-- dump date 20140619_130951 -- class Genbank::misc_feature -- table misc_feature_note -- id note 355278000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 355278000002 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 355278000003 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 355278000004 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 355278000005 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 355278000006 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 355278000007 homodimer interface [polypeptide binding]; other site 355278000008 substrate-cofactor binding pocket; other site 355278000009 catalytic residue [active] 355278000010 AAA ATPase domain; Region: AAA_16; pfam13191 355278000011 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 355278000012 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 355278000013 DnaA N-terminal domain; Region: DnaA_N; pfam11638 355278000014 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000015 Walker A motif; other site 355278000016 ATP binding site [chemical binding]; other site 355278000017 Walker B motif; other site 355278000018 arginine finger; other site 355278000019 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 355278000020 DnaA box-binding interface [nucleotide binding]; other site 355278000021 DNA polymerase III subunit beta; Provisional; Region: PRK14942 355278000022 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 355278000023 putative DNA binding surface [nucleotide binding]; other site 355278000024 dimer interface [polypeptide binding]; other site 355278000025 beta-clamp/clamp loader binding surface; other site 355278000026 beta-clamp/translesion DNA polymerase binding surface; other site 355278000027 recombination protein F; Reviewed; Region: recF; PRK00064 355278000028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278000029 Walker A/P-loop; other site 355278000030 ATP binding site [chemical binding]; other site 355278000031 Q-loop/lid; other site 355278000032 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278000033 ABC transporter signature motif; other site 355278000034 Walker B; other site 355278000035 D-loop; other site 355278000036 H-loop/switch region; other site 355278000037 Protein of unknown function (DUF721); Region: DUF721; pfam05258 355278000038 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 355278000039 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278000040 Mg2+ binding site [ion binding]; other site 355278000041 G-X-G motif; other site 355278000042 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 355278000043 anchoring element; other site 355278000044 dimer interface [polypeptide binding]; other site 355278000045 ATP binding site [chemical binding]; other site 355278000046 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 355278000047 active site 355278000048 putative metal-binding site [ion binding]; other site 355278000049 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 355278000050 DNA gyrase subunit A; Validated; Region: PRK05560 355278000051 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 355278000052 CAP-like domain; other site 355278000053 active site 355278000054 primary dimer interface [polypeptide binding]; other site 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 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355278000060 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 355278000061 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 355278000062 FMN binding site [chemical binding]; other site 355278000063 active site 355278000064 catalytic residues [active] 355278000065 substrate binding site [chemical binding]; other site 355278000066 PilZ domain; Region: PilZ; pfam07238 355278000067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 355278000068 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 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 Maf-like protein; Reviewed; Region: PRK00078 355278000071 active site 355278000072 dimer interface [polypeptide binding]; other site 355278000073 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 355278000074 classical (c) SDRs; Region: SDR_c; cd05233 355278000075 NAD(P) binding site [chemical binding]; other site 355278000076 active site 355278000077 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 355278000078 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 355278000079 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 355278000080 putative active site [active] 355278000081 putative metal binding site [ion binding]; other site 355278000082 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 355278000083 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 355278000084 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 355278000085 ribonuclease R; Region: RNase_R; TIGR02063 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 RNB domain; Region: RNB; pfam00773 355278000088 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 355278000089 RNA binding site [nucleotide binding]; other site 355278000090 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 355278000091 Glycoprotease family; Region: Peptidase_M22; pfam00814 355278000092 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 355278000093 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 355278000094 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 355278000095 dimerization interface [polypeptide binding]; other site 355278000096 domain crossover interface; other site 355278000097 redox-dependent activation switch; other site 355278000098 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 355278000099 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 355278000100 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 355278000101 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 355278000102 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 355278000103 active site 355278000104 dimerization interface [polypeptide binding]; other site 355278000105 superoxide dismutase; Provisional; Region: PRK10543 355278000106 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 355278000107 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 355278000108 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 355278000109 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 355278000110 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 355278000111 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 355278000112 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 355278000113 glutamine binding [chemical binding]; other site 355278000114 catalytic triad [active] 355278000115 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278000116 Short C-terminal domain; Region: SHOCT; pfam09851 355278000117 serine O-acetyltransferase; Region: cysE; TIGR01172 355278000118 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 355278000119 trimer interface [polypeptide binding]; other site 355278000120 active site 355278000121 substrate binding site [chemical binding]; other site 355278000122 CoA binding site [chemical binding]; other site 355278000123 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 355278000124 Peptidase family M50; Region: Peptidase_M50; pfam02163 355278000125 active site 355278000126 putative substrate binding region [chemical binding]; other site 355278000127 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278000128 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 355278000129 inhibitor-cofactor binding pocket; inhibition site 355278000130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278000131 catalytic residue [active] 355278000132 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 355278000133 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 355278000134 active site 355278000135 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 355278000136 dimer interface [polypeptide binding]; other site 355278000137 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278000138 Coenzyme A binding pocket [chemical binding]; other site 355278000139 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 355278000140 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 355278000141 putative active site [active] 355278000142 metal binding site [ion binding]; metal-binding site 355278000143 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 355278000144 putative hydrolase; Provisional; Region: PRK11460 355278000145 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 355278000146 S-adenosylmethionine binding site [chemical binding]; other site 355278000147 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 355278000148 Helix-turn-helix domain; Region: HTH_38; pfam13936 355278000149 Integrase core domain; Region: rve; pfam00665 355278000150 adenylosuccinate lyase; Provisional; Region: PRK07492 355278000151 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 355278000152 tetramer interface [polypeptide binding]; other site 355278000153 active site 355278000154 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 355278000155 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 355278000156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000157 NAD(P) binding site [chemical binding]; other site 355278000158 active site 355278000159 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278000160 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278000161 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278000162 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 355278000163 substrate binding site [chemical binding]; other site 355278000164 oxyanion hole (OAH) forming residues; other site 355278000165 trimer interface [polypeptide binding]; other site 355278000166 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278000167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000168 active site 355278000169 phosphorylation site [posttranslational modification] 355278000170 intermolecular recognition site; other site 355278000171 dimerization interface [polypeptide binding]; other site 355278000172 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 355278000173 hypothetical protein; Validated; Region: PRK00110 355278000174 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278000175 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278000176 active site 355278000177 Glutamine amidotransferase class-I; Region: GATase; pfam00117 355278000178 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 355278000179 glutamine binding [chemical binding]; other site 355278000180 catalytic triad [active] 355278000181 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 355278000182 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 355278000183 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 355278000184 Walker A/P-loop; other site 355278000185 ATP binding site [chemical binding]; other site 355278000186 Q-loop/lid; other site 355278000187 ABC transporter signature motif; other site 355278000188 Walker B; other site 355278000189 D-loop; other site 355278000190 H-loop/switch region; other site 355278000191 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355278000192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000193 active site 355278000194 phosphorylation site [posttranslational modification] 355278000195 intermolecular recognition site; other site 355278000196 HEAT repeats; Region: HEAT_2; pfam13646 355278000197 HEAT repeats; Region: HEAT_2; pfam13646 355278000198 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 355278000199 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 355278000200 HflX GTPase family; Region: HflX; cd01878 355278000201 G1 box; other site 355278000202 GTP/Mg2+ binding site [chemical binding]; other site 355278000203 Switch I region; other site 355278000204 G2 box; other site 355278000205 G3 box; other site 355278000206 Switch II region; other site 355278000207 G4 box; other site 355278000208 G5 box; other site 355278000209 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 355278000210 anti sigma factor interaction site; other site 355278000211 regulatory phosphorylation site [posttranslational modification]; other site 355278000212 homoserine dehydrogenase; Provisional; Region: PRK06349 355278000213 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 355278000214 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 355278000215 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 355278000216 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278000217 Uncharacterized conserved protein [Function unknown]; Region: COG1262 355278000218 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 355278000219 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278000220 MarR family; Region: MarR; pfam01047 355278000221 MarR family; Region: MarR_2; cl17246 355278000222 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 355278000223 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278000224 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 355278000225 Uncharacterized conserved protein [Function unknown]; Region: COG5316 355278000226 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355278000227 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 355278000228 anti sigma factor interaction site; other site 355278000229 regulatory phosphorylation site [posttranslational modification]; other site 355278000230 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 355278000231 galactokinase; Provisional; Region: PRK03817 355278000232 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 355278000233 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 355278000234 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 355278000235 active site 355278000236 dimer interface [polypeptide binding]; other site 355278000237 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 355278000238 dimer interface [polypeptide binding]; other site 355278000239 active site 355278000240 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 355278000241 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 355278000242 Substrate binding site; other site 355278000243 metal-binding site 355278000244 Phosphotransferase enzyme family; Region: APH; pfam01636 355278000245 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 355278000246 substrate binding site [chemical binding]; other site 355278000247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000248 Response regulator receiver domain; Region: Response_reg; pfam00072 355278000249 active site 355278000250 phosphorylation site [posttranslational modification] 355278000251 intermolecular recognition site; other site 355278000252 dimerization interface [polypeptide binding]; other site 355278000253 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278000254 PAS domain; Region: PAS; smart00091 355278000255 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 355278000256 dimer interface [polypeptide binding]; other site 355278000257 phosphorylation site [posttranslational modification] 355278000258 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278000259 ATP binding site [chemical binding]; other site 355278000260 G-X-G motif; other site 355278000261 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 355278000262 putative active site [active] 355278000263 heme pocket [chemical binding]; other site 355278000264 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 355278000265 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 355278000266 dimer interface [polypeptide binding]; other site 355278000267 phosphorylation site [posttranslational modification] 355278000268 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278000269 ATP binding site [chemical binding]; other site 355278000270 Mg2+ binding site [ion binding]; other site 355278000271 G-X-G motif; other site 355278000272 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278000273 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278000274 PGAP1-like protein; Region: PGAP1; pfam07819 355278000275 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 355278000276 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 355278000277 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 355278000278 RNA binding surface [nucleotide binding]; other site 355278000279 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 355278000280 S-adenosylmethionine binding site [chemical binding]; other site 355278000281 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 355278000282 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 355278000283 substrate binding pocket [chemical binding]; other site 355278000284 chain length determination region; other site 355278000285 substrate-Mg2+ binding site; other site 355278000286 catalytic residues [active] 355278000287 aspartate-rich region 1; other site 355278000288 active site lid residues [active] 355278000289 aspartate-rich region 2; other site 355278000290 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 355278000291 active site 355278000292 multimer interface [polypeptide binding]; other site 355278000293 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 355278000294 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 355278000295 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 355278000296 Ligand Binding Site [chemical binding]; other site 355278000297 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 355278000298 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 355278000299 active site 355278000300 (T/H)XGH motif; other site 355278000301 argininosuccinate synthase; Provisional; Region: PRK13820 355278000302 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 355278000303 ANP binding site [chemical binding]; other site 355278000304 Substrate Binding Site II [chemical binding]; other site 355278000305 Substrate Binding Site I [chemical binding]; other site 355278000306 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278000307 active site 355278000308 catalytic triad [active] 355278000309 Predicted amidohydrolase [General function prediction only]; Region: COG0388 355278000310 dimer interface [polypeptide binding]; other site 355278000311 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 355278000312 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355278000313 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278000314 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278000315 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 355278000316 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 355278000317 S-adenosylmethionine binding site [chemical binding]; other site 355278000318 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 355278000319 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 355278000320 quinone interaction residues [chemical binding]; other site 355278000321 active site 355278000322 catalytic residues [active] 355278000323 FMN binding site [chemical binding]; other site 355278000324 substrate binding site [chemical binding]; other site 355278000325 PAS fold; Region: PAS_4; pfam08448 355278000326 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278000327 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 355278000328 putative active site [active] 355278000329 heme pocket [chemical binding]; other site 355278000330 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 355278000331 dimer interface [polypeptide binding]; other site 