site 355278006746 active site 355278006747 I-site; other site 355278006748 PilZ domain; Region: PilZ; cl01260 355278006749 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 355278006750 active site residue [active] 355278006751 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278006752 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 355278006753 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 355278006754 HDOD domain; Region: HDOD; pfam08668 355278006755 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278006756 Predicted membrane protein [Function unknown]; Region: COG2860 355278006757 UPF0126 domain; Region: UPF0126; pfam03458 355278006758 UPF0126 domain; Region: UPF0126; pfam03458 355278006759 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 355278006760 Strictosidine synthase; Region: Str_synth; pfam03088 355278006761 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278006762 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 355278006763 putative acyl-acceptor binding pocket; other site 355278006764 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 355278006765 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278006766 ligand binding site [chemical binding]; other site 355278006767 flexible hinge region; other site 355278006768 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278006769 Cupin domain; Region: Cupin_2; cl09118 355278006770 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 355278006771 short chain dehydrogenase; Provisional; Region: PRK06197 355278006772 putative NAD(P) binding site [chemical binding]; other site 355278006773 active site 355278006774 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278006775 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 355278006776 putative active site [active] 355278006777 heme pocket [chemical binding]; other site 355278006778 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 355278006779 dimer interface [polypeptide binding]; other site 355278006780 phosphorylation site [posttranslational modification] 355278006781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006782 ATP binding site [chemical binding]; other site 355278006783 Mg2+ binding site [ion binding]; other site 355278006784 G-X-G motif; other site 355278006785 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278006786 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 355278006787 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 355278006788 Catalytic domain of Protein Kinases; Region: PKc; cd00180 355278006789 active site 355278006790 ATP binding site [chemical binding]; other site 355278006791 substrate binding site [chemical binding]; other site 355278006792 activation loop (A-loop); other site 355278006793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006794 Predicted ATPase [General function prediction only]; Region: COG3899 355278006795 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278006796 GAF domain; Region: GAF; cl15785 355278006797 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278006798 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355278006799 classical (c) SDRs; Region: SDR_c; cd05233 355278006800 NAD(P) binding site [chemical binding]; other site 355278006801 active site 355278006802 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 355278006803 PilZ domain; Region: PilZ; cl01260 355278006804 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 355278006805 Ligand Binding Site [chemical binding]; other site 355278006806 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 355278006807 dimer interface [polypeptide binding]; other site 355278006808 conserved gate region; other site 355278006809 putative PBP binding loops; other site 355278006810 ABC-ATPase subunit interface; other site 355278006811 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 355278006812 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 355278006813 dimer interface [polypeptide binding]; other site 355278006814 conserved gate region; other site 355278006815 putative PBP binding loops; other site 355278006816 ABC-ATPase subunit interface; other site 355278006817 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 355278006818 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006819 Walker A/P-loop; other site 355278006820 ATP binding site [chemical binding]; other site 355278006821 Q-loop/lid; other site 355278006822 ABC transporter signature motif; other site 355278006823 Walker B; other site 355278006824 D-loop; other site 355278006825 H-loop/switch region; other site 355278006826 TOBE domain; Region: TOBE_2; cl01440 355278006827 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 355278006828 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 355278006829 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 355278006830 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 355278006831 tetramerization interface [polypeptide binding]; other site 355278006832 NAD(P) binding site [chemical binding]; other site 355278006833 catalytic residues [active] 355278006834 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 355278006835 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 355278006836 inhibitor-cofactor binding pocket; inhibition site 355278006837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006838 catalytic residue [active] 355278006839 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 355278006840 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 355278006841 tetrameric interface [polypeptide binding]; other site 355278006842 NAD binding site [chemical binding]; other site 355278006843 catalytic residues [active] 355278006844 substrate binding site [chemical binding]; other site 355278006845 Domain of unknown function (DUF389); Region: DUF389; cl00781 355278006846 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 355278006847 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355278006848 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355278006849 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 355278006850 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 355278006851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278006852 ligand binding site [chemical binding]; other site 355278006853 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 355278006854 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278006855 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278006856 ABC transporter; Region: ABC_tran_2; pfam12848 355278006857 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278006858 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 355278006859 active site 355278006860 dimerization interface [polypeptide binding]; other site 355278006861 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 355278006862 anti sigma factor interaction site; other site 355278006863 regulatory phosphorylation site [posttranslational modification]; other site 355278006864 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 355278006865 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278006866 active site 355278006867 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 355278006868 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 355278006869 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278006870 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 355278006871 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 355278006872 putative active site [active] 355278006873 catalytic triad [active] 355278006874 putative dimer interface [polypeptide binding]; other site 355278006875 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 355278006876 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 355278006877 putative active site [active] 355278006878 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 355278006879 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; cl16911 355278006880 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278006881 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 355278006882 binding surface 355278006883 TPR motif; other site 355278006884 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 355278006885 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 355278006886 Subunit I/III interface [polypeptide binding]; other site 355278006887 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 355278006888 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 355278006889 D-pathway; other site 355278006890 Low-spin heme binding site [chemical binding]; other site 355278006891 Putative water exit pathway; other site 355278006892 Binuclear center (active site) [active] 355278006893 K-pathway; other site 355278006894 Putative proton exit pathway; other site 355278006895 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 355278006896 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355278006897 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 355278006898 Cytochrome c; Region: Cytochrom_C; cl11414 355278006899 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 355278006900 Cu(I) binding site [ion binding]; other site 355278006901 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 355278006902 UbiA prenyltransferase family; Region: UbiA; cl00337 355278006903 Repair protein; Region: Repair_PSII; cl01535 355278006904 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 355278006905 Repair protein; Region: Repair_PSII; cl01535 355278006906 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006907 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278006908 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 355278006909 Citrate synthase; Region: Citrate_synt; pfam00285 355278006910 oxalacetate binding site [chemical binding]; other site 355278006911 citrylCoA binding site [chemical binding]; other site 355278006912 coenzyme A binding site [chemical binding]; other site 355278006913 catalytic triad [active] 355278006914 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 355278006915 anti sigma factor interaction site; other site 355278006916 regulatory phosphorylation site [posttranslational modification]; other site 355278006917 Cytochrome c; Region: Cytochrom_C; cl11414 355278006918 Cytochrome c; Region: Cytochrom_C; cl11414 355278006919 TIGR01777 family protein; Region: yfcH 355278006920 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 355278006921 putative NAD(P) binding site [chemical binding]; other site 355278006922 putative active site [active] 355278006923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006924 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 355278006925 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 355278006926 metal ion-dependent adhesion site (MIDAS); other site 355278006927 DNA polymerase III PolC; Validated; Region: polC; PRK00448 355278006928 AMP-binding enzyme; Region: AMP-binding; cl15778 355278006929 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 355278006930 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278006931 active site 355278006932 nucleotide binding site [chemical binding]; other site 355278006933 HIGH motif; other site 355278006934 KMSKS motif; other site 355278006935 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006936 Phospholipid methyltransferase; Region: PEMT; cl00763 355278006937 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278006938 putative acyl-acceptor binding pocket; other site 355278006939 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 355278006940 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 355278006941 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 355278006942 active site 355278006943 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006945 active site 355278006946 phosphorylation site [posttranslational modification] 355278006947 intermolecular recognition site; other site 355278006948 dimerization interface [polypeptide binding]; other site 355278006949 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 355278006950 substrate binding site [chemical binding]; other site 355278006951 multimerization interface [polypeptide binding]; other site 355278006952 ATP binding site [chemical binding]; other site 355278006953 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 355278006954 thiamine phosphate binding site [chemical binding]; other site 355278006955 active site 355278006956 pyrophosphate binding site [ion binding]; other site 355278006957 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 355278006958 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 355278006959 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 355278006960 active site 355278006961 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 355278006962 ligand binding site [chemical binding]; other site 355278006963 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 355278006964 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278006965 active site 355278006966 nucleophile elbow; other site 355278006967 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278006968 Protein of unknown function DUF86; Region: DUF86; cl01031 355278006969 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 355278006970 YHYH protein; Region: YHYH; pfam14240 355278006971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278006972 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 355278006973 Cu(I) binding site [ion binding]; other site 355278006974 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355278006975 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355278006976 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278006977 Walker A/P-loop; other site 355278006978 ATP binding site [chemical binding]; other site 355278006979 Q-loop/lid; other site 355278006980 ABC transporter signature motif; other site 355278006981 Walker B; other site 355278006982 D-loop; other site 355278006983 H-loop/switch region; other site 355278006984 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278006985 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278006986 ABC transporter; Region: ABC_tran_2; pfam12848 355278006987 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 355278006988 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 355278006989 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355278006990 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 355278006991 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278006992 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355278006993 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 355278006994 metal-binding site [ion binding] 355278006995 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278006996 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355278006997 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 355278006998 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 355278006999 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 355278007000 DNA binding residues [nucleotide binding] 355278007001 dimer interface [polypeptide binding]; other site 355278007002 copper binding site [ion binding]; other site 355278007003 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 355278007004 catalytic triad [active] 355278007005 Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]; Region: RPL43A; cl00875 355278007006 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 355278007007 anti sigma factor interaction site; other site 355278007008 regulatory phosphorylation site [posttranslational modification]; other site 355278007009 Response regulator receiver domain; Region: Response_reg; pfam00072 355278007010 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007011 active site 355278007012 phosphorylation site [posttranslational modification] 355278007013 intermolecular recognition site; other site 355278007014 dimerization interface [polypeptide binding]; other site 355278007015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007016 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007017 ATP binding site [chemical binding]; other site 355278007018 Mg2+ binding site [ion binding]; other site 355278007019 G-X-G motif; other site 355278007020 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; cl00163 355278007021 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 355278007022 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 355278007023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278007024 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 355278007025 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 355278007026 motif II; other site 355278007027 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 355278007028 short chain dehydrogenase; Provisional; Region: PRK06181 355278007029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278007030 NAD(P) binding site [chemical binding]; other site 355278007031 active site 355278007032 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 355278007033 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 355278007034 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 355278007035 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278007036 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278007037 putative substrate translocation pore; other site 355278007038 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 355278007039 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 355278007040 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 355278007041 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 355278007042 GXWXG protein; Region: GXWXG; pfam14231 355278007043 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 355278007044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278007045 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 355278007046 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 355278007047 N-terminal plug; other site 355278007048 ligand-binding site [chemical binding]; other site 355278007049 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 355278007050 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 355278007051 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 355278007052 Sulfate transporter family; Region: Sulfate_transp; cl15842 355278007053 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 355278007054 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 355278007055 [4Fe-4S] binding site [ion binding]; other site 355278007056 molybdopterin cofactor binding site; other site 355278007057 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 355278007058 molybdopterin cofactor binding site; other site 355278007059 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 355278007060 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278007061 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 355278007062 nitrite reductase subunit NirD; Provisional; Region: PRK14989 355278007063 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278007064 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 355278007065 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 355278007066 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355278007067 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 355278007068 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355278007069 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355278007070 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 355278007071 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 355278007072 trimer interface [polypeptide binding]; other site 355278007073 dimer interface [polypeptide binding]; other site 355278007074 putative active site [active] 355278007075 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 355278007076 MPT binding site; other site 355278007077 trimer interface [polypeptide binding]; other site 355278007078 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 355278007079 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 355278007080 dimer interface [polypeptide