355278000332 phosphorylation site [posttranslational modification] 355278000333 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278000334 ATP binding site [chemical binding]; other site 355278000335 Mg2+ binding site [ion binding]; other site 355278000336 G-X-G motif; other site 355278000337 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278000338 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000339 active site 355278000340 phosphorylation site [posttranslational modification] 355278000341 intermolecular recognition site; other site 355278000342 dimerization interface [polypeptide binding]; other site 355278000343 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278000344 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 355278000345 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 355278000346 motif II; other site 355278000347 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 355278000348 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278000349 active site 355278000350 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278000351 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 355278000352 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278000353 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 355278000354 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278000355 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 355278000356 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278000357 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 355278000358 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 355278000359 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278000360 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278000361 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355278000362 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278000363 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278000364 bile acid transporter; Region: bass; TIGR00841 355278000365 Sodium Bile acid symporter family; Region: SBF; pfam01758 355278000366 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278000367 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278000368 active site 355278000369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000370 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 355278000371 NAD(P) binding site [chemical binding]; other site 355278000372 active site 355278000373 short chain dehydrogenase; Provisional; Region: PRK06179 355278000374 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 355278000375 NADP binding site [chemical binding]; other site 355278000376 active site 355278000377 steroid binding site; other site 355278000378 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278000379 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 355278000380 acyl-activating enzyme (AAE) consensus motif; other site 355278000381 putative AMP binding site [chemical binding]; other site 355278000382 putative active site [active] 355278000383 putative CoA binding site [chemical binding]; other site 355278000384 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 355278000385 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278000386 substrate binding site [chemical binding]; other site 355278000387 oxyanion hole (OAH) forming residues; other site 355278000388 trimer interface [polypeptide binding]; other site 355278000389 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278000390 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278000391 dimer interface [polypeptide binding]; other site 355278000392 putative CheW interface [polypeptide binding]; other site 355278000393 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 355278000394 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278000395 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278000396 putative substrate translocation pore; other site 355278000397 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 355278000398 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278000399 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 355278000400 putative NAD(P) binding site [chemical binding]; other site 355278000401 active site 355278000402 putative substrate binding site [chemical binding]; other site 355278000403 bile acid transporter; Region: bass; TIGR00841 355278000404 Sodium Bile acid symporter family; Region: SBF; cl17470 355278000405 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278000406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278000407 dimer interface [polypeptide binding]; other site 355278000408 putative CheW interface [polypeptide binding]; other site 355278000409 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278000410 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278000411 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278000412 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278000413 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 355278000414 RibD C-terminal domain; Region: RibD_C; cl17279 355278000415 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 355278000416 Predicted membrane protein [Function unknown]; Region: COG4682 355278000417 yiaA/B two helix domain; Region: YiaAB; pfam05360 355278000418 yiaA/B two helix domain; Region: YiaAB; pfam05360 355278000419 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 355278000420 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278000421 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 355278000422 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 355278000423 classical (c) SDRs; Region: SDR_c; cd05233 355278000424 NAD(P) binding site [chemical binding]; other site 355278000425 active site 355278000426 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 355278000427 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278000428 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278000429 Pregnancy-associated plasma protein-A; Region: Peptidase_M43; cl17409 355278000430 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 355278000431 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 355278000432 PAS domain S-box; Region: sensory_box; TIGR00229 355278000433 PAS fold; Region: PAS_4; pfam08448 355278000434 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 355278000435 putative active site [active] 355278000436 heme pocket [chemical binding]; other site 355278000437 PAS domain S-box; Region: sensory_box; TIGR00229 355278000438 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 355278000439 amphipathic channel; other site 355278000440 Asn-Pro-Ala signature motifs; other site 355278000441 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 355278000442 Malic enzyme, N-terminal domain; Region: malic; pfam00390 355278000443 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 355278000444 putative NAD(P) binding site [chemical binding]; other site 355278000445 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 355278000446 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 355278000447 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 355278000448 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 355278000449 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 355278000450 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 355278000451 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 355278000452 cobalamin binding residues [chemical binding]; other site 355278000453 putative BtuC binding residues; other site 355278000454 dimer interface [polypeptide binding]; other site 355278000455 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 355278000456 TrkA-N domain; Region: TrkA_N; pfam02254 355278000457 TrkA-C domain; Region: TrkA_C; pfam02080 355278000458 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 355278000459 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 355278000460 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 355278000461 active site 355278000462 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 355278000463 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 355278000464 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 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 ligand binding site [chemical binding]; other site 355278000467 flexible hinge region; other site 355278000468 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278000469 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 355278000470 nucleophile elbow; other site 355278000471 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 355278000472 Short C-terminal domain; Region: SHOCT; pfam09851 355278000473 Double zinc ribbon; Region: DZR; pfam12773 355278000474 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 355278000475 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 355278000476 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 355278000477 Sulfatase; Region: Sulfatase; cl17466 355278000478 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 355278000479 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 355278000480 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 355278000481 NADP-binding site; other site 355278000482 homotetramer interface [polypeptide binding]; other site 355278000483 substrate binding site [chemical binding]; other site 355278000484 homodimer interface [polypeptide binding]; other site 355278000485 active site 355278000486 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 355278000487 anti sigma factor interaction site; other site 355278000488 regulatory phosphorylation site [posttranslational modification]; other site 355278000489 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 355278000490 bacteriocin-type transport-associated protein; Region: cyc_nuc_ocin; TIGR03896 355278000491 ligand binding site [chemical binding]; other site 355278000492 flexible hinge region; other site 355278000493 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 355278000494 ligand binding site [chemical binding]; other site 355278000495 flexible hinge region; other site 355278000496 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 355278000497 von Willebrand factor type A domain; Region: VWA_2; pfam13519 355278000498 metal ion-dependent adhesion site (MIDAS); other site 355278000499 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 355278000500 putative active site [active] 355278000501 putative CoA binding site [chemical binding]; other site 355278000502 nudix motif; other site 355278000503 metal binding site [ion binding]; metal-binding site 355278000504 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 355278000505 catalytic site [active] 355278000506 putative active site [active] 355278000507 putative substrate binding site [chemical binding]; other site 355278000508 HRDC domain; Region: HRDC; pfam00570 355278000509 amidophosphoribosyltransferase; Provisional; Region: PRK09123 355278000510 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 355278000511 active site 355278000512 tetramer interface [polypeptide binding]; other site 355278000513 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278000514 active site 355278000515 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 355278000516 active site 355278000517 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 355278000518 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 355278000519 Ligand Binding Site [chemical binding]; other site 355278000520 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 355278000521 active site 355278000522 catalytic triad [active] 355278000523 oxyanion hole [active] 355278000524 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278000525 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278000526 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 355278000527 PA/protease or protease-like domain interface [polypeptide binding]; other site 355278000528 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 355278000529 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 355278000530 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 355278000531 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278000532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278000533 active site 355278000534 phosphorylation site [posttranslational modification] 355278000535 intermolecular recognition site; other site 355278000536 dimerization interface [polypeptide binding]; other site 355278000537 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 355278000538 DNA binding residues [nucleotide binding] 355278000539 dimerization interface [polypeptide binding]; other site 355278000540 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 355278000541 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278000542 binding surface 355278000543 TPR motif; other site 355278000544 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 355278000545 binding surface 355278000546 TPR motif; other site 355278000547 TPR repeat; Region: TPR_11; pfam13414 355278000548 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 355278000549 active site 355278000550 spiro-SPASM protein; Region: spiroSPASM; TIGR04321 355278000551 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 355278000552 FeS/SAM binding site; other site 355278000553 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 355278000554 SurA N-terminal domain; Region: SurA_N_3; cl07813 355278000555 putative peptidyl-prolyl cis-trans isomerase, LIC12922 family; Region: PCisTranLspir; TIGR04142 355278000556 aspartate kinase; Reviewed; Region: PRK06635 355278000557 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 355278000558 putative nucleotide binding site [chemical binding]; other site 355278000559 putative catalytic residues [active] 355278000560 putative Mg ion binding site [ion binding]; other site 355278000561 putative aspartate binding site [chemical binding]; other site 355278000562 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 355278000563 putative allosteric regulatory site; other site 355278000564 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 355278000565 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 355278000566 Fatty acid desaturase; Region: FA_desaturase; pfam00487 355278000567 Di-iron ligands [ion binding]; other site 355278000568 Late embryogenesis abundant protein; Region: LEA_2; cl12118 355278000569 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 355278000570 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278000571 NADP binding site [chemical binding]; other site 355278000572 dimer interface [polypeptide binding]; other site 355278000573 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 355278000574 mce related protein; Region: MCE; pfam02470 355278000575 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278000576 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 355278000577 putative ADP-binding pocket [chemical binding]; other site 355278000578 Flagellar protein (FlbD); Region: FlbD; pfam06289 355278000579 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 355278000580 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278000581 flagellar motor protein MotB; Validated; Region: motB; PRK06667 355278000582 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 355278000583 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278000584 ligand binding site [chemical binding]; other site 355278000585 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 355278000586 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 355278000587 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 355278000588 Ligand binding site; other site 355278000589 oligomer interface; other site 355278000590 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 355278000591 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 355278000592 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 355278000593 TrkA-N domain; Region: TrkA_N; pfam02254 355278000594 Outer membrane efflux protein; Region: OEP; pfam02321 355278000595 Outer membrane efflux protein; Region: OEP; pfam02321 355278000596 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 355278000597 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 355278000598 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278000599 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 355278000600 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278000601 Walker A/P-loop; other site 355278000602 ATP binding site [chemical binding]; other site 355278000603 ABC transporter; Region: ABC_tran; pfam00005 355278000604 Q-loop/lid; other site 355278000605 ABC transporter signature motif; other site 355278000606 Walker B; other site 355278000607 D-loop; other site 355278000608 H-loop/switch region; other site 355278000609 YceI-like domain; Region: YceI; cl01001 355278000610 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 355278000611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278000612 Coenzyme A binding pocket [chemical binding]; other site 355278000613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278000614 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278000615 tropinone reductase; Provisional; Region: PRK09242 355278000616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278000617 NAD(P) binding site [chemical binding]; other site 355278000618 active site 355278000619 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 355278000620 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 355278000621 putative hydrophobic ligand binding site [chemical binding]; other site 355278000622 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 355278000623 dimerization interface [polypeptide binding]; other site 355278000624 putative DNA binding site [nucleotide binding]; other site 355278000625 putative Zn2+ binding site [ion binding]; other site 355278000626 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 355278000627 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 355278000628 nucleotide binding pocket [chemical binding]; other site 355278000629 K-X-D-G motif; other site 355278000630 catalytic site [active] 355278000631 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 355278000632 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 355278000633 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 355278000634 Dimer interface [polypeptide binding]; other site 355278000635 BRCT sequence motif; other site 355278000636 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278000637 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278000638 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 355278000639 putative active site [active] 355278000640 YceI-like domain; Region: YceI; smart00867 355278000641 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278000642 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278000643 active site 355278000644 Membrane transport protein; Region: Mem_trans; cl09117 355278000645 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 355278000646 EamA-like transporter family; Region: EamA; pfam00892 355278000647 EamA-like transporter family; Region: EamA; pfam00892 355278000648 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 355278000649 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 355278000650 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355278000651 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 355278000652 putative acyl-acceptor binding pocket; other site 355278000653 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 355278000654 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 355278000655 transmembrane helices; other site 355278000656 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 355278000657 EVE domain; Region: EVE; cl00728 355278000658 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 355278000659 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000660 Walker A motif; other site 355278000661 ATP binding site [chemical binding]; other site 355278000662 Walker B motif; other site 355278000663 arginine finger; other site 355278000664 Peptidase family M41; Region: Peptidase_M41; pfam01434 355278000665 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 355278000666 putative active site [active] 355278000667 catalytic residue [active] 355278000668 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 355278000669 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 355278000670 5S rRNA interface [nucleotide binding]; other site 355278000671 CTC domain interface [polypeptide binding]; other site 355278000672 L16 interface [polypeptide binding]; other site 355278000673 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 355278000674 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 355278000675 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278000676 active site 355278000677 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 355278000678 Substrate binding site; other site 355278000679 Mg++ binding site; other site 355278000680 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14613 355278000681 WYL domain; Region: WYL; pfam13280 355278000682 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 355278000683 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 355278000684 putative transporter; Provisional; Region: PRK10484 355278000685 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u2; cd11478 355278000686 Na binding site [ion binding]; other site 355278000687 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278000688 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278000689 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 355278000690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278000691 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 355278000692 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278000693 putative active site [active] 355278000694 putative metal binding site [ion binding]; other site 355278000695 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 355278000696 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 355278000697 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000698 active site 355278000699 HIGH motif; other site 355278000700 nucleotide binding site [chemical binding]; other site 355278000701 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 355278000702 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 355278000703 active site 355278000704 KMSKS motif; other site 355278000705 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 355278000706 tRNA binding surface [nucleotide binding]; other site 355278000707 anticodon binding site; other site 355278000708 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 355278000709 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13789 355278000710 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 355278000711 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 355278000712 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 355278000713 peptide chain release factor 2; Validated; Region: prfB; PRK00578 355278000714 PCRF domain; Region: PCRF; pfam03462 355278000715 RF-1 domain; Region: RF-1; pfam00472 355278000716 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 355278000717 GAF domain; Region: GAF; pfam01590 355278000718 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000719 Walker A motif; other site 355278000720 ATP binding site [chemical binding]; other site 355278000721 Walker B motif; other site 355278000722 arginine finger; other site 355278000723 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 355278000724 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278000725 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278000726 ligand binding site [chemical binding]; other site 355278000727 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 355278000728 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 355278000729 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 355278000730 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 355278000731 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 355278000732 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 355278000733 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 355278000734 Catalytic site [active] 355278000735 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 355278000736 threonine synthase; Validated; Region: PRK06260 355278000737 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 355278000738 homodimer interface [polypeptide binding]; other site 355278000739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278000740 catalytic residue [active] 355278000741 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000742 active site 355278000743 HIGH motif; other site 355278000744 nucleotide binding site [chemical binding]; other site 355278000745 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000746 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 355278000747 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278000748 active site 355278000749 KMSKS motif; other site 355278000750 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 355278000751 tRNA binding surface [nucleotide binding]; other site 355278000752 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 355278000753 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278000754 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 355278000755 Walker A/P-loop; other site 355278000756 ATP binding site [chemical binding]; other site 355278000757 Q-loop/lid; other site 355278000758 ABC transporter signature motif; other site 355278000759 Walker B; other site 355278000760 D-loop; other site 355278000761 H-loop/switch region; other site 355278000762 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278000763 FtsX-like permease family; Region: FtsX; pfam02687 355278000764 Integrase core domain; Region: rve; pfam00665 355278000765 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355278000766 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278000767 Walker A motif; other site 355278000768 ATP binding site [chemical binding]; other site 355278000769 Walker B motif; other site 355278000770 arginine finger; other site 355278000771 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 355278000772 catalytic center binding site [active] 355278000773 ATP binding site [chemical binding]; other site 355278000774 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 355278000775 oligomerization interface [polypeptide binding]; other site 355278000776 active site 355278000777 metal binding site [ion binding]; metal-binding site 355278000778 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 355278000779 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 355278000780 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: PspE; COG0607 355278000781 active site residue [active] 355278000782 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278000783 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278000784 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278000785 ABC transporter; Region: ABC_tran_2; pfam12848 355278000786 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278000787 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 355278000788 Predicted permeases [General function prediction only]; Region: COG0730 355278000789 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 355278000790 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 355278000791 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 355278000792 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 355278000793 catalytic residues [active] 355278000794 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278000795 Protein export membrane protein; Region: SecD_SecF; cl14618 355278000796 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 355278000797 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355278000798 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278000799 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 355278000800 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278000801 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 355278000802 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 355278000803 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 355278000804 GTP/Mg2+ binding site [chemical binding]; other site 355278000805 G4 box; other site 355278000806 G5 box; other site 355278000807 trmE is a tRNA modification GTPase; Region: trmE; cd04164 355278000808 G1 box; other site 355278000809 G1 box; other site 355278000810 GTP/Mg2+ binding site [chemical binding]; other site 355278000811 Switch I region; other site 355278000812 Switch I region; other site 355278000813 G2 box; other site 355278000814 G2 box; other site 355278000815 Switch II region; other site 355278000816 G3 box; other site 355278000817 G3 box; other site 355278000818 Switch II region; other site 355278000819 G4 box; other site 355278000820 G5 box; other site 355278000821 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 355278000822 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 355278000823 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 355278000824 G-X-X-G motif; other site 355278000825 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 355278000826 RxxxH motif; other site 355278000827 membrane protein insertase; Provisional; Region: PRK01318 355278000828 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 355278000829 Haemolytic domain; Region: Haemolytic; pfam01809 355278000830 MltA specific insert domain; Region: MltA; cl08398 355278000831 3D domain; Region: 3D; pfam06725 355278000832 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278000833 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278000834 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278000835 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 355278000836 putative C-terminal domain interface [polypeptide binding]; other site 355278000837 putative GSH binding site (G-site) [chemical binding]; other site 355278000838 putative dimer interface [polypeptide binding]; other site 355278000839 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278000840 N-terminal domain interface [polypeptide binding]; other site 355278000841 dimer interface [polypeptide binding]; other site 355278000842 substrate binding pocket (H-site) [chemical binding]; other site 355278000843 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 355278000844 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 355278000845 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278000846 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278000847 metal binding site [ion binding]; metal-binding site 355278000848 active site 355278000849 I-site; other site 355278000850 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 355278000851 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 355278000852 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 355278000853 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278000854 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 355278000855 S-adenosylmethionine binding site [chemical binding]; other site 355278000856 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278000857 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278000858 putative substrate translocation pore; other site 355278000859 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 355278000860 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 355278000861 trimer interface [polypeptide binding]; other site 355278000862 putative metal binding site [ion binding]; other site 355278000863 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278000864 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278000865 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278000866 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 355278000867 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 355278000868 putative tRNA-binding site [nucleotide binding]; other site 355278000869 B3/4 domain; Region: B3_4; pfam03483 355278000870 tRNA synthetase B5 domain; Region: B5; smart00874 355278000871 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 355278000872 dimer interface [polypeptide binding]; other site 355278000873 motif 1; other site 355278000874 motif 3; other site 355278000875 motif 2; other site 355278000876 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 355278000877 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278000878 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 355278000879 putative active site [active] 355278000880 heme pocket [chemical binding]; other site 355278000881 PAS domain; Region: PAS; smart00091 355278000882 putative active site [active] 355278000883 heme pocket [chemical binding]; other site 355278000884 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278000885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278000886 metal binding site [ion binding]; metal-binding site 355278000887 active site 355278000888 I-site; other site 355278000889 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 355278000890 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 355278000891 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 355278000892 active site 355278000893 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 355278000894 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 355278000895 ATP binding site [chemical binding]; other site 355278000896 putative Mg++ binding site [ion binding]; other site 355278000897 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 355278000898 nucleotide binding region [chemical binding]; other site 355278000899 ATP-binding site [chemical binding]; other site 355278000900 RQC domain; Region: RQC; pfam09382 355278000901 HRDC domain; Region: HRDC; pfam00570 355278000902 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278000903 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278000904 Caspase domain; Region: Peptidase_C14; pfam00656 355278000905 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 355278000906 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 355278000907 cell division protein FtsA; Region: ftsA; TIGR01174 355278000908 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 355278000909 nucleotide binding site [chemical binding]; other site 355278000910 Cell division protein FtsA; Region: FtsA; pfam14450 355278000911 cell division protein FtsZ; Validated; Region: PRK09330 355278000912 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 355278000913 nucleotide binding site [chemical binding]; other site 355278000914 SulA interaction site; other site 355278000915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 355278000916 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 355278000917 quinolinate synthetase; Provisional; Region: PRK09375 355278000918 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 355278000919 homotrimer interaction site [polypeptide binding]; other site 355278000920 zinc binding site [ion binding]; other site 355278000921 CDP-binding sites; other site 355278000922 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278000923 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278000924 TPR repeat; Region: TPR_11; pfam13414 355278000925 TPR repeat; Region: TPR_11; pfam13414 355278000926 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 355278000927 binding surface 355278000928 TPR motif; other site 355278000929 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 355278000930 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 355278000931 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 355278000932 ABC-ATPase subunit interface; other site 355278000933 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 355278000934 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 355278000935 dimer interface [polypeptide binding]; other site 355278000936 conserved gate region; other site 355278000937 putative PBP binding loops; other site 355278000938 ABC-ATPase subunit interface; other site 355278000939 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 355278000940 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 355278000941 Walker A/P-loop; other site 355278000942 ATP binding site [chemical binding]; other site 355278000943 Q-loop/lid; other site 355278000944 ABC transporter signature motif; other site 355278000945 Walker B; other site 355278000946 D-loop; other site 355278000947 H-loop/switch region; other site 355278000948 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 355278000949 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 355278000950 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 355278000951 Walker A/P-loop; other site 355278000952 ATP binding site [chemical binding]; other site 355278000953 Q-loop/lid; other site 355278000954 ABC transporter signature motif; other site 355278000955 Walker B; other site 355278000956 D-loop; other site 355278000957 H-loop/switch region; other site 355278000958 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 355278000959 AsmA family; Region: AsmA; pfam05170 355278000960 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 355278000961 HEAT repeats; Region: HEAT_2; pfam13646 355278000962 Bacterial SH3 domain; Region: SH3_3; pfam08239 355278000963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278000964 Walker A/P-loop; other site 355278000965 ATP binding site [chemical binding]; other site 355278000966 Q-loop/lid; other site 355278000967 ABC transporter signature motif; other site 355278000968 Walker B; other site 355278000969 D-loop; other site 355278000970 H-loop/switch region; other site 355278000971 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278000972 acyl-activating enzyme (AAE) consensus motif; other site 355278000973 CoA binding site [chemical binding]; other site 355278000974 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278000975 AMP binding site [chemical binding]; other site 355278000976 active site 355278000977 CoA binding site [chemical binding]; other site 355278000978 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 355278000979 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278000980 substrate binding site [chemical binding]; other site 355278000981 oxyanion hole (OAH) forming residues; other site 355278000982 trimer interface [polypeptide binding]; other site 355278000983 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 355278000984 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 355278000985 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 355278000986 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 355278000987 FeS/SAM binding site; other site 355278000988 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 355278000989 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 