binding]; other site 355278007081 putative functional site; other site 355278007082 putative MPT binding site; other site 355278007083 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 355278007084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278007085 putative substrate translocation pore; other site 355278007086 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 355278007087 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 355278007088 putative [Fe4-S4] binding site [ion binding]; other site 355278007089 putative molybdopterin cofactor binding site [chemical binding]; other site 355278007090 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 355278007091 putative molybdopterin cofactor binding site; other site 355278007092 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 355278007093 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 355278007094 ATP binding site [chemical binding]; other site 355278007095 substrate interface [chemical binding]; other site 355278007096 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 355278007097 active site residue [active] 355278007098 Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]; Region: MoaA; COG2896 355278007099 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 355278007100 FeS/SAM binding site; other site 355278007101 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 355278007102 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 355278007103 MoaE homodimer interface [polypeptide binding]; other site 355278007104 MoaD interaction [polypeptide binding]; other site 355278007105 active site residues [active] 355278007106 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 355278007107 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 355278007108 GTP binding site; other site 355278007109 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 355278007110 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 355278007111 active site 355278007112 motif I; other site 355278007113 motif II; other site 355278007114 Histidine kinase; Region: HisKA_2; cl06527 355278007115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007116 ATP binding site [chemical binding]; other site 355278007117 Mg2+ binding site [ion binding]; other site 355278007118 G-X-G motif; other site 355278007119 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 355278007120 putative active site [active] 355278007121 Zn binding site [ion binding]; other site 355278007122 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; cl12031 355278007123 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278007124 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278007125 Helix-turn-helix domains; Region: HTH; cl00088 355278007126 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 355278007127 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 355278007128 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 355278007129 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 355278007130 active site 355278007131 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 355278007132 ligand binding site [chemical binding]; other site 355278007133 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 355278007134 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007135 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 355278007136 dimer interface [polypeptide binding]; other site 355278007137 phosphorylation site [posttranslational modification] 355278007138 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007139 ATP binding site [chemical binding]; other site 355278007140 Mg2+ binding site [ion binding]; other site 355278007141 G-X-G motif; other site 355278007142 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278007143 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 355278007144 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278007145 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278007146 calcium mediated ligand binding site; other site 355278007147 intermolecular salt bridges; other site 355278007148 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278007149 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 355278007150 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007152 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 355278007153 active site residue [active] 355278007154 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 355278007155 RNA/DNA binding site [nucleotide binding]; other site 355278007156 RRM dimerization site [polypeptide binding]; other site 355278007157 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 355278007158 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 355278007159 catalytic loop [active] 355278007160 iron binding site [ion binding]; other site 355278007161 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD...; Region: oxygenase_e_transfer_subunit; cd06213 355278007162 FAD binding pocket [chemical binding]; other site 355278007163 FAD binding motif [chemical binding]; other site 355278007164 phosphate binding motif [ion binding]; other site 355278007165 beta-alpha-beta structure motif; other site 355278007166 NAD binding pocket [chemical binding]; other site 355278007167 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 355278007168 Di-iron ligands [ion binding]; other site 355278007169 Helix-turn-helix domains; Region: HTH; cl00088 355278007170 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 355278007171 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 355278007172 DNA binding residues [nucleotide binding] 355278007173 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 355278007174 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 355278007175 Herpesvirus UL46 protein; Region: Herpes_UL46; pfam03387 355278007176 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278007177 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355278007178 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 355278007179 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 355278007180 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007181 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007182 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 355278007183 Bacterial SH3 domain; Region: SH3_3; cl02551 355278007184 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 355278007185 binding surface 355278007186 TPR motif; other site 355278007187 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 355278007188 binding surface 355278007189 TPR motif; other site 355278007190 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007192 DJ-1 family protein; Region: not_thiJ; TIGR01383 355278007193 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 355278007194 conserved cys residue [active] 355278007195 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 355278007196 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 355278007197 ATP binding site [chemical binding]; other site 355278007198 Mg++ binding site [ion binding]; other site 355278007199 motif III; other site 355278007200 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 355278007201 nucleotide binding region [chemical binding]; other site 355278007202 ATP-binding site [chemical binding]; other site 355278007203 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 355278007204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278007205 Coenzyme A binding pocket [chemical binding]; other site 355278007206 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007207 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007208 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 355278007209 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 355278007210 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 355278007211 conserved gate region; other site 355278007212 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 355278007213 active site 355278007214 phosphorylation site [posttranslational modification] 355278007215 phosphoenolpyruvate carboxylase, archaeal type; Region: PEPCase_arch; TIGR02751 355278007216 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 355278007217 4Fe-4S binding domain; Region: Fer4; cl02805 355278007218 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 355278007219 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 355278007220 DXD motif; other site 355278007221 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278007222 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 355278007223 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 355278007224 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 355278007225 S-adenosylmethionine binding site [chemical binding]; other site 355278007226 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 355278007227 RNA/DNA hybrid binding site [nucleotide binding]; other site 355278007228 active site 355278007229 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278007230 metal binding site 2 [ion binding]; metal-binding site 355278007231 putative DNA binding helix; other site 355278007232 metal binding site 1 [ion binding]; metal-binding site 355278007233 dimer interface [polypeptide binding]; other site 355278007234 structural Zn2+ binding site [ion binding]; other site 355278007235 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 355278007236 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 355278007237 active site 355278007238 NTP binding site [chemical binding]; other site 355278007239 metal binding triad [ion binding]; metal-binding site 355278007240 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 355278007241 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278007242 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 355278007243 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 355278007244 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278007245 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278007246 dimer interface [polypeptide binding]; other site 355278007247 putative CheW interface [polypeptide binding]; other site 355278007248 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 355278007249 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 355278007250 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 355278007251 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 355278007252 nucleotide binding region [chemical binding]; other site 355278007253 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 355278007254 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 355278007255 catalytic triad [active] 355278007256 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278007257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 355278007258 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 355278007259 HDOD domain; Region: HDOD; pfam08668 355278007260 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278007261 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 355278007262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278007263 Walker A/P-loop; other site 355278007264 ATP binding site [chemical binding]; other site 355278007265 Q-loop/lid; other site 355278007266 ABC transporter signature motif; other site 355278007267 Walker B; other site 355278007268 D-loop; other site 355278007269 H-loop/switch region; other site 355278007270 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007271 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007272 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007273 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 355278007275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 355278007276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 355278007277 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278007278 extended (e) SDRs; Region: SDR_e; cd08946 355278007279 NAD(P) binding site [chemical binding]; other site 355278007280 active site 355278007281 substrate binding site [chemical binding]; other site 355278007282 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 355278007283 dimerization interface [polypeptide binding]; other site 355278007284 putative DNA binding site [nucleotide binding]; other site 355278007285 putative Zn2+ binding site [ion binding]; other site 355278007286 Low molecular weight phosphatase family; Region: LMWPc; cd00115 355278007287 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 355278007288 active site 355278007289 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 355278007290 Membrane transport protein; Region: Mem_trans; cl09117 355278007291 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 355278007292 putative active site [active] 355278007293 putative FMN binding site [chemical binding]; other site 355278007294 putative substrate binding site [chemical binding]; other site 355278007295 putative catalytic residue [active] 355278007296 GAF domain; Region: GAF_2; pfam13185 355278007297 GAF domain; Region: GAF; cl15785 355278007298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278007299 metal binding site [ion binding]; metal-binding site 355278007300 active site 355278007301 I-site; other site 355278007302 putative diguanylate cyclase; Provisional; Region: PRK09776 355278007303 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 355278007304 PAS domain; Region: PAS_9; pfam13426 355278007305 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 355278007306 putative active site [active] 355278007307 heme pocket [chemical binding]; other site 355278007308 PAS domain S-box; Region: sensory_box; TIGR00229 355278007309 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 355278007310 putative active site [active] 355278007311 heme pocket [chemical binding]; other site 355278007312 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 355278007313 phosphorylation site [posttranslational modification] 355278007314 dimer interface [polypeptide binding]; other site 355278007315 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 355278007316 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278007317 Coenzyme A binding pocket [chemical binding]; other site 355278007318 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278007319 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278007320 active site 355278007321 Serine carboxypeptidase S28; Region: Peptidase_S28; cl15279 355278007322 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355278007323 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 355278007324 NADP binding site [chemical binding]; other site 355278007325 substrate binding site [chemical binding]; other site 355278007326 active site 355278007327 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 355278007328 putative hydrophobic ligand binding site [chemical binding]; other site 355278007329 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 355278007330 dimerization interface [polypeptide binding]; other site 355278007331 putative DNA binding site [nucleotide binding]; other site 355278007332 putative Zn2+ binding site [ion binding]; other site 355278007333 Rhomboid family; Region: Rhomboid; cl11446 355278007334 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 355278007335 active site 355278007336 GAF domain; Region: GAF_2; pfam13185 355278007337 cyclase homology domain; Region: CHD; cd07302 355278007338 nucleotidyl binding site; other site 355278007339 metal binding site [ion binding]; metal-binding site 355278007340 dimer interface [polypeptide binding]; other site 355278007341 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 355278007342 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278007343 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 355278007344 S-adenosylmethionine binding site [chemical binding]; other site 355278007345 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 355278007346 binding surface 355278007347 TPR repeat; Region: TPR_11; pfam13414 355278007348 TPR motif; other site 355278007349 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278007350 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 355278007351 binding surface 355278007352 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278007353 TPR motif; other site 355278007354 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 355278007355 binding surface 355278007356 TPR motif; other site 355278007357 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 355278007358 binding surface 355278007359 TPR motif; other site 355278007360 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278007361 TPR repeat; Region: TPR_11; pfam13414 355278007362 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 355278007363 binding surface 355278007364 TPR motif; other site 355278007365 TPR repeat; Region: TPR_11; pfam13414 355278007366 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 355278007367 binding surface 355278007368 TPR motif; other site 355278007369 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007370 FecR protein; Region: FecR; pfam04773 355278007371 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 355278007372 Predicted GTPases [General function prediction only]; Region: COG1162 355278007373 RNA binding site [nucleotide binding]; other site 355278007374 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 355278007375 GTPase/Zn-binding domain interface [polypeptide binding]; other site 355278007376 GTP/Mg2+ binding site [chemical binding]; other site 355278007377 G4 box; other site 355278007378 G5 box; other site 355278007379 G1 box; other site 355278007380 Switch I region; other site 355278007381 G2 box; other site 355278007382 G3 box; other site 355278007383 Switch II region; other site 355278007384 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355278007385 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 355278007386 dimer interface [polypeptide binding]; other site 355278007387 phosphorylation site [posttranslational modification] 355278007388 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 355278007389 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007390 ATP binding site [chemical binding]; other site 355278007391 Mg2+ binding site [ion binding]; other site 355278007392 G-X-G motif; other site 355278007393 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 355278007394 Di-iron ligands [ion binding]; other site 355278007395 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 355278007396 dimer interface [polypeptide binding]; other site 355278007397 catalytic triad [active] 355278007398 peroxidatic and resolving cysteines [active] 355278007399 AAA domain; Region: AAA_23; pfam13476 355278007400 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278007401 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 355278007402 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 355278007403 ATP binding site [chemical binding]; other site 355278007404 Q-loop/lid; other site 355278007405 ABC transporter signature motif; other site 355278007406 Walker B; other site 355278007407 D-loop; other site 355278007408 H-loop/switch region; other site 355278007409 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 355278007410 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278007411 active site 355278007412 metal binding site [ion binding]; metal-binding site 355278007413 DNA binding site [nucleotide binding] 355278007414 Actin depolymerization factor/cofilin- and gelsolin-like domains; Region: ADF_gelsolin; cl15697 355278007415 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 355278007416 CoA-transferase family III; Region: CoA_transf_3; pfam02515 355278007417 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355278007418 Sulfatase; Region: Sulfatase; cl10460 355278007419 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 355278007420 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; cl12031 355278007421 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278007422 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; cl12031 355278007423 