355278000990 active site 355278000991 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278000992 MAPEG family; Region: MAPEG; pfam01124 355278000993 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 355278000994 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 355278000995 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355278000996 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278000997 metal binding site [ion binding]; metal-binding site 355278000998 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278000999 active site 355278001000 metal binding site [ion binding]; metal-binding site 355278001001 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 355278001002 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 355278001003 generic binding surface II; other site 355278001004 ssDNA binding site; other site 355278001005 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 355278001006 ATP binding site [chemical binding]; other site 355278001007 putative Mg++ binding site [ion binding]; other site 355278001008 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 355278001009 nucleotide binding region [chemical binding]; other site 355278001010 ATP-binding site [chemical binding]; other site 355278001011 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 355278001012 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 355278001013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001014 NAD(P) binding site [chemical binding]; other site 355278001015 active site 355278001016 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 355278001017 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 355278001018 active site 355278001019 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 355278001020 putative binding surface; other site 355278001021 active site 355278001022 putative acyltransferase; Provisional; Region: PRK05790 355278001023 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 355278001024 dimer interface [polypeptide binding]; other site 355278001025 active site 355278001026 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278001027 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278001028 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 355278001029 ligand binding site [chemical binding]; other site 355278001030 flexible hinge region; other site 355278001031 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278001032 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 355278001033 ligand binding site [chemical binding]; other site 355278001034 flexible hinge region; other site 355278001035 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 355278001036 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 355278001037 putative active site [active] 355278001038 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 355278001039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278001048 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 355278001049 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278001050 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278001051 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 355278001052 ligand binding site [chemical binding]; other site 355278001053 flexible hinge region; other site 355278001054 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 355278001055 putative active site [active] 355278001056 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 355278001057 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355278001058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278001059 Walker A/P-loop; other site 355278001060 ATP binding site [chemical binding]; other site 355278001061 Q-loop/lid; other site 355278001062 ABC transporter signature motif; other site 355278001063 Walker B; other site 355278001064 D-loop; other site 355278001065 H-loop/switch region; other site 355278001066 Outer membrane efflux protein; Region: OEP; pfam02321 355278001067 Predicted membrane protein [Function unknown]; Region: COG3463 355278001068 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 355278001069 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 355278001070 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 355278001071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278001072 Coenzyme A binding pocket [chemical binding]; other site 355278001073 DinB family; Region: DinB; cl17821 355278001074 DinB superfamily; Region: DinB_2; pfam12867 355278001075 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 355278001076 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 355278001077 Chromate transporter; Region: Chromate_transp; pfam02417 355278001078 Predicted transcriptional regulators [Transcription]; Region: COG1695 355278001079 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 355278001080 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 355278001081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278001082 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 355278001083 Coenzyme A binding pocket [chemical binding]; other site 355278001084 Protein of unknown function (DUF461); Region: DUF461; cl01071 355278001085 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 355278001086 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 355278001087 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 355278001088 Walker A/P-loop; other site 355278001089 ATP binding site [chemical binding]; other site 355278001090 Q-loop/lid; other site 355278001091 ABC transporter signature motif; other site 355278001092 Walker B; other site 355278001093 D-loop; other site 355278001094 H-loop/switch region; other site 355278001095 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 355278001096 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 355278001097 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 355278001098 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 355278001099 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 355278001100 Cytochrome c; Region: Cytochrom_C; pfam00034 355278001101 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 355278001102 Fasciclin domain; Region: Fasciclin; pfam02469 355278001103 Hemerythrin; Region: Hemerythrin; cd12107 355278001104 Fe binding site [ion binding]; other site 355278001105 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278001106 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 355278001107 putative protease; Provisional; Region: PRK15452 355278001108 Peptidase family U32; Region: Peptidase_U32; pfam01136 355278001109 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 355278001110 DNA-binding response regulator CreB; Provisional; Region: PRK11083 355278001111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001112 active site 355278001113 phosphorylation site [posttranslational modification] 355278001114 intermolecular recognition site; other site 355278001115 dimerization interface [polypeptide binding]; other site 355278001116 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 355278001117 DNA binding site [nucleotide binding] 355278001118 sensory histidine kinase CreC; Provisional; Region: PRK11100 355278001119 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 355278001120 dimer interface [polypeptide binding]; other site 355278001121 phosphorylation site [posttranslational modification] 355278001122 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001123 ATP binding site [chemical binding]; other site 355278001124 Mg2+ binding site [ion binding]; other site 355278001125 G-X-G motif; other site 355278001126 inner membrane protein; Provisional; Region: PRK11715 355278001127 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 355278001128 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 355278001129 putative hydrophobic ligand binding site [chemical binding]; other site 355278001130 MASE1; Region: MASE1; pfam05231 355278001131 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 355278001132 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278001133 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 355278001134 dimer interface [polypeptide binding]; other site 355278001135 phosphorylation site [posttranslational modification] 355278001136 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001137 ATP binding site [chemical binding]; other site 355278001138 Mg2+ binding site [ion binding]; other site 355278001139 G-X-G motif; other site 355278001140 Response regulator receiver domain; Region: Response_reg; pfam00072 355278001141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001142 active site 355278001143 phosphorylation site [posttranslational modification] 355278001144 intermolecular recognition site; other site 355278001145 dimerization interface [polypeptide binding]; other site 355278001146 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 355278001147 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 355278001148 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 355278001149 RibD C-terminal domain; Region: RibD_C; cl17279 355278001150 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 355278001151 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 355278001152 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 355278001153 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 355278001154 substrate binding pocket [chemical binding]; other site 355278001155 Secretory lipase; Region: LIP; pfam03583 355278001156 hypothetical protein; Validated; Region: PRK00029 355278001157 Uncharacterized conserved protein [Function unknown]; Region: COG0397 355278001158 YhhN-like protein; Region: YhhN; pfam07947 355278001159 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 355278001160 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001161 dimer interface [polypeptide binding]; other site 355278001162 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278001163 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001164 dimer interface [polypeptide binding]; other site 355278001165 putative CheW interface [polypeptide binding]; other site 355278001166 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 355278001167 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 355278001168 PAS domain; Region: PAS_9; pfam13426 355278001169 putative active site [active] 355278001170 heme pocket [chemical binding]; other site 355278001171 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278001172 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 355278001173 putative active site [active] 355278001174 heme pocket [chemical binding]; other site 355278001175 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 355278001176 dimer interface [polypeptide binding]; other site 355278001177 phosphorylation site [posttranslational modification] 355278001178 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001179 ATP binding site [chemical binding]; other site 355278001180 Mg2+ binding site [ion binding]; other site 355278001181 G-X-G motif; other site 355278001182 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278001183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001184 active site 355278001185 phosphorylation site [posttranslational modification] 355278001186 intermolecular recognition site; other site 355278001187 dimerization interface [polypeptide binding]; other site 355278001188 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 355278001189 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 355278001190 dimerization interface [polypeptide binding]; other site 355278001191 putative DNA binding site [nucleotide binding]; other site 355278001192 putative Zn2+ binding site [ion binding]; other site 355278001193 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 355278001194 putative hydrophobic ligand binding site [chemical binding]; other site 355278001195 Putative transposase; Region: Y2_Tnp; pfam04986 355278001196 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 355278001197 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 355278001198 putative active site [active] 355278001199 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 355278001200 YHS domain; Region: YHS; pfam04945 355278001201 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355278001202 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278001203 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 355278001204 motif II; other site 355278001205 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 355278001206 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 355278001207 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278001208 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 355278001209 Kelch domain; Region: Kelch; smart00612 355278001210 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 355278001211 Putative transposase; Region: Y2_Tnp; pfam04986 355278001212 rod shape-determining protein MreB; Provisional; Region: PRK13927 355278001213 MreB and similar proteins; Region: MreB_like; cd10225 355278001214 nucleotide binding site [chemical binding]; other site 355278001215 Mg binding site [ion binding]; other site 355278001216 putative protofilament interaction site [polypeptide binding]; other site 355278001217 RodZ interaction site [polypeptide binding]; other site 355278001218 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 355278001219 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 355278001220 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 355278001221 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278001222 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278001223 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 355278001224 binding surface 355278001225 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278001226 TPR motif; other site 355278001227 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 355278001228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001229 putative substrate translocation pore; other site 355278001230 multifunctional aminopeptidase A; Provisional; Region: PRK00913 355278001231 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 355278001232 interface (dimer of trimers) [polypeptide binding]; other site 355278001233 Substrate-binding/catalytic site; other site 355278001234 Zn-binding sites [ion binding]; other site 355278001235 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 355278001236 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 355278001237 catalytic triad [active] 355278001238 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 355278001239 TrkA-C domain; Region: TrkA_C; pfam02080 355278001240 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 355278001241 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355278001242 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 355278001243 tandem repeat interface [polypeptide binding]; other site 355278001244 oligomer interface [polypeptide binding]; other site 355278001245 active site residues [active] 355278001246 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 355278001247 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 355278001248 binding surface 355278001249 TPR motif; other site 355278001250 TPR repeat; Region: TPR_11; pfam13414 355278001251 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 355278001252 binding surface 355278001253 TPR motif; other site 355278001254 TPR repeat; Region: TPR_11; pfam13414 355278001255 Src Homology 3 domain superfamily; Region: SH3; cl17036 355278001256 Bacterial SH3 domain homologues; Region: SH3b; smart00287 355278001257 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 355278001258 dimerization interface [polypeptide binding]; other site 355278001259 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278001260 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001261 dimer interface [polypeptide binding]; other site 355278001262 putative CheW interface [polypeptide binding]; other site 355278001263 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 355278001264 NMT1/THI5 like; Region: NMT1; pfam09084 355278001265 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 355278001266 dimer interface [polypeptide binding]; other site 355278001267 phosphorylation site [posttranslational modification] 355278001268 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 355278001269 Protein of unknown function (DUF805); Region: DUF805; pfam05656 355278001270 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 355278001271 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 355278001272 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 355278001273 active site 355278001274 DNA binding site [nucleotide binding] 355278001275 Int/Topo IB signature motif; other site 355278001276 L-aspartate oxidase; Provisional; Region: PRK09077 355278001277 L-aspartate oxidase; Provisional; Region: PRK06175 355278001278 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355278001279 C-terminal peptidase (prc); Region: prc; TIGR00225 355278001280 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 355278001281 protein binding site [polypeptide binding]; other site 355278001282 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 355278001283 Catalytic dyad [active] 355278001284 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 355278001285 active site 355278001286 hydrophilic channel; other site 355278001287 dimerization interface [polypeptide binding]; other site 355278001288 catalytic residues [active] 355278001289 active site lid [active] 355278001290 TIGR02300 family protein; Region: FYDLN_acid 355278001291 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 355278001292 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 355278001293 bacterial Hfq-like; Region: Hfq; cd01716 355278001294 hexamer interface [polypeptide binding]; other site 355278001295 Sm1 motif; other site 355278001296 RNA binding site [nucleotide binding]; other site 355278001297 Sm2 motif; other site 355278001298 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 355278001299 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 355278001300 Substrate binding site; other site 355278001301 Cupin domain; Region: Cupin_2; cl17218 355278001302 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 355278001303 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 355278001304 PhoU domain; Region: PhoU; pfam01895 355278001305 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001306 dimer interface [polypeptide binding]; other site 355278001307 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278001308 putative CheW interface [polypeptide binding]; other site 355278001309 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 355278001310 dimer interface [polypeptide binding]; other site 355278001311 phosphorylation site [posttranslational modification] 355278001312 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001313 ATP binding site [chemical binding]; other site 355278001314 Mg2+ binding site [ion binding]; other site 355278001315 G-X-G motif; other site 355278001316 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 355278001317 binding surface 355278001318 TPR motif; other site 355278001319 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 355278001320 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 355278001321 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 355278001322 