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278007424 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 355278007425 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278007426 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 355278007427 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278007428 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 355278007429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278007430 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278007431 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; cl16911 355278007432 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 355278007433 S-adenosylmethionine binding site [chemical binding]; other site 355278007434 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355278007435 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 355278007436 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 355278007437 Protein of unknown function (DUF342); Region: DUF342; pfam03961 355278007438 Transcriptional activator; Region: Transcrip_act; pfam04949 355278007439 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 355278007440 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 355278007441 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 355278007442 CHAT domain; Region: CHAT; pfam12770 355278007443 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278007444 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278007445 AMP-binding enzyme; Region: AMP-binding; cl15778 355278007446 AMP-binding enzyme; Region: AMP-binding; cl15778 355278007447 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007449 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 355278007450 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 355278007451 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 355278007452 generic binding surface I; other site 355278007453 generic binding surface II; other site 355278007454 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 355278007455 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 355278007456 putative dimer interface [polypeptide binding]; other site 355278007457 active site pocket [active] 355278007458 putative cataytic base [active] 355278007459 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 355278007460 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 355278007461 catalytic core [active] 355278007462 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 355278007463 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 355278007464 GatB domain; Region: GatB_Yqey; cl11497 355278007465 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 355278007466 octamerization interface [polypeptide binding]; other site 355278007467 diferric-oxygen binding site [ion binding]; other site 355278007468 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 355278007469 octamerization interface [polypeptide binding]; other site 355278007470 diferric-oxygen binding site [ion binding]; other site 355278007471 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 355278007472 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 355278007473 NAD(P) binding site [chemical binding]; other site 355278007474 catalytic residues [active] 355278007475 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 355278007476 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007477 cyclase homology domain; Region: CHD; cd07302 355278007478 nucleotidyl binding site; other site 355278007479 metal binding site [ion binding]; metal-binding site 355278007480 dimer interface [polypeptide binding]; other site 355278007481 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007482 cyclase homology domain; Region: CHD; cd07302 355278007483 nucleotidyl binding site; other site 355278007484 metal binding site [ion binding]; metal-binding site 355278007485 dimer interface [polypeptide binding]; other site 355278007486 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 355278007487 FliG C-terminal domain; Region: FliG_C; pfam01706 355278007488 flagellar assembly protein H; Validated; Region: fliH; PRK06669 355278007489 Flagellar assembly protein FliH; Region: FliH; pfam02108 355278007490 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007491 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007492 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007493 ATP binding site [chemical binding]; other site 355278007494 Mg2+ binding site [ion binding]; other site 355278007495 G-X-G motif; other site 355278007496 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 355278007497 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007498 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278007499 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 355278007500 ligand binding site [chemical binding]; other site 355278007501 flexible hinge region; other site 355278007502 Helix-turn-helix domains; Region: HTH; cl00088 355278007503 NnrS protein; Region: NnrS; cl01258 355278007504 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 355278007505 metal ion-dependent adhesion site (MIDAS); other site 355278007506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278007507 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 355278007508 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 355278007509 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 355278007510 Binuclear center (active site) [active] 355278007511 K-pathway; other site 355278007512 Putative proton exit pathway; other site 355278007513 Cytochrome c; Region: Cytochrom_C; cl11414 355278007514 Cytochrome c; Region: Cytochrom_C; cl11414 355278007515 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 355278007516 Subunit I/III interface [polypeptide binding]; other site 355278007517 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 355278007518 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 355278007519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278007520 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278007521 putative substrate translocation pore; other site 355278007522 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 355278007523 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 355278007524 TPR motif; other site 355278007525 binding surface 355278007526 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 355278007527 binding surface 355278007528 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278007529 TPR motif; other site 355278007530 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 355278007531 binding surface 355278007532 TPR motif; other site 355278007533 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 355278007534 glycogen binding site [chemical binding]; other site 355278007535 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 355278007536 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 355278007537 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 355278007538 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 355278007539 PYR/PP interface [polypeptide binding]; other site 355278007540 dimer interface [polypeptide binding]; other site 355278007541 TPP binding site [chemical binding]; other site 355278007542 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355278007543 S-adenosylmethionine synthetase; Validated; Region: PRK05250 355278007544 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 355278007545 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 355278007546 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 355278007547 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 355278007548 putative acyl-acceptor binding pocket; other site 355278007549 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 355278007550 NADH(P)-binding; Region: NAD_binding_10; pfam13460 355278007551 NAD binding site [chemical binding]; other site 355278007552 active site 355278007553 PilZ domain; Region: PilZ; cl01260 355278007554 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278007555 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 355278007556 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 355278007557 dimer interface [polypeptide binding]; other site 355278007558 ssDNA binding site [nucleotide binding]; other site 355278007559 tetramer (dimer of dimers) interface [polypeptide binding]; other site 355278007560 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 355278007561 PAS domain; Region: PAS_9; pfam13426 355278007562 putative active site [active] 355278007563 heme pocket [chemical binding]; other site 355278007564 PAS domain S-box; Region: sensory_box; TIGR00229 355278007565 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 355278007566 putative active site [active] 355278007567 heme pocket [chemical binding]; other site 355278007568 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007569 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007570 ATP binding site [chemical binding]; other site 355278007571 Mg2+ binding site [ion binding]; other site 355278007572 G-X-G motif; other site 355278007573 Response regulator receiver domain; Region: Response_reg; pfam00072 355278007574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007575 active site 355278007576 phosphorylation site [posttranslational modification] 355278007577 intermolecular recognition site; other site 355278007578 dimerization interface [polypeptide binding]; other site 355278007579 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 355278007580 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 355278007581 active site 355278007582 FMN binding site [chemical binding]; other site 355278007583 substrate binding site [chemical binding]; other site 355278007584 3Fe-4S cluster binding site [ion binding]; other site 355278007585 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007586 cyclase homology domain; Region: CHD; cd07302 355278007587 nucleotidyl binding site; other site 355278007588 metal binding site [ion binding]; metal-binding site 355278007589 dimer interface [polypeptide binding]; other site 355278007590 ethanolamine permease; Region: 2A0305; TIGR00908 355278007591 Spore germination protein; Region: Spore_permease; cl15802 355278007592 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278007593 Repair protein; Region: Repair_PSII; cl01535 355278007594 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 355278007595 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 355278007596 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 355278007597 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 355278007598 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 355278007599 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 355278007600 active site 355278007601 substrate-binding site [chemical binding]; other site 355278007602 metal-binding site [ion binding] 355278007603 ATP binding site [chemical binding]; other site 355278007604 glycogen synthase; Provisional; Region: glgA; PRK00654 355278007605 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 355278007606 ADP-binding pocket [chemical binding]; other site 355278007607 homodimer interface [polypeptide binding]; other site 355278007608 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 355278007609 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 355278007610 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278007611 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278007612 Cupin domain; Region: Cupin_2; cl09118 355278007613 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007614 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 355278007615 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278007617 NADH(P)-binding; Region: NAD_binding_10; pfam13460 355278007618 NAD(P) binding site [chemical binding]; other site 355278007619 active site 355278007620 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 355278007621 hypothetical protein; Provisional; Region: PRK10318 355278007622 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 355278007623 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278007624 Helix-turn-helix domains; Region: HTH; cl00088 355278007625 Sulfatase; Region: Sulfatase; cl10460 355278007626 Transglycosylase; Region: Transgly; cl07896 355278007627 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 355278007628 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278007629 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 355278007630 MG2 domain; Region: A2M_N; pfam01835 355278007631 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 355278007632 Alpha-2-macroglobulin family; Region: A2M; pfam00207 355278007633 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 355278007634 PAS fold; Region: PAS_3; pfam08447 355278007635 PAS domain S-box; Region: sensory_box; TIGR00229 355278007636 putative diguanylate cyclase; Provisional; Region: PRK09776 355278007637 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 355278007638 dimer interface [polypeptide binding]; other site 355278007639 phosphorylation site [posttranslational modification] 355278007640 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007641 ATP binding site [chemical binding]; other site 355278007642 Mg2+ binding site [ion binding]; other site 355278007643 G-X-G motif; other site 355278007644 Response regulator receiver domain; Region: Response_reg; pfam00072 355278007645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007646 active site 355278007647 phosphorylation site [posttranslational modification] 355278007648 intermolecular recognition site; other site 355278007649 dimerization interface [polypeptide binding]; other site 355278007650 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 355278007651 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 355278007652 catalytic residue [active] 355278007653 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278007654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278007655 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278007656 peroxiredoxin; Region: AhpC; TIGR03137 355278007657 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 355278007658 dimer interface [polypeptide binding]; other site 355278007659 decamer (pentamer of dimers) interface [polypeptide binding]; other site 355278007660 catalytic triad [active] 355278007661 peroxidatic and resolving cysteines [active] 355278007662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 355278007663 Helix-turn-helix domains; Region: HTH; cl00088 355278007664 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 355278007665 dimerization interface [polypeptide binding]; other site 355278007666 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007667 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278007668 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278007669 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 355278007670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007671 active site 355278007672 phosphorylation site [posttranslational modification] 355278007673 intermolecular recognition site; other site 355278007674 dimerization interface [polypeptide binding]; other site 355278007675 LytTr DNA-binding domain; Region: LytTR; cl04498 355278007676 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 355278007677 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 355278007678 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; cl01155 355278007679 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278007680 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355278007681 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278007682 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007683 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 355278007684 Histidine kinase; Region: His_kinase; pfam06580 355278007685 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 355278007686 Cu(I) binding site [ion binding]; other site 355278007687 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355278007688 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355278007689 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355278007690 Pectinesterase; Region: Pectinesterase; cl01911 355278007691 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 355278007692 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 355278007693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278007694 Helix-turn-helix domains; Region: HTH; cl00088 355278007695 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 355278007696 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 355278007697 Walker A/P-loop; other site 355278007698 ATP binding site [chemical binding]; other site 355278007699 Q-loop/lid; other site 355278007700 ABC transporter signature motif; other site 355278007701 Walker B; other site 355278007702 D-loop; other site 355278007703 H-loop/switch region; other site 355278007704 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278007705 FtsX-like permease family; Region: FtsX; cl15850 355278007706 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278007707 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 355278007708 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 355278007709 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278007710 Repair protein; Region: Repair_PSII; cl01535 355278007711 Sulfate transporter family; Region: Sulfate_transp; cl15842 355278007712 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278007713 Sulfate transporter family; Region: Sulfate_transp; cl15842 355278007714 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007715 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007717 Domain of unknown function (DUF897); Region: DUF897; cl01312 355278007718 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355278007719 Helix-turn-helix domains; Region: HTH; cl00088 355278007720 WHG domain; Region: WHG; pfam13305 355278007721 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278007722 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278007723 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 355278007724 S-adenosylmethionine binding site [chemical binding]; other site 355278007725 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; cl16911 355278007726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 355278007727 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278007728 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 355278007729 ligand binding site [chemical binding]; other site 355278007730 flexible hinge region; other site 355278007731 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278007732 cyclase homology domain; Region: CHD; cd07302 355278007733 nucleotidyl binding site; other site 355278007734 metal binding site [ion binding]; metal-binding site 355278007735 dimer interface [polypeptide binding]; other site 355278007736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 355278007737 Helix-turn-helix domains; Region: HTH; cl00088 355278007738 WHG domain; Region: WHG; pfam13305 355278007739 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 355278007740 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 355278007741 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 355278007742 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007743 ankyrin repeat protein; Provisional; Region: PHA02876 355278007744 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 355278007745 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 355278007746 NAD(P) binding site [chemical binding]; other site 355278007747 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 355278007748 Protein of unknown function (DUF497); Region: DUF497; cl01108 355278007749 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 355278007750 S-adenosylmethionine binding site [chemical binding]; other site 355278007751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355278007752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355278007753 PemK-like protein; Region: PemK; cl00995 355278007754 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 355278007755 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007756 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007757 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 355278007758 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007759 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 355278007760 rod shape-determining protein MreC; Region: MreC; pfam04085 355278007761 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 355278007762 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 355278007763 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355278007764 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355278007765 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355278007766 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 355278007767 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 355278007768 active site 355278007769 Riboflavin kinase; Region: Flavokinase; cl03312 355278007770 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 355278007771 anti sigma factor interaction site; other site 355278007772 regulatory phosphorylation site [posttranslational modification]; other site 355278007773 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 355278007774 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 355278007775 HSP70 interaction site [polypeptide binding]; other site 355278007776 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 355278007777 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 355278007778 Pirin-related protein [General function prediction only]; Region: COG1741 355278007779 Cupin domain; Region: Cupin_2; cl09118 355278007780 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 355278007781 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 355278007782 putative hydrophobic ligand binding site [chemical binding]; other site 355278007783 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 355278007784 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278007785 putative substrate translocation pore; other site 355278007786 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355278007787 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 355278007788 dimer interface [polypeptide binding]; other site 355278007789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278007790 catalytic residue [active] 355278007791 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 355278007792 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278007793 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278007794 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 355278007795 Helix-turn-helix domains; Region: HTH; cl00088 355278007796 Integrase core domain; Region: rve; cl01316 355278007797 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 355278007798 Cytochrome c; Region: Cytochrom_C; cl11414 355278007799 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 355278007800 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 355278007801 AMP-binding enzyme; Region: AMP-binding; cl15778 355278007802 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278007803 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278007804 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278007805 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278007806 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 355278007807 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 355278007808 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 355278007809 Dienelactone hydrolase family; Region: DLH; pfam01738 355278007810 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278007811 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 355278007812 active site 355278007813 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 355278007814 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 355278007815 putative di-iron ligands [ion binding]; other site 355278007816 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_2; cd06216 355278007817 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 355278007818 FAD binding pocket [chemical binding]; other site 355278007819 FAD binding motif [chemical binding]; other site 355278007820 phosphate binding motif [ion binding]; other site 355278007821 beta-alpha-beta structure motif; other site 355278007822 NAD binding pocket [chemical binding]; other site 355278007823 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 355278007824 catalytic loop [active] 355278007825 iron binding site [ion binding]; other site 355278007826 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 355278007827 Helix-turn-helix domains; Region: HTH; cl00088 355278007828 Response regulator receiver domain; Region: Response_reg; pfam00072 355278007829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007830 active site 355278007831 phosphorylation site [posttranslational modification] 355278007832 intermolecular recognition site; other site 355278007833 dimerization interface [polypeptide binding]; other site 355278007834 PAS domain S-box; Region: sensory_box; TIGR00229 355278007835 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 355278007836 putative active site [active] 355278007837 heme pocket [chemical binding]; other site 355278007838 PAS domain S-box; Region: sensory_box; TIGR00229 355278007839 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 355278007840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278007841 Histidine kinase; Region: HisKA_2; cl06527 355278007842 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007843 ATP binding site [chemical binding]; other site 355278007844 Mg2+ binding site [ion binding]; other site 355278007845 G-X-G motif; other site 355278007846 TRL-like protein family; Region: TRL; pfam13146 355278007847 TRL-like protein family; Region: TRL; pfam13146 355278007848 TRL-like protein family; Region: TRL; pfam13146 355278007849 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 355278007850 active site 355278007851 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 355278007852 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 355278007853 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 355278007854 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278007855 putative NAD(P) binding site [chemical binding]; other site 355278007856 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278007857 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 355278007858 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 355278007859 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 355278007860 putative NAD(P) binding site [chemical binding]; other site 355278007861 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 355278007862 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 355278007863 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278007864 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007865 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278007866 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 355278007867 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 355278007868 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 355278007869 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 355278007870 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 355278007871 RNA/DNA binding site [nucleotide binding]; other site 355278007872 RRM dimerization site [polypeptide binding]; other site 355278007873 AAA domain; Region: AAA_33; pfam13671 355278007874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278007875 fumarate hydratase; Reviewed; Region: fumC; PRK00485 355278007876 Class II fumarases; Region: Fumarase_classII; cd01362 355278007877 active site 355278007878 tetramer interface [polypeptide binding]; other site 355278007879 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 355278007880 putative hydrophobic ligand binding site [chemical binding]; other site 355278007881 putative Hsp90 binding residues [polypeptide binding]; other site 355278007882 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 355278007883 S-adenosylmethionine binding site [chemical binding]; other site 355278007884 Escherichia coli YaeB and related proteins; Region: UPF0066; cl00749 355278007885 homodimer interaction site [polypeptide binding]; other site 355278007886 cofactor binding site; other site 355278007887 Glyco_18 domain; Region: Glyco_18; smart00636 355278007888 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 355278007889 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 355278007890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278007891 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355278007892 fumarate hydratase; Provisional; Region: PRK15389 355278007893 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 355278007894 Fumarase C-terminus; Region: Fumerase_C; cl00795 355278007895 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 355278007896 S-adenosylmethionine binding site [chemical binding]; other site 355278007897 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 355278007898 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 355278007899 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278007900 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355278007901 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 355278007902 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278007903 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278007904 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278007905 Helix-turn-helix domains; Region: HTH; cl00088 355278007906 Protein of unknown function (DUF419); Region: DUF419; cl15265 355278007907 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278007908 ligand binding site [chemical binding]; other site 355278007909 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 355278007910 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 355278007911 RNA binding surface [nucleotide binding]; other site 355278007912 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278007913 active site 355278007914 Integral membrane protein TerC family; Region: TerC; cl10468 355278007915 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 355278007916 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007917 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007918 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 355278007919 dimer interface [polypeptide binding]; other site 355278007920 phosphorylation site [posttranslational modification] 355278007921 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007922 ATP binding site [chemical binding]; other site 355278007923 Mg2+ binding site [ion binding]; other site 355278007924 G-X-G motif; other site 355278007925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007926 Response regulator receiver domain; Region: Response_reg; pfam00072 355278007927 active site 355278007928 phosphorylation site [posttranslational modification] 355278007929 intermolecular recognition site; other site 355278007930 dimerization interface [polypeptide binding]; other site 355278007931 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278007932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007933 active site 355278007934 phosphorylation site [posttranslational modification] 355278007935 intermolecular recognition site; other site 355278007936 dimerization interface [polypeptide binding]; other site 355278007937 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 355278007938 DNA binding residues [nucleotide binding] 355278007939 dimerization interface [polypeptide binding]; other site 355278007940 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 355278007941 catalytic core [active] 355278007942 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278007943 active site 355278007944 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 355278007945 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 355278007946 dimerization interface [polypeptide binding]; other site 355278007947 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278007948 ligand binding site [chemical binding]; other site 355278007949 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278007950 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355278007951 Sulfatase; Region: Sulfatase; cl10460 355278007952 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 355278007953 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; cl12031 355278007954 (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 355278007955 active site 355278007956 catalytic site [active] 355278007957 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 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...; Region: SAV4209_like; cd03453 355278007958 active site 355278007959 catalytic site [active] 355278007960 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 355278007961 VanW like protein; Region: VanW; pfam04294 355278007962 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 355278007963 catalytic residues [active] 355278007964 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 355278007965 ligand binding site [chemical binding]; other site 355278007966 flexible hinge region; other site 355278007967 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 355278007968 potential catalytic triad [active] 355278007969 conserved cys residue [active] 355278007970 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278007971 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 355278007972 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 355278007973 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 355278007974 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 355278007975 NADP binding site [chemical binding]; other site 355278007976 putative substrate binding site [chemical binding]; other site 355278007977 active site 355278007978 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 355278007979 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 355278007980 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 355278007981 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR3; cd08275 355278007982 Enoylreductase; Region: PKS_ER; smart00829 355278007983 putative NAD(P) binding site [chemical binding]; other site 355278007984 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 355278007985 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 355278007986 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 355278007987 lipoyl attachment site [posttranslational modification]; other site 355278007988 glycine dehydrogenase; Provisional; Region: PRK05367 355278007989 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 355278007990 tetramer interface [polypeptide binding]; other site 355278007991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278007992 catalytic residue [active] 355278007993 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 355278007994 tetramer interface [polypeptide binding]; other site 355278007995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278007996 catalytic residue [active] 355278007997 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 355278007998 dimer interface [polypeptide binding]; other site 355278007999 [2Fe-2S] cluster binding site [ion binding]; other site 355278008000 Cytochrome c; Region: Cytochrom_C; cl11414 355278008001 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 355278008002 active site 355278008003 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 355278008004 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 355278008005 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 355278008006 B12 binding site [chemical binding]; other site 355278008007 cobalt ligand [ion binding]; other site 355278008008 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 355278008009 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 355278008010 Walker A; other site 355278008011 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 355278008012 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278008013 putative acyl-acceptor binding pocket; other site 355278008014 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 355278008015 active site 355278008016 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 355278008017 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008019 active site 355278008020 phosphorylation site [posttranslational modification] 355278008021 intermolecular recognition site; other site 355278008022 dimerization interface [polypeptide binding]; other site 355278008023 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278008024 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 355278008025 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 355278008026 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 355278008027 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 355278008028 protein binding site [polypeptide binding]; other site 355278008029 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 355278008030 active site residue [active] 355278008031 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 355278008032 active site residue [active] 355278008033 alpha-glucosidase; Provisional; Region: PRK10426 355278008034 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 355278008035 putative active site [active] 355278008036 putative catalytic site [active] 355278008037 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278008038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278008039 active site 355278008040 metal binding site [ion binding]; metal-binding site 355278008041 OsmC-like protein; Region: OsmC; cl00767 355278008042 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 355278008043 putative acyl-acceptor binding pocket; other site 355278008044 Global regulator protein family; Region: CsrA; cl00670 355278008045 FliW protein; Region: FliW; cl00740 355278008046 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 355278008047 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278008048 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 355278008049 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 355278008050 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 355278008051 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355278008052 FlgN protein; Region: FlgN; cl09176 355278008053 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 355278008054 Protein of unknown function (DUF962); Region: DUF962; cl01879 355278008055 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355278008056 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355278008057 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278008058 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 355278008059 DNA binding residues [nucleotide binding] 355278008060 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 355278008061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008062 active site 355278008063 phosphorylation site [posttranslational modification] 355278008064 intermolecular recognition site; other site 355278008065 dimerization interface [polypeptide binding]; other site 355278008066 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 355278008067 DNA binding site [nucleotide binding] 355278008068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 355278008069 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 355278008070 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 355278008071 dimer interface [polypeptide binding]; other site 355278008072 phosphorylation site [posttranslational modification] 355278008073 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008074 ATP binding site [chemical binding]; other site 355278008075 Mg2+ binding site [ion binding]; other site 355278008076 G-X-G motif; other site 355278008077 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 355278008078 heterotetramer interface [polypeptide binding]; other site 355278008079 active