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278001323 HAMP domain; Region: HAMP; pfam00672 355278001324 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278001325 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 355278001326 TPR motif; other site 355278001327 binding surface 355278001328 TPR repeat; Region: TPR_11; pfam13414 355278001329 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 355278001330 binding surface 355278001331 TPR motif; other site 355278001332 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278001333 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 355278001334 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278001335 anti sigma factor interaction site; other site 355278001336 regulatory phosphorylation site [posttranslational modification]; other site 355278001337 Beta-lactamase; Region: Beta-lactamase; pfam00144 355278001338 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 355278001339 Beta-lactamase; Region: Beta-lactamase; pfam00144 355278001340 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 355278001341 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 355278001342 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 355278001343 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 355278001344 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 355278001345 N-terminal plug; other site 355278001346 ligand-binding site [chemical binding]; other site 355278001347 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 355278001348 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 355278001349 substrate binding site [chemical binding]; other site 355278001350 ATP binding site [chemical binding]; other site 355278001351 Response regulator receiver domain; Region: Response_reg; pfam00072 355278001352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001353 active site 355278001354 phosphorylation site [posttranslational modification] 355278001355 intermolecular recognition site; other site 355278001356 dimerization interface [polypeptide binding]; other site 355278001357 PAS fold; Region: PAS_4; pfam08448 355278001358 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 355278001359 putative active site [active] 355278001360 heme pocket [chemical binding]; other site 355278001361 PAS domain S-box; Region: sensory_box; TIGR00229 355278001362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278001363 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 355278001364 dimer interface [polypeptide binding]; other site 355278001365 phosphorylation site [posttranslational modification] 355278001366 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001367 ATP binding site [chemical binding]; other site 355278001368 Mg2+ binding site [ion binding]; other site 355278001369 G-X-G motif; other site 355278001370 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355278001371 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 355278001372 Walker A/P-loop; other site 355278001373 ATP binding site [chemical binding]; other site 355278001374 Q-loop/lid; other site 355278001375 ABC transporter signature motif; other site 355278001376 Walker B; other site 355278001377 D-loop; other site 355278001378 H-loop/switch region; other site 355278001379 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 355278001380 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 355278001381 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355278001382 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 355278001383 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278001384 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 355278001385 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 355278001386 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 355278001387 dimer interface [polypeptide binding]; other site 355278001388 motif 1; other site 355278001389 active site 355278001390 motif 2; other site 355278001391 motif 3; other site 355278001392 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 355278001393 active site 355278001394 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 355278001395 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 355278001396 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 355278001397 active site 355278001398 substrate binding site [chemical binding]; other site 355278001399 metal binding site [ion binding]; metal-binding site 355278001400 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 355278001401 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 355278001402 glutaminase active site [active] 355278001403 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 355278001404 dimer interface [polypeptide binding]; other site 355278001405 active site 355278001406 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 355278001407 dimer interface [polypeptide binding]; other site 355278001408 active site 355278001409 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 355278001410 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 355278001411 putative trimer interface [polypeptide binding]; other site 355278001412 putative CoA binding site [chemical binding]; other site 355278001413 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278001414 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 355278001415 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 355278001416 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 355278001417 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 355278001418 anti sigma factor interaction site; other site 355278001419 regulatory phosphorylation site [posttranslational modification]; other site 355278001420 DJ-1 family protein; Region: not_thiJ; TIGR01383 355278001421 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 355278001422 conserved cys residue [active] 355278001423 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 355278001424 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 355278001425 protein binding site [polypeptide binding]; other site 355278001426 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 355278001427 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278001428 Walker A motif; other site 355278001429 ATP binding site [chemical binding]; other site 355278001430 Walker B motif; other site 355278001431 arginine finger; other site 355278001432 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 355278001433 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 355278001434 Beta-lactamase; Region: Beta-lactamase; pfam00144 355278001435 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 355278001436 Fe-S metabolism associated domain; Region: SufE; cl00951 355278001437 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 355278001438 metal binding site [ion binding]; metal-binding site 355278001439 nucleotidyl binding site; other site 355278001440 glycyl-tRNA synthetase; Provisional; Region: PRK14894 355278001441 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 355278001442 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 355278001443 Transglycosylase; Region: Transgly; pfam00912 355278001444 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 355278001445 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 355278001446 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 355278001447 active site 355278001448 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278001449 Predicted permeases [General function prediction only]; Region: COG0795 355278001450 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 355278001451 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355278001452 FAD binding domain; Region: FAD_binding_4; pfam01565 355278001453 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278001454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001455 NAD(P) binding site [chemical binding]; other site 355278001456 active site 355278001457 YacP-like NYN domain; Region: NYN_YacP; cl01491 355278001458 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278001459 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278001460 FecR protein; Region: FecR; pfam04773 355278001461 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 355278001462 dimerization interface [polypeptide binding]; other site 355278001463 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278001464 cyclase homology domain; Region: CHD; cd07302 355278001465 nucleotidyl binding site; other site 355278001466 metal binding site [ion binding]; metal-binding site 355278001467 dimer interface [polypeptide binding]; other site 355278001468 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 355278001469 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 355278001470 dimerization interface 3.5A [polypeptide binding]; other site 355278001471 active site 355278001472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 355278001473 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 355278001474 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278001475 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 355278001476 putative acyl-acceptor binding pocket; other site 355278001477 RIO kinase family, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside...; Region: RIO; cl17248 355278001478 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 355278001479 active site 355278001480 catalytic residues [active] 355278001481 Isochorismatase family; Region: Isochorismatase; pfam00857 355278001482 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 355278001483 conserved cis-peptide bond; other site 355278001484 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 355278001485 Sulfatase; Region: Sulfatase; pfam00884 355278001486 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 355278001487 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278001488 ATP-grasp domain; Region: ATP-grasp_4; cl17255 355278001489 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 355278001490 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 355278001491 carboxyltransferase (CT) interaction site; other site 355278001492 biotinylation site [posttranslational modification]; other site 355278001493 Surface antigen; Region: Bac_surface_Ag; pfam01103 355278001494 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355278001495 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 355278001496 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 355278001497 G1 box; other site 355278001498 GTP/Mg2+ binding site [chemical binding]; other site 355278001499 Switch I region; other site 355278001500 G2 box; other site 355278001501 G3 box; other site 355278001502 Switch II region; other site 355278001503 G4 box; other site 355278001504 G5 box; other site 355278001505 GAF domain; Region: GAF_3; pfam13492 355278001506 GAF domain; Region: GAF_3; pfam13492 355278001507 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278001508 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278001509 GAF domain; Region: GAF_2; pfam13185 355278001510 GAF domain; Region: GAF; pfam01590 355278001511 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 355278001512 GAF domain; Region: GAF; pfam01590 355278001513 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278001514 Walker A motif; other site 355278001515 ATP binding site [chemical binding]; other site 355278001516 Walker B motif; other site 355278001517 arginine finger; other site 355278001518 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 355278001519 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 355278001520 dimer interface [polypeptide binding]; other site 355278001521 substrate binding site [chemical binding]; other site 355278001522 ATP binding site [chemical binding]; other site 355278001523 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 355278001524 DNA binding site [nucleotide binding] 355278001525 active site 355278001526 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 355278001527 dinuclear metal binding motif [ion binding]; other site 355278001528 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 355278001529 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278001530 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 355278001531 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278001532 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355278001533 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355278001534 FAD binding domain; Region: FAD_binding_4; pfam01565 355278001535 polyphosphate kinase; Provisional; Region: PRK05443 355278001536 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 355278001537 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 355278001538 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 355278001539 putative domain interface [polypeptide binding]; other site 355278001540 putative active site [active] 355278001541 catalytic site [active] 355278001542 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 355278001543 putative domain interface [polypeptide binding]; other site 355278001544 putative active site [active] 355278001545 catalytic site [active] 355278001546 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 355278001547 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 355278001548 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 355278001549 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 355278001550 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 355278001551 motif II; other site 355278001552 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 355278001553 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278001554 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 355278001555 S-adenosylmethionine binding site [chemical binding]; other site 355278001556 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 355278001557 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 355278001558 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 355278001559 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278001560 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278001561 putative acyl-acceptor binding pocket; other site 355278001562 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 355278001563 dimerization interface [polypeptide binding]; other site 355278001564 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278001565 cyclase homology domain; Region: CHD; cd07302 355278001566 nucleotidyl binding site; other site 355278001567 metal binding site [ion binding]; metal-binding site 355278001568 dimer interface [polypeptide binding]; other site 355278001569 MFS/sugar transport protein; Region: MFS_2; pfam13347 355278001570 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001571 putative substrate translocation pore; other site 355278001572 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278001573 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278001574 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278001575 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 355278001576 binding surface 355278001577 TPR motif; other site 355278001578 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278001579 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 355278001580 PAS domain; Region: PAS_9; pfam13426 355278001581 putative active site [active] 355278001582 heme pocket [chemical binding]; other site 355278001583 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278001584 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278001585 dimer interface [polypeptide binding]; other site 355278001586 putative CheW interface [polypeptide binding]; other site 355278001587 OsmC-like protein; Region: OsmC; pfam02566 355278001588 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 355278001589 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 355278001590 active site 355278001591 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 355278001592 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 355278001593 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 355278001594 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 355278001595 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 355278001596 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 355278001597 FMN binding site [chemical binding]; other site 355278001598 active site 355278001599 catalytic residues [active] 355278001600 substrate binding site [chemical binding]; other site 355278001601 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 355278001602 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 355278001603 PYR/PP interface [polypeptide binding]; other site 355278001604 dimer interface [polypeptide binding]; other site 355278001605 TPP binding site [chemical binding]; other site 355278001606 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 355278001607 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 355278001608 TPP-binding site [chemical binding]; other site 355278001609 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 355278001610 Predicted flavoprotein [General function prediction only]; Region: COG0431 355278001611 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 355278001612 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278001613 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 355278001614 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 355278001615 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 355278001616 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278001617 Predicted transcriptional regulators [Transcription]; Region: COG1695 355278001618 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 355278001619 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 355278001620 NMT1/THI5 like; Region: NMT1; pfam09084 355278001621 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 355278001622 dimer interface [polypeptide binding]; other site 355278001623 phosphorylation site [posttranslational modification] 355278001624 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278001625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001626 ATP binding site [chemical binding]; other site 355278001627 Mg2+ binding site [ion binding]; other site 355278001628 G-X-G motif; other site 355278001629 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 355278001630 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 355278001631 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 355278001632 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355278001633 classical (c) SDRs; Region: SDR_c; cd05233 355278001634 NAD(P) binding site [chemical binding]; other site 355278001635 active site 355278001636 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278001637 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 355278001638 ligand binding site [chemical binding]; other site 355278001639 flexible hinge region; other site 355278001640 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 355278001641 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278001642 ligand binding site [chemical binding]; other site 355278001643 flexible hinge region; other site 355278001644 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001645 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 355278001646 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001647 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 355278001648 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001649 