site pocket [active] 355278008080 cleavage site 355278008081 GAF domain; Region: GAF_2; pfam13185 355278008082 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278008083 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278008084 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 355278008085 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278008086 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 355278008087 NAD binding site [chemical binding]; other site 355278008088 putative substrate binding site 2 [chemical binding]; other site 355278008089 putative substrate binding site 1 [chemical binding]; other site 355278008090 active site 355278008091 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 355278008092 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 355278008093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008094 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 355278008095 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 355278008096 putative acyl-acceptor binding pocket; other site 355278008097 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 355278008098 active site 355278008099 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 355278008100 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 ATP-dependent...; Region: HisRS-like_core; cd00773 355278008101 dimer interface [polypeptide binding]; other site 355278008102 motif 1; other site 355278008103 active site 355278008104 motif 2; other site 355278008105 motif 3; other site 355278008106 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 355278008107 anticodon binding site; other site 355278008108 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278008109 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278008110 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278008111 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278008112 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278008113 ligand binding site [chemical binding]; other site 355278008114 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 355278008115 dihydropteroate synthase; Region: DHPS; TIGR01496 355278008116 substrate binding pocket [chemical binding]; other site 355278008117 dimer interface [polypeptide binding]; other site 355278008118 inhibitor binding site; inhibition site 355278008119 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 355278008120 binding surface 355278008121 TPR repeat; Region: TPR_11; pfam13414 355278008122 TPR motif; other site 355278008123 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 355278008124 TPR repeat; Region: TPR_11; pfam13414 355278008125 binding surface 355278008126 TPR motif; other site 355278008127 TPR repeat; Region: TPR_11; pfam13414 355278008128 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 355278008129 binding surface 355278008130 TPR motif; other site 355278008131 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 355278008132 binding surface 355278008133 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008134 TPR motif; other site 355278008135 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 355278008136 rare lipoprotein A; Region: rlpA; TIGR00413 355278008137 Sporulation related domain; Region: SPOR; cl10051 355278008138 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 355278008139 dimerization interface [polypeptide binding]; other site 355278008140 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278008141 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008142 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 355278008143 binding surface 355278008144 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008145 TPR motif; other site 355278008146 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008147 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278008148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278008149 dimer interface [polypeptide binding]; other site 355278008150 putative CheW interface [polypeptide binding]; other site 355278008151 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 355278008152 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 355278008153 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 355278008154 trimer interface [polypeptide binding]; other site 355278008155 active site 355278008156 enoyl-CoA hydratase; Provisional; Region: PRK07657 355278008157 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 355278008158 substrate binding site [chemical binding]; other site 355278008159 oxyanion hole (OAH) forming residues; other site 355278008160 trimer interface [polypeptide binding]; other site 355278008161 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278008162 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 355278008163 active site 355278008164 metal binding site [ion binding]; metal-binding site 355278008165 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 355278008166 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278008167 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278008168 putative substrate translocation pore; other site 355278008169 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278008170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008171 NAD(P) binding site [chemical binding]; other site 355278008172 active site 355278008173 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 355278008174 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 355278008175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278008176 homodimer interface [polypeptide binding]; other site 355278008177 catalytic residue [active] 355278008178 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 355278008179 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278008180 active site 355278008181 nucleophile elbow; other site 355278008182 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 355278008183 Peptidase family M48; Region: Peptidase_M48; cl12018 355278008184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008185 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 355278008186 NAD(P) binding site [chemical binding]; other site 355278008187 active site 355278008188 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 355278008189 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 355278008190 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 355278008191 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 355278008192 active site 355278008193 dimerization interface [polypeptide binding]; other site 355278008194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 355278008195 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 355278008196 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 355278008197 active site 355278008198 DNA binding site [nucleotide binding] 355278008199 Int/Topo IB signature motif; other site 355278008200 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 355278008201 anti sigma factor interaction site; other site 355278008202 regulatory phosphorylation site [posttranslational modification]; other site 355278008203 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355278008204 Type III pantothenate kinase; Region: Pan_kinase; cl09130 355278008205 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 355278008206 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 355278008207 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278008208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008209 NAD(P) binding site [chemical binding]; other site 355278008210 active site 355278008211 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 355278008212 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 355278008213 FAD binding site [chemical binding]; other site 355278008214 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 355278008215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008216 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008217 active site 355278008218 phosphorylation site [posttranslational modification] 355278008219 intermolecular recognition site; other site 355278008220 dimerization interface [polypeptide binding]; other site 355278008221 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 355278008222 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355278008223 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355278008224 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 355278008225 dimer interface [polypeptide binding]; other site 355278008226 phosphorylation site [posttranslational modification] 355278008227 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008228 ATP binding site [chemical binding]; other site 355278008229 Mg2+ binding site [ion binding]; other site 355278008230 G-X-G motif; other site 355278008231 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008233 active site 355278008234 phosphorylation site [posttranslational modification] 355278008235 intermolecular recognition site; other site 355278008236 dimerization interface [polypeptide binding]; other site 355278008237 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 355278008238 calcium binding site 1 [ion binding]; other site 355278008239 active site 355278008240 catalytic triad [active] 355278008241 calcium binding site 2 [ion binding]; other site 355278008242 calcium binding site 3 [ion binding]; other site 355278008243 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 355278008244 peptide chain release factor 1; Validated; Region: prfA; PRK00591 355278008245 RF-1 domain; Region: RF-1; cl02875 355278008246 RF-1 domain; Region: RF-1; cl02875 355278008247 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278008248 active site 355278008249 catalytic triad [active] 355278008250 dimer interface [polypeptide binding]; other site 355278008251 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 355278008252 nudix motif; other site 355278008253 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 355278008254 NAD(P) binding site [chemical binding]; other site 355278008255 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 355278008256 Rhomboid family; Region: Rhomboid; cl11446 355278008257 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 355278008258 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 355278008259 putative NAD(P) binding site [chemical binding]; other site 355278008260 catalytic Zn binding site [ion binding]; other site 355278008261 structural Zn binding site [ion binding]; other site 355278008262 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278008263 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278008264 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 355278008265 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 355278008266 FMN binding site [chemical binding]; other site 355278008267 substrate binding site [chemical binding]; other site 355278008268 putative catalytic residue [active] 355278008269 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 355278008270 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278008271 FecR protein; Region: FecR; pfam04773 355278008272 Thymidylate synthase complementing protein; Region: Thy1; cl03630 355278008273 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278008274 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 355278008275 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278008276 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 355278008277 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 355278008278 active site residue [active] 355278008279 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 355278008280 cyclase homology domain; Region: CHD; cd07302 355278008281 nucleotidyl binding site; other site 355278008282 metal binding site [ion binding]; metal-binding site 355278008283 dimer interface [polypeptide binding]; other site 355278008284 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 355278008285 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 355278008286 active site 355278008287 HIGH motif; other site 355278008288 KMSKS motif; other site 355278008289 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 355278008290 tRNA binding surface [nucleotide binding]; other site 355278008291 anticodon binding site; other site 355278008292 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 355278008293 dimer interface [polypeptide binding]; other site 355278008294 putative tRNA-binding site [nucleotide binding]; other site 355278008295 tellurium resistance terB-like protein; Region: terB_like; cl11965 355278008296 metal binding site [ion binding]; metal-binding site 355278008297 Tim44-like domain; Region: Tim44; cl09208 355278008298 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; cl16911 355278008299 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 355278008300 putative lipid binding site [chemical binding]; other site 355278008301 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278008302 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278008303 active site 355278008304 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 includes...; Region: RuvC_resolvase; cd00529 355278008305 active site 355278008306 putative DNA-binding cleft [nucleotide binding]; other site 355278008307 dimer interface [polypeptide binding]; other site 355278008308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008309 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 355278008310 NAD(P) binding site [chemical binding]; other site 355278008311 active site 355278008312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008313 Helix-turn-helix domains; Region: HTH; cl00088 355278008314 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; cl12031 355278008315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 355278008316 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 355278008317 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 355278008318 catalytic core [active] 355278008319 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 355278008320 putative active site [active] 355278008321 Ap4A binding site [chemical binding]; other site 355278008322 nudix motif; other site 355278008323 putative metal binding site [ion binding]; other site 355278008324 Acylphosphatase; Region: Acylphosphatase; cl00551 355278008325 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 355278008326 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 355278008327 active site 355278008328 catalytic tetrad [active] 355278008329 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 355278008330 catalytic core [active] 355278008331 Phosphotransferase enzyme family; Region: APH; pfam01636 355278008332 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 355278008333 putative active site [active] 355278008334 putative substrate binding site [chemical binding]; other site 355278008335 ATP binding site [chemical binding]; other site 355278008336 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278008337 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 355278008338 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 355278008339 active site 355278008340 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 355278008341 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278008342 CAAX protease self-immunity; Region: Abi; cl00558 355278008343 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09419 355278008344 Protein of unknown function (DUF423); Region: DUF423; cl01008 355278008345 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 355278008346 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 355278008347 active site 355278008348 Zn binding site [ion binding]; other site 355278008349 Protein of unknown function (DUF419); Region: DUF419; cl15265 355278008350 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 355278008351 MatE; Region: MatE; cl10513 355278008352 MatE; Region: MatE; cl10513 355278008353 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278008354 hydrophobic ligand binding site; other site 355278008355 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 355278008356 putative hydrophobic ligand binding site [chemical binding]; other site 355278008357 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 355278008358 dimerization interface [polypeptide binding]; other site 355278008359 putative DNA binding site [nucleotide binding]; other site 355278008360 putative Zn2+ binding site [ion binding]; other site 355278008361 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 355278008362 FMN binding site [chemical binding]; other site 355278008363 active site 355278008364 substrate binding site [chemical binding]; other site 355278008365 catalytic residue [active] 355278008366 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278008367 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278008368 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278008369 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278008370 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 355278008371 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 355278008372 putative active site [active] 355278008373 heme pocket [chemical binding]; other site 355278008374 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 355278008375 dimer interface [polypeptide binding]; other site 355278008376 phosphorylation site [posttranslational modification] 355278008377 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008378 ATP binding site [chemical binding]; other site 355278008379 Mg2+ binding site [ion binding]; other site 355278008380 G-X-G motif; other site 355278008381 Cupin domain; Region: Cupin_2; cl09118 355278008382 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 355278008383 Dehydratase family; Region: ILVD_EDD; cl00340 355278008384 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278008385 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; cl01155 355278008386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008387 Helix-turn-helix domains; Region: HTH; cl00088 355278008388 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 355278008389 putative FMN binding site [chemical binding]; other site 355278008390 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 355278008391 S-adenosylmethionine binding site [chemical binding]; other site 355278008392 hypothetical protein; Provisional; Region: PRK07906 355278008393 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 355278008394 putative metal binding site [ion binding]; other site 355278008395 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 355278008396 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278008397 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 355278008398 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 355278008399 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278008400 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278008401 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355278008402 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; cl01155 355278008403 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; cl01155 355278008404 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 355278008405 YceG-like family; Region: YceG; pfam02618 355278008406 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 355278008407 dimerization interface [polypeptide binding]; other site 355278008408 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 355278008409 FAD binding domain; Region: FAD_binding_4; pfam01565 355278008410 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 355278008411 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 355278008412 ArsC family; Region: ArsC; pfam03960 355278008413 putative ArsC-like catalytic residues; other site 355278008414 putative TRX-like catalytic residues [active] 355278008415 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278008416 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 355278008417 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 355278008418 Uncharacterized conserved protein [Function unknown]; Region: COG2308 355278008419 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 355278008420 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 355278008421 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 355278008422 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 355278008423 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 355278008424 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 355278008425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 355278008426 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 355278008427 Uncharacterized conserved protein [Function unknown]; Region: COG2308 355278008428 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 355278008429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008430 active site 355278008431 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 355278008432 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355278008433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008434 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 355278008435 chaperone protein DnaJ; Provisional; Region: PRK14294 355278008436 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 355278008437 HSP70 interaction site [polypeptide binding]; other site 355278008438 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 355278008439 substrate binding site [polypeptide binding]; other site 355278008440 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 355278008441 Zn binding sites [ion binding]; other site 355278008442 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 355278008443 dimer interface [polypeptide binding]; other site 355278008444 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 355278008445 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 355278008446 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 355278008447 dimer interface [polypeptide binding]; other site 355278008448 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 355278008449 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 355278008450 Helix-turn-helix domains; Region: HTH; cl00088 355278008451 DNA-binding site [nucleotide binding]; DNA binding site 355278008452 PAS domain S-box; Region: sensory_box; TIGR00229 355278008453 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 355278008454 putative active site [active] 355278008455 heme pocket [chemical binding]; other site 355278008456 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278008457 metal binding site [ion binding]; metal-binding site 355278008458 active site 355278008459 I-site; other site 355278008460 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 355278008461 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 355278008462 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 355278008463 metal binding triad; other site 355278008464 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 355278008465 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278008466 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 355278008467 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 355278008468 Ca binding site [ion binding]; other site 355278008469 active site 355278008470 catalytic site [active] 355278008471 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278008472 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 355278008473 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 355278008474 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 355278008475 Protein of unknown function (DUF789); Region: DUF789; pfam05623 355278008476 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 355278008477 active site 2 [active] 355278008478 active site 1 [active] 355278008479 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355278008480 DUF35 OB-fold domain; Region: DUF35; pfam01796 355278008481 Bacterial SH3 domain; Region: SH3_3; cl02551 355278008482 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 355278008483 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 355278008484 oligomeric interface; other site 355278008485 putative active site [active] 355278008486 homodimer interface [polypeptide binding]; other site 355278008487 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 355278008488 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 355278008489 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 355278008490 dimer interface [polypeptide binding]; other site 355278008491 active site 355278008492 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 355278008493 4Fe-4S binding domain; Region: Fer4; cl02805 355278008494 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 355278008495 catalytic loop [active] 355278008496 iron binding site [ion binding]; other site 355278008497 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 355278008498 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 355278008499 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 355278008500 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 355278008501 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278008502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008503 active site 355278008504 phosphorylation site [posttranslational modification] 355278008505 intermolecular recognition site; other site 355278008506 dimerization interface [polypeptide binding]; other site 355278008507 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 355278008508 Tetramer interface [polypeptide binding]; other site 355278008509 active site 355278008510 FMN-binding site [chemical binding]; other site 355278008511 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278008512 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 355278008513 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 355278008514 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 355278008515 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 355278008516 putative active site [active] 355278008517 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 355278008518 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 355278008519 active site 355278008520 catalytic residue [active] 355278008521 dimer interface [polypeptide binding]; other site 355278008522 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008523 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 355278008524 binding surface 355278008525 TPR motif; other site 355278008526 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 355278008527 binding surface 355278008528 TPR motif; other site 355278008529 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 355278008530 binding surface 355278008531 TPR repeat; Region: TPR_11; pfam13414 355278008532 TPR motif; other site 355278008533 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 355278008534 binding surface 355278008535 TPR motif; other site 355278008536 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008537 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 355278008538 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278008539 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 355278008540 amidase catalytic site [active] 355278008541 Zn binding residues [ion binding]; other site 355278008542 substrate binding site [chemical binding]; other site 355278008543 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 355278008544 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 355278008545 Zn binding site [ion binding]; other site 355278008546 TRL-like protein family; Region: TRL; pfam13146 355278008547 TRL-like protein family; Region: TRL; pfam13146 355278008548 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 355278008549 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 355278008550 active site 355278008551 catalytic site [active] 355278008552 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278008553 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 355278008554 FliG C-terminal domain; Region: FliG_C; pfam01706 355278008555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008556 Helix-turn-helix domains; Region: HTH; cl00088 355278008557 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278008558 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278008559 PAS domain S-box; Region: sensory_box; TIGR00229 355278008560 PAS fold; Region: PAS_4; pfam08448 355278008561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278008562 metal binding site [ion binding]; metal-binding site 355278008563 active site 355278008564 I-site; other site 355278008565 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 355278008566 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 355278008567 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 355278008568 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 355278008569 N-terminal plug; other site 355278008570 ligand-binding site [chemical binding]; other site 355278008571 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 355278008572 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 355278008573 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 355278008574 dimerization interface [polypeptide binding]; other site 355278008575 FAD binding pocket [chemical binding]; other site 355278008576 FAD binding motif [chemical binding]; other site 355278008577 catalytic residues [active] 355278008578 NAD binding pocket [chemical binding]; other site 355278008579 phosphate binding motif [ion binding]; other site 355278008580 beta-alpha-beta structure motif; other site 355278008581 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 355278008582 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 355278008583 metal ion-dependent adhesion site (MIDAS); other site 355278008584 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 355278008585 anti sigma factor interaction site; other site 355278008586 regulatory phosphorylation site [posttranslational modification]; other site 355278008587 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 355278008588 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 355278008589 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 355278008590 ATP binding site [chemical binding]; other site 355278008591 putative Mg++ binding site [ion binding]; other site 355278008592 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 355278008593 nucleotide binding region [chemical binding]; other site 355278008594 ATP-binding site [chemical binding]; other site 355278008595 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 355278008596 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 355278008597 active site 355278008598 catalytic triad [active] 355278008599 oxyanion hole [active] 355278008600 TRL-like protein family; Region: TRL; pfam13146 355278008601 TRL-like protein family; Region: TRL; pfam13146 355278008602 Bacterial Ig-like domain; Region: Big_5; cl01012 355278008603 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 355278008604 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 355278008605 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 355278008606 binding surface 355278008607 TPR motif; other site 355278008608 acetyl-CoA synthetase; Provisional; Region: PRK00174 355278008609 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 355278008610 AMP-binding enzyme; Region: AMP-binding; cl15778 355278008611 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278008612 GTP cyclohydrolase I; Provisional; Region: PLN03044 355278008613 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 355278008614 homodecamer interface [polypeptide binding]; other site 355278008615 active site 355278008616 putative catalytic site residues [active] 355278008617 zinc binding site [ion binding]; other site 355278008618 GTP-CH-I/GFRP interaction surface; other site 355278008619 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 355278008620 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278008621 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 355278008622 tellurite resistance protein TehB; Provisional; Region: PRK12335 355278008623 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 355278008624 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; cl12031 355278008625 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278008626 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 355278008627 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 355278008628 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; cl16911 355278008629 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 355278008630 nucleoside/Zn binding site; other site 355278008631 dimer interface [polypeptide binding]; other site 355278008632 catalytic motif [active] 355278008633 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14956 355278008634 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278008635 Walker A motif; other site 355278008636 ATP binding site [chemical binding]; other site 355278008637 Walker B motif; other site 355278008638 arginine finger; other site 355278008639 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 355278008640 recombination protein RecR; Reviewed; Region: recR; PRK00076 355278008641 RecR protein; Region: RecR; pfam02132 355278008642 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 355278008643 putative active site [active] 355278008644 putative metal-binding site [ion binding]; other site 355278008645 tetramer interface [polypeptide binding]; other site 355278008646 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 355278008647 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 355278008648 substrate binding pocket [chemical binding]; other site 355278008649 membrane-bound complex binding site; other site 355278008650 hinge residues; other site 355278008651 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 355278008652 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278008653 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278008654 ligand binding site [chemical binding]; other site 355278008655 seryl-tRNA synthetase; Provisional; Region: PRK05431 355278008656 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 355278008657 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 bound...; Region: SerRS_core; cd00770 355278008658 dimer interface [polypeptide binding]; other site 355278008659 active site 355278008660 motif 1; other site 355278008661 motif 2; other site 355278008662 motif 3; other site 355278008663 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 355278008664 active site 355278008665 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278008666 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278008667 Protein of unknown function (DUF327); Region: DUF327; cl00753 355278008668 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 355278008669 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355278008670 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 355278008671 Walker A/P-loop; other site 355278008672 ATP binding site [chemical binding]; other site 355278008673 Q-loop/lid; other site 355278008674 ABC transporter signature motif; other site 355278008675 Walker B; other site 355278008676 D-loop; other site 355278008677 H-loop/switch region; other site 355278008678 ParB-like partition proteins; Region: parB_part; TIGR00180 355278008679 ParB-like nuclease domain; Region: ParBc; cl02129 355278008680 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355278008681 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 355278008682 P-loop; other site 355278008683 Magnesium ion binding site [ion binding]; other site 355278008684 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 355278008685 Magnesium ion binding site [ion binding]; other site 355278008686 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; cl16911 355278008687 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355278008688 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 355278008689 P-loop; other site 355278008690 Magnesium ion binding site [ion binding]; other site 355278008691 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 355278008692 Magnesium ion binding site [ion binding]; other site 355278008693 ParB-like nuclease domain; Region: ParBc; cl02129 355278008694 Helix-turn-helix domains; Region: HTH; cl00088 355278008695 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 355278008696 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 355278008697 NMT1-like family; Region: NMT1_2; cl15260 355278008698 NMT1-like family; Region: NMT1_2; cl15260 355278008699 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 355278008700 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 355278008701 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 355278008702 dimer interface [polypeptide binding]; other site 355278008703 phosphorylation site [posttranslational modification] 355278008704 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008705 ATP binding site [chemical binding]; other site 355278008706 Mg2+ binding site [ion binding]; other site 355278008707 G-X-G motif; other site 355278008708 heat shock protein 90; Provisional; Region: PRK05218 355278008709 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008710 ATP binding site [chemical binding]; other site 355278008711 Mg2+ binding site [ion binding]; other site 355278008712 G-X-G motif; other site 355278008713 Oxygen tolerance; Region: BatD; pfam13584 355278008714 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 355278008715 metal ion-dependent adhesion site (MIDAS); other site 355278008716 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 355278008717 binding surface 355278008718 TPR motif; other site 355278008719 TPR repeat; Region: TPR_11; pfam13414 355278008720 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 355278008721 metal ion-dependent adhesion site (MIDAS); other site 355278008722 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 355278008723 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 355278008724 metal ion-dependent adhesion site (MIDAS); other site 355278008725 MoxR-like ATPases [General function prediction only]; Region: COG0714 355278008726 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278008727 Walker A motif; other site 355278008728 ATP binding site [chemical binding]; other site 355278008729 Walker B motif; other site 355278008730 arginine finger; other site 355278008731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278008732 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 355278008733 CoenzymeA binding site [chemical binding]; other site 355278008734 subunit interaction site [polypeptide binding]; other site 355278008735 PHB binding site; other site 355278008736 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278008737 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 355278008738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008739 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278008740 Low molecular weight phosphatase family; Region: LMWPc; cd00115 355278008741 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 355278008742 active site 355278008743 Protein of unknown function DUF45; Region: DUF45; cl00636 355278008744 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355278008745 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 355278008746 P-loop; other site 355278008747 Magnesium ion binding site [ion binding]; other site 355278008748 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 355278008749 Magnesium ion binding site [ion binding]; other site 355278008750 ParB-like nuclease domain; Region: ParBc; cl02129 355278008751 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 355278008752 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 355278008753 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 355278008754 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355278008755 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 355278008756 ligand binding site [chemical binding]; other site 355278008757 