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 355278001650 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001651 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 355278001652 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001653 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278001654 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 355278001655 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278001656 Bacterial SH3 domain; Region: SH3_3; pfam08239 355278001657 Bacterial SH3 domain; Region: SH3_3; cl17532 355278001658 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278001659 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278001660 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278001661 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 355278001662 DNA binding residues [nucleotide binding] 355278001663 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001664 GAF domain; Region: GAF_3; pfam13492 355278001665 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001666 GAF domain; Region: GAF; cl17456 355278001667 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278001668 cyclase homology domain; Region: CHD; cd07302 355278001669 nucleotidyl binding site; other site 355278001670 metal binding site [ion binding]; metal-binding site 355278001671 dimer interface [polypeptide binding]; other site 355278001672 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278001673 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001674 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278001675 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001676 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278001677 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278001678 GAF domain; Region: GAF_3; pfam13492 355278001679 Heme NO binding associated; Region: HNOBA; pfam07701 355278001680 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278001681 cyclase homology domain; Region: CHD; cd07302 355278001682 nucleotidyl binding site; other site 355278001683 metal binding site [ion binding]; metal-binding site 355278001684 dimer interface [polypeptide binding]; other site 355278001685 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 355278001686 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355278001687 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 355278001688 catalytic residues [active] 355278001689 dimer interface [polypeptide binding]; other site 355278001690 Protein of unknown function, DUF399; Region: DUF399; pfam04187 355278001691 Transglycosylase; Region: Transgly; pfam00912 355278001692 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 355278001693 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 355278001694 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 355278001695 active site 355278001696 NTP binding site [chemical binding]; other site 355278001697 metal binding triad [ion binding]; metal-binding site 355278001698 antibiotic binding site [chemical binding]; other site 355278001699 Protein of unknown function DUF86; Region: DUF86; cl01031 355278001700 transketolase; Reviewed; Region: PRK05899 355278001701 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 355278001702 TPP-binding site [chemical binding]; other site 355278001703 dimer interface [polypeptide binding]; other site 355278001704 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 355278001705 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 355278001706 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 355278001707 substrate binding pocket [chemical binding]; other site 355278001708 chain length determination region; other site 355278001709 substrate-Mg2+ binding site; other site 355278001710 catalytic residues [active] 355278001711 aspartate-rich region 1; other site 355278001712 active site lid residues [active] 355278001713 aspartate-rich region 2; other site 355278001714 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278001715 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 355278001716 dimer interface [polypeptide binding]; other site 355278001717 phosphorylation site [posttranslational modification] 355278001718 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278001719 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001720 ATP binding site [chemical binding]; other site 355278001721 Mg2+ binding site [ion binding]; other site 355278001722 G-X-G motif; other site 355278001723 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 355278001724 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 355278001725 Cl- selectivity filter; other site 355278001726 Cl- binding residues [ion binding]; other site 355278001727 pore gating glutamate residue; other site 355278001728 dimer interface [polypeptide binding]; other site 355278001729 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 355278001730 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 355278001731 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 355278001732 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 355278001733 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 355278001734 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 355278001735 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 355278001736 homodimer interface [polypeptide binding]; other site 355278001737 metal binding site [ion binding]; metal-binding site 355278001738 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 355278001739 homodimer interface [polypeptide binding]; other site 355278001740 active site 355278001741 putative chemical substrate binding site [chemical binding]; other site 355278001742 metal binding site [ion binding]; metal-binding site 355278001743 anthranilate synthase component I; Provisional; Region: PRK13569 355278001744 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 355278001745 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 355278001746 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 355278001747 trimer interface [polypeptide binding]; other site 355278001748 active site 355278001749 UDP-GlcNAc binding site [chemical binding]; other site 355278001750 lipid binding site [chemical binding]; lipid-binding site 355278001751 Predicted membrane protein [Function unknown]; Region: COG2259 355278001752 RibD C-terminal domain; Region: RibD_C; pfam01872 355278001753 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 355278001754 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 355278001755 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001756 putative substrate translocation pore; other site 355278001757 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 355278001758 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 355278001759 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 355278001760 Predicted transcriptional regulator [Transcription]; Region: COG2378 355278001761 WYL domain; Region: WYL; pfam13280 355278001762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001763 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278001764 putative substrate translocation pore; other site 355278001765 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 355278001766 heme binding pocket [chemical binding]; other site 355278001767 heme ligand [chemical binding]; other site 355278001768 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 355278001769 DNA polymerase I; Provisional; Region: PRK05755 355278001770 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 355278001771 active site 355278001772 metal binding site 1 [ion binding]; metal-binding site 355278001773 putative 5' ssDNA interaction site; other site 355278001774 metal binding site 3; metal-binding site 355278001775 metal binding site 2 [ion binding]; metal-binding site 355278001776 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 355278001777 putative DNA binding site [nucleotide binding]; other site 355278001778 putative metal binding site [ion binding]; other site 355278001779 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 355278001780 active site 355278001781 catalytic site [active] 355278001782 substrate binding site [chemical binding]; other site 355278001783 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 355278001784 active site 355278001785 DNA binding site [nucleotide binding] 355278001786 catalytic site [active] 355278001787 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 355278001788 putative ADP-binding pocket [chemical binding]; other site 355278001789 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278001790 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278001791 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278001792 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 355278001793 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 355278001794 HIGH motif; other site 355278001795 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 355278001796 active site 355278001797 KMSKS motif; other site 355278001798 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 355278001799 CAP-like domain; other site 355278001800 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 355278001801 active site 355278001802 primary dimer interface [polypeptide binding]; other site 355278001803 TopoisomeraseII; Region: TOP2c; smart00433 355278001804 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001805 ATP binding site [chemical binding]; other site 355278001806 Mg2+ binding site [ion binding]; other site 355278001807 G-X-G motif; other site 355278001808 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 355278001809 ATP binding site [chemical binding]; other site 355278001810 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 355278001811 active site 355278001812 putative metal-binding site [ion binding]; other site 355278001813 Beta-lactamase; Region: Beta-lactamase; pfam00144 355278001814 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 355278001815 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 355278001816 Protein of unknown function (DUF445); Region: DUF445; pfam04286 355278001817 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278001818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278001819 NAD(P) binding site [chemical binding]; other site 355278001820 active site 355278001821 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 355278001822 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 355278001823 Coenzyme A binding pocket [chemical binding]; other site 355278001824 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 355278001825 DNA protecting protein DprA; Region: dprA; TIGR00732 355278001826 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 355278001827 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 355278001828 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 355278001829 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 355278001830 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 355278001831 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 355278001832 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001833 catalytic residue [active] 355278001834 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 355278001835 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 355278001836 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 355278001837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278001838 homodimer interface [polypeptide binding]; other site 355278001839 catalytic residue [active] 355278001840 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278001841 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 355278001842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001843 catalytic residue [active] 355278001844 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 355278001845 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 355278001846 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 355278001847 C-terminal domain interface [polypeptide binding]; other site 355278001848 GSH binding site (G-site) [chemical binding]; other site 355278001849 dimer interface [polypeptide binding]; other site 355278001850 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278001851 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278001852 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 355278001853 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278001854 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278001855 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 355278001856 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 355278001857 Bacterial SH3 domain; Region: SH3_3; cl17532 355278001858 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 355278001859 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 355278001860 dimer interface [polypeptide binding]; other site 355278001861 active site 355278001862 ketol-acid reductoisomerase; Provisional; Region: PRK05479 355278001863 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 355278001864 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 355278001865 MASE1; Region: MASE1; cl17823 355278001866 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278001867 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278001868 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278001869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278001870 Walker A/P-loop; other site 355278001871 ATP binding site [chemical binding]; other site 355278001872 Q-loop/lid; other site 355278001873 ABC transporter signature motif; other site 355278001874 Walker B; other site 355278001875 D-loop; other site 355278001876 H-loop/switch region; other site 355278001877 ABC transporter; Region: ABC_tran_2; pfam12848 355278001878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278001879 PAS fold; Region: PAS_3; pfam08447 355278001880 PAS fold; Region: PAS; pfam00989 355278001881 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 355278001882 putative active site [active] 355278001883 heme pocket [chemical binding]; other site 355278001884 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 355278001885 PAS fold; Region: PAS_3; pfam08447 355278001886 putative active site [active] 355278001887 heme pocket [chemical binding]; other site 355278001888 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 355278001889 dimer interface [polypeptide binding]; other site 355278001890 phosphorylation site [posttranslational modification] 355278001891 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278001892 ATP binding site [chemical binding]; other site 355278001893 Mg2+ binding site [ion binding]; other site 355278001894 G-X-G motif; other site 355278001895 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278001896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001897 active site 355278001898 phosphorylation site [posttranslational modification] 355278001899 intermolecular recognition site; other site 355278001900 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278001901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278001902 active site 355278001903 phosphorylation site [posttranslational modification] 355278001904 intermolecular recognition site; other site 355278001905 dimerization interface [polypeptide binding]; other site 355278001906 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 355278001907 Domain of unknown function DUF21; Region: DUF21; pfam01595 355278001908 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 355278001909 Transporter associated domain; Region: CorC_HlyC; smart01091 355278001910 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 355278001911 Flavoprotein; Region: Flavoprotein; pfam02441 355278001912 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 355278001913 Protein of unknown function, DUF486; Region: DUF486; cl01236 355278001914 NAD-dependent deacetylase; Provisional; Region: PRK00481 355278001915 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 355278001916 NAD+ binding site [chemical binding]; other site 355278001917 substrate binding site [chemical binding]; other site 355278001918 Zn binding site [ion binding]; other site 355278001919 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 355278001920 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 355278001921 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001922 catalytic residue [active] 355278001923 Cytochrome C biogenesis protein; Region: CcmH; cl01179 355278001924 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 355278001925 CcmE; Region: CcmE; cl00994 355278001926 Uncharacterized conserved protein [Function unknown]; Region: COG1434 355278001927 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 355278001928 putative active site [active] 355278001929 acetolactate synthase catalytic subunit; Reviewed; Region: PRK06276 355278001930 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 355278001931 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 355278001932 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 355278001933 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 355278001934 transmembrane helices; other site 355278001935 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 355278001936 active sites [active] 355278001937 tetramer interface [polypeptide binding]; other site 355278001938 Domain of unknown function (DUF368); Region: DUF368; pfam04018 355278001939 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 355278001940 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 355278001941 Mg++ binding site [ion binding]; other site 355278001942 putative catalytic motif [active] 355278001943 putative substrate binding site [chemical binding]; other site 355278001944 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 355278001945 dihydrodipicolinate synthase; Region: dapA; TIGR00674 355278001946 dimer interface [polypeptide binding]; other site 355278001947 active site 355278001948 catalytic residue [active] 355278001949 dihydrodipicolinate reductase; Provisional; Region: PRK00048 355278001950 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 355278001951 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 355278001952 Uncharacterized conserved protein [Function unknown]; Region: COG1624 355278001953 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 355278001954 YbbR-like protein; Region: YbbR; pfam07949 355278001955 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278001956 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278001957 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278001958 cyclase homology domain; Region: CHD; cd07302 355278001959 nucleotidyl binding site; other site 355278001960 metal binding site [ion binding]; metal-binding site 355278001961 dimer interface [polypeptide binding]; other site 355278001962 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 355278001963 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 355278001964 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 355278001965 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 355278001966 PemK-like protein; Region: PemK; pfam02452 355278001967 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 355278001968 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 355278001969 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278001970 catalytic residue [active] 355278001971 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278001972 