flexible hinge region; other site 355278008758 HDOD domain; Region: HDOD; pfam08668 355278008759 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355278008760 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 355278008761 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 355278008762 anti sigma factor interaction site; other site 355278008763 regulatory phosphorylation site [posttranslational modification]; other site 355278008764 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 355278008765 IHF dimer interface [polypeptide binding]; other site 355278008766 IHF - DNA interface [nucleotide binding]; other site 355278008767 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355278008768 FAD binding domain; Region: FAD_binding_4; pfam01565 355278008769 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008770 Helix-turn-helix domains; Region: HTH; cl00088 355278008771 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 355278008772 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 355278008773 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 355278008774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008775 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 355278008776 active site 355278008777 ArgK protein; Region: ArgK; pfam03308 355278008778 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278008779 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 355278008780 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 355278008781 B12 binding site [chemical binding]; other site 355278008782 cobalt ligand [ion binding]; other site 355278008783 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 catalyze...; Region: LT_GEWL; cd00254 355278008784 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355278008785 catalytic residue [active] 355278008786 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008788 active site 355278008789 phosphorylation site [posttranslational modification] 355278008790 intermolecular recognition site; other site 355278008791 dimerization interface [polypeptide binding]; other site 355278008792 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 355278008793 Aspartase; Region: Aspartase; cd01357 355278008794 active sites [active] 355278008795 tetramer interface [polypeptide binding]; other site 355278008796 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 355278008797 dimer interface [polypeptide binding]; other site 355278008798 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355278008799 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278008800 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 355278008801 DNA binding residues [nucleotide binding] 355278008802 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 355278008803 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 355278008804 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 355278008805 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355278008806 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 355278008807 metal-binding site [ion binding] 355278008808 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278008809 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355278008810 FixH; Region: FixH; cl01254 355278008811 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 355278008812 4Fe-4S binding domain; Region: Fer4_5; pfam12801 355278008813 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 355278008814 Cytochrome c; Region: Cytochrom_C; cl11414 355278008815 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 355278008816 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 355278008817 Low-spin heme binding site [chemical binding]; other site 355278008818 Putative water exit pathway; other site 355278008819 Binuclear center (active site) [active] 355278008820 Putative proton exit pathway; other site 355278008821 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 355278008822 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 355278008823 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 355278008824 active site 355278008825 dimer interface [polypeptide binding]; other site 355278008826 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 355278008827 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 355278008828 active site 355278008829 FMN binding site [chemical binding]; other site 355278008830 substrate binding site [chemical binding]; other site 355278008831 3Fe-4S cluster binding site [ion binding]; other site 355278008832 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 355278008833 domain interface; other site 355278008834 Repair protein; Region: Repair_PSII; cl01535 355278008835 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 355278008836 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 355278008837 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 355278008838 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 355278008839 ADP binding site [chemical binding]; other site 355278008840 magnesium binding site [ion binding]; other site 355278008841 putative shikimate binding site; other site 355278008842 HDOD domain; Region: HDOD; pfam08668 355278008843 CheD chemotactic sensory transduction; Region: CheD; cl00810 355278008844 TraB family; Region: TraB; cl12050 355278008845 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 355278008846 dimerization interface [polypeptide binding]; other site 355278008847 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278008848 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; cl12031 355278008849 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 355278008850 active site 355278008851 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 355278008852 active site 355278008853 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 355278008854 Interdomain contacts; other site 355278008855 Cytokine receptor motif; other site 355278008856 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278008857 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278008858 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278008859 PilZ domain; Region: PilZ; cl01260 355278008860 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 355278008861 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278008862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008863 active site 355278008864 phosphorylation site [posttranslational modification] 355278008865 intermolecular recognition site; other site 355278008866 dimerization interface [polypeptide binding]; other site 355278008867 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 355278008868 DNA binding residues [nucleotide binding] 355278008869 dimerization interface [polypeptide binding]; other site 355278008870 membrane ATPase/protein kinase; Provisional; Region: PRK09435 355278008871 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 355278008872 Walker A; other site 355278008873 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 355278008874 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 355278008875 active site 355278008876 substrate binding site [chemical binding]; other site 355278008877 coenzyme B12 binding site [chemical binding]; other site 355278008878 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 355278008879 B12 binding site [chemical binding]; other site 355278008880 cobalt ligand [ion binding]; other site 355278008881 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 355278008882 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 355278008883 heterodimer interface [polypeptide binding]; other site 355278008884 substrate interaction site [chemical binding]; other site 355278008885 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 355278008886 YhhN-like protein; Region: YhhN; cl01505 355278008887 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 355278008888 diiron binding motif [ion binding]; other site 355278008889 EamA-like transporter family; Region: EamA; cl01037 355278008890 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355278008891 EamA-like transporter family; Region: EamA; cl01037 355278008892 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 355278008893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278008894 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278008895 Domain of unknown function DUF302; Region: DUF302; cl01364 355278008896 spermidine synthase; Provisional; Region: PRK00811 355278008897 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 355278008898 S-adenosylmethionine binding site [chemical binding]; other site 355278008899 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 contains two...; Region: OMP_decarboxylase_like; cd04725 355278008900 active site 355278008901 dimer interface [polypeptide binding]; other site 355278008902 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 355278008903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008904 Uncharacterized conserved protein [Function unknown]; Region: COG3496 355278008905 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 355278008906 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 355278008907 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 355278008908 S-adenosylmethionine binding site [chemical binding]; other site 355278008909 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 355278008910 putative hydrophobic ligand binding site [chemical binding]; other site 355278008911 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278008912 activation loop (A-loop); other site 355278008913 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278008914 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 355278008915 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 355278008916 active site 355278008917 Substrate binding site; other site 355278008918 Mg++ binding site; other site 355278008919 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278008920 Ligand binding site; other site 355278008921 Putative Catalytic site; other site 355278008922 DXD motif; other site 355278008923 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278008924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008925 NAD(P) binding site [chemical binding]; other site 355278008926 active site 355278008927 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 355278008928 active site 355278008929 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 355278008930 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 355278008931 protein binding site [polypeptide binding]; other site 355278008932 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 355278008933 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 355278008934 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 355278008935 protein binding site [polypeptide binding]; other site 355278008936 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278008937 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278008938 active site 355278008939 Peptidase family M48; Region: Peptidase_M48; cl12018 355278008940 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 355278008941 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 355278008942 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 355278008943 NAD(P) binding site [chemical binding]; other site 355278008944 homodimer interface [polypeptide binding]; other site 355278008945 substrate binding site [chemical binding]; other site 355278008946 active site 355278008947 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 355278008948 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 355278008949 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 355278008950 ATP binding site [chemical binding]; other site 355278008951 putative Mg++ binding site [ion binding]; other site 355278008952 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 355278008953 nucleotide binding region [chemical binding]; other site 355278008954 ATP-binding site [chemical binding]; other site 355278008955 Helicase associated domain (HA2); Region: HA2; cl04503 355278008956 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 355278008957 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 355278008958 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 355278008959 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 355278008960 DNA binding site [nucleotide binding] 355278008961 active site 355278008962 YhhN-like protein; Region: YhhN; cl01505 355278008963 Integrase core domain; Region: rve; cl01316 355278008964 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 355278008965 FecR protein; Region: FecR; pfam04773 355278008966 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355278008967 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278008968 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 355278008969 DNA binding site [nucleotide binding] 355278008970 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 355278008971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008972 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278008973 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278008974 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 355278008975 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 355278008976 dimerization interface [polypeptide binding]; other site 355278008977 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278008978 cyclase homology domain; Region: CHD; cd07302 355278008979 nucleotidyl binding site; other site 355278008980 metal binding site [ion binding]; metal-binding site 355278008981 dimer interface [polypeptide binding]; other site 355278008982 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 355278008983 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 355278008984 dimer interface [polypeptide binding]; other site 355278008985 decamer (pentamer of dimers) interface [polypeptide binding]; other site 355278008986 catalytic triad [active] 355278008987 OsmC-like protein; Region: OsmC; cl00767 355278008988 Protein of unknown function, DUF547; Region: DUF547; pfam04784 355278008989 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 355278008990 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; cl12031 355278008991 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 355278008992 active site 355278008993 DNA polymerase IV; Validated; Region: PRK02406 355278008994 DNA binding site [nucleotide binding] 355278008995 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008997 active site 355278008998 phosphorylation site [posttranslational modification] 355278008999 intermolecular recognition site; other site 355278009000 dimerization interface [polypeptide binding]; other site 355278009001 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355278009002 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278009003 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 355278009004 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278009005 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 355278009006 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 355278009007 putative active site [active] 355278009008 heme pocket [chemical binding]; other site 355278009009 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 355278009010 dimer interface [polypeptide binding]; other site 355278009011 phosphorylation site [posttranslational modification] 355278009012 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009013 ATP binding site [chemical binding]; other site 355278009014 Mg2+ binding site [ion binding]; other site 355278009015 G-X-G motif; other site 355278009016 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355278009017 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278009018 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 355278009019 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 355278009020 S-adenosylmethionine binding site [chemical binding]; other site 355278009021 AMP-binding enzyme; Region: AMP-binding; cl15778 355278009022 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 355278009023 Phosphopantetheine attachment site; Region: PP-binding; cl09936 355278009024 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 355278009025 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009027 dimer interface [polypeptide binding]; other site 355278009028 putative CheW interface [polypeptide binding]; other site 355278009029 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 355278009030 CoenzymeA binding site [chemical binding]; other site 355278009031 subunit interaction site [polypeptide binding]; other site 355278009032 PHB binding site; other site 355278009033 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 355278009034 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 355278009035 Membrane transport protein; Region: Mem_trans; cl09117 355278009036 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 355278009037 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278009038 catalytic residue [active] 355278009039 alanine racemase; Reviewed; Region: alr; PRK00053 355278009040 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 355278009041 active site 355278009042 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355278009043 dimer interface [polypeptide binding]; other site 355278009044 substrate binding site [chemical binding]; other site 355278009045 catalytic residues [active] 355278009046 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278009047 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; cl12031 355278009048 Predicted amidohydrolase [General function prediction only]; Region: COG0388 355278009049 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 355278009050 putative active site [active] 355278009051 catalytic triad [active] 355278009052 dimer interface [polypeptide binding]; other site 355278009053 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 355278009054 homohexameric interface [polypeptide binding]; other site 355278009055 feedback inhibition sensing region; other site 355278009056 nucleotide binding site [chemical binding]; other site 355278009057 N-acetyl-L-glutamate binding site [chemical binding]; other site 355278009058 GAF domain; Region: GAF_2; pfam13185 355278009059 GAF domain; Region: GAF; cl15785 355278009060 GAF domain; Region: GAF; cl15785 355278009061 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278009062 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278009063 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278009064 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 355278009065 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 355278009066 Outer membrane efflux protein; Region: OEP; pfam02321 355278009067 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 355278009068 active site 355278009069 ADP/pyrophosphate binding site [chemical binding]; other site 355278009070 dimerization interface [polypeptide binding]; other site 355278009071 allosteric effector site; other site 355278009072 fructose-1,6-bisphosphate binding site; other site 355278009073 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 355278009074 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278009075 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278009076 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 355278009077 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 355278009078 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 355278009079 substrate binding pocket [chemical binding]; other site 355278009080 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 355278009081 B12 binding site [chemical binding]; other site 355278009082 cobalt ligand [ion binding]; other site 355278009083 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 355278009084 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 355278009085 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 355278009086 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 355278009087 oligomerization interface [polypeptide binding]; other site 355278009088 active site 355278009089 NAD+ binding site [chemical binding]; other site 355278009090 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 355278009091 dimerization interface [polypeptide binding]; other site 355278009092 putative DNA binding site [nucleotide binding]; other site 355278009093 putative Zn2+ binding site [ion binding]; other site 355278009094 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 355278009095 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 355278009096 S-adenosylmethionine binding site [chemical binding]; other site 355278009097 Cache domain; Region: Cache_1; pfam02743 355278009098 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 355278009099 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009100 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009101 putative CheW interface [polypeptide binding]; other site 355278009102 dimer interface [polypeptide binding]; other site 355278009103 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355278009104 EamA-like transporter family; Region: EamA; cl01037 355278009105 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278009106 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 355278009107 active site 355278009108 metal binding site [ion binding]; metal-binding site 355278009109 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 355278009110 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009111 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009112 dimer interface [polypeptide binding]; other site 355278009113 putative CheW interface [polypeptide binding]; other site 355278009114 Cache domain; Region: Cache_1; pfam02743 355278009115 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 355278009116 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 355278009117 dimerization interface [polypeptide binding]; other site 355278009118 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009120 dimer interface [polypeptide binding]; other site 355278009121 putative CheW interface [polypeptide binding]; other site 355278009122 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 355278009123 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 355278009124 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 355278009125 protein binding site [polypeptide binding]; other site 355278009126 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 355278009127 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 355278009128 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355278009129 classical (c) SDRs; Region: SDR_c; cd05233 355278009130 NAD(P) binding site [chemical binding]; other site 355278009131 active site 355278009132 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355278009133 classical (c) SDRs; Region: SDR_c; cd05233 355278009134 NAD(P) binding site [chemical binding]; other site 355278009135 active site 355278009136 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 355278009137 intersubunit interface [polypeptide binding]; other site 355278009138 active site 355278009139 Zn2+ binding site [ion binding]; other site 355278009140 elongation factor P; Validated; Region: PRK00529 355278009141 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 355278009142 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 355278009143 RNA binding site [nucleotide binding]; other site 355278009144 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 355278009145 RNA binding site [nucleotide binding]; other site 355278009146 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 355278009147 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 355278009148 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 355278009149 metal binding triad [ion binding]; metal-binding site 355278009150 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 355278009151 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 355278009152 GAF domain; Region: GAF; cl15785 355278009153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278009154 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 355278009155 dimer interface [polypeptide binding]; other site 355278009156 phosphorylation site [posttranslational modification] 355278009157 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009158 ATP binding site [chemical binding]; other site 355278009159 Mg2+ binding site [ion binding]; other site 355278009160 G-X-G motif; other site 355278009161 Response regulator receiver domain; Region: Response_reg; pfam00072 355278009162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009163 active site 355278009164 phosphorylation site [posttranslational modification] 355278009165 intermolecular recognition site; other site 355278009166 dimerization interface [polypeptide binding]; other site 355278009167 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 355278009168 DEAD-like helicases superfamily; Region: DEXDc; smart00487 355278009169 ATP binding site [chemical binding]; other site 355278009170 Mg++ binding site [ion binding]; other site 355278009171 motif III; other site 355278009172 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 355278009173 nucleotide binding region [chemical binding]; other site 355278009174 ATP-binding site [chemical binding]; other site 355278009175 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 355278009176 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 355278009177 S-adenosylmethionine binding site [chemical binding]; other site 355278009178 Phospholipid methyltransferase; Region: PEMT; cl00763 355278009179 short chain dehydrogenase; Provisional; Region: PRK06181 355278009180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278009181 NAD(P) binding site [chemical binding]; other site 355278009182 active site 355278009183 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278009184 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 355278009185 putative NAD(P) binding site [chemical binding]; other site 355278009186 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 355278009187 putative active site [active] 355278009188 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 355278009189 Bacterial SH3 domain; Region: SH3_3; cl02551 355278009190 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278009191 active site 355278009192 nucleophile elbow; other site 355278009193 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355278009194 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 355278009195 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278009196 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278009197 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278009198 Bacterial SH3 domain; Region: SH3_3; cl02551 355278009199 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 355278009200 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 355278009201 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 attaches...; Region: class_II_aaRS-like_core; cl00268 355278009202 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 355278009203 motif 1; other site 355278009204 dimer interface [polypeptide binding]; other site 355278009205 active site 355278009206 motif 2; other site 355278009207 motif 3; other site 355278009208 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 355278009209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355278009210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009211 active site 355278009212 phosphorylation site [posttranslational modification] 355278009213 intermolecular recognition site; other site 355278009214 dimerization interface [polypeptide binding]; other site 355278009215 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 355278009216 DNA binding site [nucleotide binding] 355278009217 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 355278009218 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 355278009219 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 355278009220 dimerization interface [polypeptide binding]; other site 355278009221 putative DNA binding site [nucleotide binding]; other site 355278009222 putative Zn2+ binding site [ion binding]; other site 355278009223 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278009224 hydrophobic ligand binding site; other site 355278009225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 355278009226 Protein of unknown function (DUF419); Region: DUF419; cl15265 355278009227 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 355278009228 DoxX; Region: DoxX; cl00976 355278009229 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 355278009230 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; cl16911 355278009231 aconitate hydratase; Validated; Region: PRK07229 355278009232 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 355278009233 substrate binding site [chemical binding]; other site 355278009234 ligand binding site [chemical binding]; other site 355278009235 Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes...; Region: AcnA_Mitochon_Swivel; cd01578 355278009236 substrate binding site [chemical binding]; other site 355278009237 TolB amino-terminal domain; Region: TolB_N; cl00639 355278009238 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 355278009239 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 355278009240 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 355278009241 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278009242 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 355278009243 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278009244 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 355278009245 homodimer interface [polypeptide binding]; other site 355278009246 metal binding site [ion binding]; metal-binding site 355278009247 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009248 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009249 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009250 kelch-like protein; Provisional; Region: PHA03098 355278009251 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009252 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009253 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009254 kelch-like protein; Provisional; Region: PHA03098 355278009255 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 355278009256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009258 dimer interface [polypeptide binding]; other site 355278009259 putative CheW interface [polypeptide binding]; other site 355278009260 Cupin domain; Region: Cupin_2; cl09118 355278009261 Pirin-related protein [General function prediction only]; Region: COG1741 355278009262 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 355278009263 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 355278009264 Active site serine [active] 355278009265 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 355278009266 active site clefts [active] 355278009267 zinc binding site [ion binding]; other site 355278009268 dimer interface [polypeptide binding]; other site 355278009269 Domain of unknown function (DUF897); Region: DUF897; cl01312 355278009270 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355278009271 Surface antigen; Region: Bac_surface_Ag; cl03097 355278009272 pyruvate kinase; Provisional; Region: PRK05826 355278009273 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; cl09155 355278009274 domain interfaces; other site 355278009275 active site 355278009276 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 355278009277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278009278 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 355278009279 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355278009280 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 355278009281 Helix-turn-helix domains; Region: HTH; cl00088 355278009282 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355278009283 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 355278009284 P-loop; other site 355278009285 Magnesium ion binding site [ion binding]; other site 355278009286 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 355278009287 Magnesium ion binding site [ion binding]; other site 355278009288 ParB-like nuclease domain; Region: ParBc; cl02129 355278009289 V-type ATP synthase subunit I; Validated; Region: PRK05771 355278009290 Helix-turn-helix domains; Region: HTH; cl00088 355278009291 Helix-turn-helix domains; Region: HTH; cl00088 355278009292 WHG domain; Region: WHG; pfam13305 355278009293 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 355278009294 CoenzymeA binding site [chemical binding]; other site 355278009295 subunit interaction site [polypeptide binding]; other site 355278009296 PHB binding site; other site 355278009297 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 355278009298 Helix-turn-helix domains; Region: HTH; cl00088 355278009299 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 355278009300 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 355278009301 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278009302 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278009303 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355278009304 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278009305 Histidine kinase; Region: HisKA_2; cl06527 355278009306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009307 ATP binding site [chemical binding]; other site 355278009308 Mg2+ binding site [ion binding]; other site 355278009309 G-X-G motif; other site 355278009310 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 355278009311 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 355278009312 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 355278009313 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 355278009314 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 355278009315 Walker A/P-loop; other site 355278009316 ATP binding site [chemical binding]; other site 355278009317 Q-loop/lid; other site 355278009318 ABC transporter signature motif; other site 355278009319 Walker B; other site 355278009320 D-loop; other site 355278009321 H-loop/switch region; other site 355278009322 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 355278009323 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 355278009324 ABC-ATPase subunit interface; other site 355278009325 dimer interface [polypeptide binding]; other site 355278009326 putative PBP binding regions; other site 355278009327 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 355278009328 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 355278009329 putative hemin binding site; other site 355278009330 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 355278009331 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 355278009332 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 355278009333 N-terminal plug; other site 355278009334 ligand-binding site [chemical binding]; other site 355278009335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278009336 Family description; Region: UvrD_C_2; cl15862 355278009337 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 355278009338 Family description; Region: UvrD_C_2; cl15862 355278009339 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 355278009340 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 355278009341 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 355278009342 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 355278009343 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278009344 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 355278009345 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 355278009346 Integrase core domain; Region: rve; cl01316 355278009347 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 355278009348 Predicted helicase [General function prediction only]; Region: COG4889 355278009349 Restriction endonuclease; Region: Mrr_cat; cl00516 355278009350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278009351 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278009352 putative Mg++ binding site [ion binding]; other site 355278009353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355278009354 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; cl16911 355278009355 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 355278009356 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 355278009357 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 355278009358 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278009359 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 355278009360 Walker A/P-loop; other site 355278009361 ATP binding site [chemical binding]; other site 355278009362 Q-loop/lid; other site 355278009363 ABC transporter signature motif; other site 355278009364 Walker B; other site 355278009365 D-loop; other site 355278009366 H-loop/switch region; other site 355278009367 FtsX-like permease family; Region: FtsX; cl15850 355278009368 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278009369 FtsX-like permease family; Region: FtsX; cl15850 355278009370 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 355278009371 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 355278009372 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 355278009373 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278009374 PAS domain S-box; Region: sensory_box; TIGR00229 355278009375 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 355278009376 putative active site [active] 355278009377 heme pocket [chemical binding]; other site 355278009378 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 355278009379 dimer interface [polypeptide binding]; other site 355278009380 phosphorylation site [posttranslational modification] 355278009381 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009382 ATP binding site [chemical binding]; other site 355278009383 Mg2+ binding site [ion binding]; other site 355278009384 G-X-G motif; other site 355278009385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278009386 Helix-turn-helix domains; Region: HTH; cl00088 355278009387 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; cl00161 355278009388 folate binding site [chemical binding]; other site 355278009389 NADP+ binding site [chemical binding]; other site 355278009390 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 355278009391 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278009392 putative active site [active] 355278009393 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355278009394 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 355278009395 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355278009396 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278009397 active site 355278009398 substrate binding site [chemical binding]; other site 355278009399 Phosphotransferase enzyme family; Region: APH; pfam01636 355278009400 ATP binding site [chemical binding]; other site 355278009401 Response regulator receiver domain; Region: Response_reg; pfam00072 355278009402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009403 active site 355278009404 phosphorylation site [posttranslational modification] 355278009405 intermolecular recognition site; other site 355278009406 dimerization interface [polypeptide binding]; other site 355278009407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278009408 metal binding site [ion binding]; metal-binding site 355278009409 active site 355278009410 I-site; other site 355278009411 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 355278009412 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 355278009413 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 355278009414 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 355278009415 Ligand binding site; other site 355278009416 DXD motif; other site 355278009417 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 355278009418 Helix-turn-helix domains; Region: HTH; cl00088