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278001973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278001974 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 355278001975 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 355278001976 N- and C-terminal domain interface [polypeptide binding]; other site 355278001977 active site 355278001978 MgATP binding site [chemical binding]; other site 355278001979 catalytic site [active] 355278001980 metal binding site [ion binding]; metal-binding site 355278001981 xylulose binding site [chemical binding]; other site 355278001982 putative homodimer interface [polypeptide binding]; other site 355278001983 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 355278001984 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 355278001985 active site 355278001986 substrate binding site [chemical binding]; other site 355278001987 ATP binding site [chemical binding]; other site 355278001988 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 355278001989 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 355278001990 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 355278001991 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12729 355278001992 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 355278001993 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 355278001994 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 355278001995 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12624 355278001996 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 355278001997 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 355278001998 PLD-like domain; Region: PLDc_2; pfam13091 355278001999 putative homodimer interface [polypeptide binding]; other site 355278002000 putative active site [active] 355278002001 catalytic site [active] 355278002002 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 355278002003 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 355278002004 ATP binding site [chemical binding]; other site 355278002005 putative Mg++ binding site [ion binding]; other site 355278002006 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 355278002007 nucleotide binding region [chemical binding]; other site 355278002008 ATP-binding site [chemical binding]; other site 355278002009 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 355278002010 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 355278002011 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 355278002012 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 355278002013 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278002014 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 355278002015 Permease; Region: Permease; pfam02405 355278002016 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 355278002017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278002018 Walker A/P-loop; other site 355278002019 ATP binding site [chemical binding]; other site 355278002020 Q-loop/lid; other site 355278002021 ABC transporter signature motif; other site 355278002022 Walker B; other site 355278002023 D-loop; other site 355278002024 H-loop/switch region; other site 355278002025 mce related protein; Region: MCE; pfam02470 355278002026 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 355278002027 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 355278002028 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 355278002029 dimer interface [polypeptide binding]; other site 355278002030 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278002031 active site 355278002032 metal binding site [ion binding]; metal-binding site 355278002033 glutathione binding site [chemical binding]; other site 355278002034 flavoprotein, HI0933 family; Region: TIGR00275 355278002035 pyruvate kinase; Provisional; Region: PRK05826 355278002036 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 355278002037 domain interfaces; other site 355278002038 active site 355278002039 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 355278002040 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 355278002041 putative active site [active] 355278002042 Zn binding site [ion binding]; other site 355278002043 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002045 active site 355278002046 phosphorylation site [posttranslational modification] 355278002047 intermolecular recognition site; other site 355278002048 dimerization interface [polypeptide binding]; other site 355278002049 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278002050 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278002051 Melibiase; Region: Melibiase; pfam02065 355278002052 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 355278002053 catalytic site [active] 355278002054 putative active site [active] 355278002055 putative substrate binding site [chemical binding]; other site 355278002056 DNA repair protein RadA; Provisional; Region: PRK11823 355278002057 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 355278002058 Walker A motif; other site 355278002059 ATP binding site [chemical binding]; other site 355278002060 Walker B motif; other site 355278002061 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 355278002062 PGAP1-like protein; Region: PGAP1; pfam07819 355278002063 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 355278002064 Putative glycosyl hydrolase domain; Region: DUF4015; cl17870 355278002065 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 355278002066 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 355278002067 active site 355278002068 Zn binding site [ion binding]; other site 355278002069 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 355278002070 Putative Ig domain; Region: He_PIG; pfam05345 355278002071 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278002072 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 355278002073 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 355278002074 tetrameric interface [polypeptide binding]; other site 355278002075 activator binding site; other site 355278002076 NADP binding site [chemical binding]; other site 355278002077 substrate binding site [chemical binding]; other site 355278002078 catalytic residues [active] 355278002079 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 355278002080 putative active site [active] 355278002081 putative catalytic site [active] 355278002082 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 355278002083 active site 2 [active] 355278002084 active site 1 [active] 355278002085 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 355278002086 Predicted membrane protein (DUF2206); Region: DUF2206; pfam09971 355278002087 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 355278002088 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 355278002089 Catalytic site [active] 355278002090 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 355278002091 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 355278002092 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 355278002093 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 355278002094 PYR/PP interface [polypeptide binding]; other site 355278002095 dimer interface [polypeptide binding]; other site 355278002096 TPP binding site [chemical binding]; other site 355278002097 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 355278002098 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 355278002099 TPP-binding site [chemical binding]; other site 355278002100 dimer interface [polypeptide binding]; other site 355278002101 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 355278002102 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355278002103 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 355278002104 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 355278002105 catalytic residues [active] 355278002106 dimer interface [polypeptide binding]; other site 355278002107 Transcriptional regulators [Transcription]; Region: MarR; COG1846 355278002108 MarR family; Region: MarR; pfam01047 355278002109 F0F1 ATP synthase subunit A; Provisional; Region: PRK13417 355278002110 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 355278002111 F0F1 ATP synthase subunit B; Provisional; Region: PRK13460 355278002112 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 355278002113 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13434 355278002114 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 355278002115 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 355278002116 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 355278002117 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 355278002118 beta subunit interaction interface [polypeptide binding]; other site 355278002119 Walker A motif; other site 355278002120 ATP binding site [chemical binding]; other site 355278002121 Walker B motif; other site 355278002122 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 355278002123 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 355278002124 core domain interface [polypeptide binding]; other site 355278002125 delta subunit interface [polypeptide binding]; other site 355278002126 epsilon subunit interface [polypeptide binding]; other site 355278002127 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 355278002128 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 355278002129 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 355278002130 alpha subunit interaction interface [polypeptide binding]; other site 355278002131 Walker A motif; other site 355278002132 ATP binding site [chemical binding]; other site 355278002133 Walker B motif; other site 355278002134 inhibitor binding site; inhibition site 355278002135 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 355278002136 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13444 355278002137 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 355278002138 gamma subunit interface [polypeptide binding]; other site 355278002139 epsilon subunit interface [polypeptide binding]; other site 355278002140 LBP interface [polypeptide binding]; other site 355278002141 SLBB domain; Region: SLBB; pfam10531 355278002142 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278002143 GAF domain; Region: GAF_3; pfam13492 355278002144 GAF domain; Region: GAF_3; pfam13492 355278002145 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278002146 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 355278002147 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 355278002148 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 355278002149 catalytic site [active] 355278002150 subunit interface [polypeptide binding]; other site 355278002151 Leptospira porin protein OmpL1; Region: Porin_OmpL1; pfam11389 355278002152 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 355278002153 aromatic arch; other site 355278002154 DCoH dimer interaction site [polypeptide binding]; other site 355278002155 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 355278002156 DCoH tetramer interaction site [polypeptide binding]; other site 355278002157 substrate binding site [chemical binding]; other site 355278002158 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 355278002159 EamA-like transporter family; Region: EamA; pfam00892 355278002160 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 355278002161 ligand binding site [chemical binding]; other site 355278002162 active site 355278002163 UGI interface [polypeptide binding]; other site 355278002164 catalytic site [active] 355278002165 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 355278002166 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 355278002167 EamA-like transporter family; Region: EamA; pfam00892 355278002168 EamA-like transporter family; Region: EamA; pfam00892 355278002169 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 355278002170 Domain of unknown function DUF20; Region: UPF0118; pfam01594 355278002171 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278002172 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 355278002173 ligand binding site [chemical binding]; other site 355278002174 flexible hinge region; other site 355278002175 AAA domain; Region: AAA_26; pfam13500 355278002176 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 355278002177 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 355278002178 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 355278002179 inhibitor-cofactor binding pocket; inhibition site 355278002180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002181 catalytic residue [active] 355278002182 biotin synthase; Region: bioB; TIGR00433 355278002183 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 355278002184 FeS/SAM binding site; other site 355278002185 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 355278002186 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 355278002187 MFS/sugar transport protein; Region: MFS_2; pfam13347 355278002188 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 355278002189 active site 355278002190 catalytic triad [active] 355278002191 oxyanion hole [active] 355278002192 phosphoserine phosphatase SerB; Region: serB; TIGR00338 355278002193 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 355278002194 active site 355278002195 motif I; other site 355278002196 motif II; other site 355278002197 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 355278002198 MutS domain I; Region: MutS_I; pfam01624 355278002199 MutS domain II; Region: MutS_II; pfam05188 355278002200 MutS domain III; Region: MutS_III; pfam05192 355278002201 MutS domain V; Region: MutS_V; pfam00488 355278002202 Walker A/P-loop; other site 355278002203 ATP binding site [chemical binding]; other site 355278002204 Q-loop/lid; other site 355278002205 ABC transporter signature motif; other site 355278002206 Walker B; other site 355278002207 D-loop; other site 355278002208 H-loop/switch region; other site 355278002209 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 355278002210 active site 355278002211 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 355278002212 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278002213 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 355278002214 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278002215 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 355278002216 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 355278002217 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 355278002218 shikimate binding site; other site 355278002219 NAD(P) binding site [chemical binding]; other site 355278002220 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 355278002221 putative metal binding site; other site 355278002222 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 355278002223 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 355278002224 RNA binding site [nucleotide binding]; other site 355278002225 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 355278002226 RNA binding site [nucleotide binding]; other site 355278002227 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 355278002228 RNA binding site [nucleotide binding]; other site 355278002229 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 355278002230 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278002231 excinuclease ABC subunit B; Provisional; Region: PRK05298 355278002232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278002233 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 355278002234 Walker A/P-loop; other site 355278002235 ATP binding site [chemical binding]; other site 355278002236 ATP binding site [chemical binding]; other site 355278002237 putative Mg++ binding site [ion binding]; other site 355278002238 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 355278002239 nucleotide binding region [chemical binding]; other site 355278002240 ATP-binding site [chemical binding]; other site 355278002241 Ultra-violet resistance protein B; Region: UvrB; pfam12344 355278002242 UvrB/uvrC motif; Region: UVR; pfam02151 355278002243 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 355278002244 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278002245 Walker A motif; other site 355278002246 ATP binding site [chemical binding]; other site 355278002247 Walker B motif; other site 355278002248 arginine finger; other site 355278002249 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 355278002250 Transglycosylase; Region: Transgly; pfam00912 355278002251 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 355278002252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 355278002253 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 355278002254 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 355278002255 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355278002256 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 355278002257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278002258 Walker A/P-loop; other site 355278002259 ATP binding site [chemical binding]; other site 355278002260 Q-loop/lid; other site 355278002261 ABC transporter signature motif; other site 355278002262 Walker B; other site 355278002263 D-loop; other site 355278002264 H-loop/switch region; other site 355278002265 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 355278002266 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 355278002267 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 355278002268 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 355278002269 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 355278002270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278002271 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278002272 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 355278002273 S-adenosylmethionine binding site [chemical binding]; other site 355278002274 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 355278002275 putative homodimer interface [polypeptide binding]; other site 355278002276 putative homotetramer interface [polypeptide binding]; other site 355278002277 putative allosteric switch controlling residues; other site 355278002278 putative metal binding site [ion binding]; other site 355278002279 putative homodimer-homodimer interface [polypeptide binding]; other site 355278002280 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278002281 Protein export membrane protein; Region: SecD_SecF; cl14618 355278002282 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 355278002283 dimerization interface [polypeptide binding]; other site 355278002284 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 355278002285 dimer interface [polypeptide binding]; other site 355278002286 phosphorylation site [posttranslational modification] 355278002287 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002288 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002289 ATP binding site [chemical binding]; other site 355278002290 Mg2+ binding site [ion binding]; other site 355278002291 G-X-G motif; other site 355278002292 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 355278002293 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 355278002294 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355278002295 catalytic residue [active] 355278002296 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 355278002297 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 355278002298 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 355278002299 active site 355278002300 TPR repeat; Region: TPR_11; pfam13414 355278002301 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 355278002302 binding surface 355278002303 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278002304 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278002305 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 355278002306 substrate binding site [chemical binding]; other site 355278002307 oxyanion hole (OAH) forming residues; other site 355278002308 trimer interface [polypeptide binding]; other site 355278002309 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 355278002310 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 355278002311 ligand binding site [chemical binding]; other site 355278002312 flexible hinge region; other site 355278002313 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 355278002314 putative switch regulator; other site 355278002315 non-specific DNA interactions [nucleotide binding]; other site 355278002316 DNA binding site [nucleotide binding] 355278002317 sequence specific DNA binding site [nucleotide binding]; other site 355278002318 putative cAMP binding site [chemical binding]; other site 355278002319 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 355278002320 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 355278002321 putative active site pocket [active] 355278002322 4-fold oligomerization interface [polypeptide binding]; other site 355278002323 metal binding residues [ion binding]; metal-binding site 355278002324 3-fold/trimer interface [polypeptide binding]; other site 355278002325 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK14004 355278002326 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 355278002327 putative active site [active] 355278002328 oxyanion strand; other site 355278002329 catalytic triad [active] 355278002330 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 355278002331 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 355278002332 catalytic residues [active] 355278002333 Vitamin K epoxide reductase family in bacteria; Region: VKOR_3; cd12920 355278002334 putative active site [active] 355278002335 redox center [active] 355278002336 Thioredoxin; Region: Thioredoxin_4; pfam13462 355278002337 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355278002338 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 355278002339 NeuB family; Region: NeuB; pfam03102 355278002340 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 355278002341 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 355278002342 G1 box; other site 355278002343 GTP/Mg2+ binding site [chemical binding]; other site 355278002344 Switch I region; other site 355278002345 G2 box; other site 355278002346 G3 box; other site 355278002347 Switch II region; other site 355278002348 G4 box; other site 355278002349 G5 box; other site 355278002350 Nucleoside recognition; Region: Gate; pfam07670 355278002351 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 355278002352 Nucleoside recognition; Region: Gate; pfam07670 355278002353 FeoA domain; Region: FeoA; pfam04023 355278002354 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 355278002355 ABC1 family; Region: ABC1; cl17513 355278002356 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 355278002357 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 355278002358 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 355278002359 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 355278002360 putative active site [active] 355278002361 catalytic triad [active] 355278002362 putative dimer interface [polypeptide binding]; other site 355278002363 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 355278002364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278002365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278002366 Repair protein; Region: Repair_PSII; pfam04536 355278002367 glycyl-tRNA synthetase; Provisional; Region: PRK04173 355278002368 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 355278002369 motif 1; other site 355278002370 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 355278002371 active site 355278002372 motif 2; other site 355278002373 motif 3; other site 355278002374 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 355278002375 anticodon binding site; other site 355278002376 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278002377 Protease prsW family; Region: PrsW-protease; pfam13367 355278002378 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 355278002379 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 355278002380 putative dimer interface [polypeptide binding]; other site 355278002381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278002382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278002383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278002384 WHG domain; Region: WHG; pfam13305 355278002385 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 355278002386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278002387 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 355278002388 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 355278002389 FAD binding pocket [chemical binding]; other site 355278002390 FAD binding motif [chemical binding]; other site 355278002391 phosphate binding motif [ion binding]; other site 355278002392 beta-alpha-beta structure motif; other site 355278002393 NAD binding pocket [chemical binding]; other site 355278002394 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 355278002395 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 355278002396 catalytic loop [active] 355278002397 iron binding site [ion binding]; other site 355278002398 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 355278002399 PAS domain; Region: PAS_9; pfam13426 355278002400 putative active site [active] 355278002401 heme pocket [chemical binding]; other site 355278002402 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278002403 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 355278002404 putative active site [active] 355278002405 heme pocket [chemical binding]; other site 355278002406 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 355278002407 dimer interface [polypeptide binding]; other site 355278002408 phosphorylation site [posttranslational modification] 355278002409 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002410 ATP binding site [chemical binding]; other site 355278002411 Mg2+ binding site [ion binding]; other site 355278002412 G-X-G motif; other site 355278002413 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002415 active site 355278002416 phosphorylation site [posttranslational modification] 355278002417 intermolecular recognition site; other site 355278002418 dimerization interface [polypeptide binding]; other site 355278002419 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 355278002420 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 355278002421 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 355278002422 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278002423 anti sigma factor interaction site; other site 355278002424 regulatory phosphorylation site [posttranslational modification]; other site 355278002425 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278002426 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278002427 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 355278002428 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 355278002429 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 355278002430 protein binding site [polypeptide binding]; other site 355278002431 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 355278002432 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 355278002433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002434 homodimer interface [polypeptide binding]; other site 355278002435 catalytic residue [active] 355278002436 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 355278002437 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 355278002438 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 355278002439 dimerization interface [polypeptide binding]; other site 355278002440 putative ATP binding site [chemical binding]; other site 355278002441 PAS fold; Region: PAS_3; pfam08447 355278002442 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 355278002443 PAS domain; Region: PAS_9; pfam13426 355278002444 putative active site [active] 355278002445 heme pocket [chemical binding]; other site 355278002446 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 355278002447 dimer interface [polypeptide binding]; other site 355278002448 phosphorylation site [posttranslational modification] 355278002449 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002450 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002451 ATP binding site [chemical binding]; other site 355278002452 Mg2+ binding site [ion binding]; other site 355278002453 G-X-G motif; other site 355278002454 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278002455 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002456 active site 355278002457 phosphorylation site [posttranslational modification] 355278002458 intermolecular recognition site; other site 355278002459 dimerization interface [polypeptide binding]; other site 355278002460 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002462 active site 355278002463 phosphorylation site [posttranslational modification] 355278002464 intermolecular recognition site; other site 355278002465 dimerization interface [polypeptide binding]; other site 355278002466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 355278002467 active site 355278002468 phosphorylation site [posttranslational modification] 355278002469 intermolecular recognition site; other site 355278002470 dimerization interface [polypeptide binding]; other site 355278002471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002472 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002473 ATP binding site [chemical binding]; other site 355278002474 Mg2+ binding site [ion binding]; other site 355278002475 G-X-G motif; other site 355278002476 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355278002477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002478 active site 355278002479 phosphorylation site [posttranslational modification] 355278002480 intermolecular recognition site; other site 355278002481 dimerization interface [polypeptide binding]; other site 355278002482 CheB methylesterase; Region: CheB_methylest; pfam01339 355278002483 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 355278002484 putative binding surface; other site 355278002485 active site 355278002486 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 355278002487 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 355278002488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002489 ATP binding site [chemical binding]; other site 355278002490 Mg2+ binding site [ion binding]; other site 355278002491 G-X-G motif; other site 355278002492 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 355278002493 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 355278002494 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 355278002495 HAMP domain; Region: HAMP; pfam00672 355278002496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278002497 dimer interface [polypeptide binding]; other site 355278002498 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278002499 putative CheW interface [polypeptide binding]; other site 355278002500 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278002501 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 355278002502 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 355278002503 substrate binding site [chemical binding]; other site 355278002504 oxyanion hole (OAH) forming residues; other site 355278002505 trimer interface [polypeptide binding]; other site 355278002506 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 355278002507 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 355278002508 homodimer interface [polypeptide binding]; other site 355278002509 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 355278002510 active site pocket [active] 355278002511 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002512 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002513 active site 355278002514 phosphorylation site [posttranslational modification] 355278002515 intermolecular recognition site; other site 355278002516 dimerization interface [polypeptide binding]; other site 355278002517 HEAT repeats; Region: HEAT_2; pfam13646 355278002518 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 355278002519 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 355278002520 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 355278002521 Walker A/P-loop; other site 355278002522 ATP binding site [chemical binding]; other site 355278002523 Q-loop/lid; other site 355278002524 ABC transporter signature motif; other site 355278002525 Walker B; other site 355278002526 D-loop; other site 355278002527 H-loop/switch region; other site 355278002528 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 355278002529 putative carbohydrate binding site [chemical binding]; other site 355278002530 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 355278002531 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 355278002532 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 355278002533 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 355278002534 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 355278002535 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 355278002536 TPR repeat; Region: TPR_11; pfam13414 355278002537 binding surface 355278002538 TPR motif; other site 355278002539 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 355278002540 metal binding site [ion binding]; metal-binding site 355278002541 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 355278002542 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278002543 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 355278002544 Uncharacterized conserved protein [Function unknown]; Region: COG4121 355278002545 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12724 355278002546 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 355278002547 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 355278002548 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 355278002549 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 355278002550 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278002551 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 355278002552 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 355278002553 DNA binding residues [nucleotide binding] 355278002554 hypothetical protein; Provisional; Region: PRK04323 355278002555 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 355278002556 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 355278002557 catalytic site [active] 355278002558 G-X2-G-X-G-K; other site 355278002559 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 355278002560 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 355278002561 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002563 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 355278002564 dimer interface [polypeptide binding]; other site 355278002565 phosphorylation site [posttranslational modification] 355278002566 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002567 ATP binding site [chemical binding]; other site 355278002568 Mg2+ binding site [ion binding]; other site 355278002569 G-X-G motif; other site 355278002570 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002572 active site 355278002573 phosphorylation site [posttranslational modification] 355278002574 intermolecular recognition site; other site 355278002575 dimerization interface [polypeptide binding]; other site 355278002576 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278002577 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278002578 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 355278002579 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 355278002580 Walker A motif; other site 355278002581 ATP binding site [chemical binding]; other site 355278002582 Walker B motif; other site 355278002583 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 355278002584 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 355278002585 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 355278002586 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 355278002587 hinge; other site 355278002588 active site 355278002589 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 355278002590 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 355278002591 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 355278002592 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278002593 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278002594 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278002595 ligand binding site [chemical binding]; other site 355278002596 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 355278002597 active site 355278002598 catalytic triad [active] 355278002599 oxyanion hole [active] 355278002600 switch loop; other site 355278002601 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 355278002602 Clp protease; Region: CLP_protease; pfam00574 355278002603 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 355278002604 oligomer interface [polypeptide binding]; other site 355278002605 active site residues [active] 355278002606 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 355278002607 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 355278002608 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278002609 Walker A motif; other site 355278002610 ATP binding site [chemical binding]; other site 355278002611 Walker B motif; other site 355278002612 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 355278002613 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 355278002614 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 355278002615 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 355278002616 PAS domain S-box; Region: sensory_box; TIGR00229 355278002617 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002618 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 355278002619 dimer interface [polypeptide binding]; other site 355278002620 phosphorylation site [posttranslational modification] 355278002621 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002622 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002623 active site 355278002624 phosphorylation site [posttranslational modification] 355278002625 intermolecular recognition site; other site 355278002626 dimerization interface [polypeptide binding]; other site 355278002627 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278002628 PGAP1-like protein; Region: PGAP1; pfam07819 355278002629 Protein of unknown function (DUF461); Region: DUF461; pfam04314 355278002630 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 355278002631 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 355278002632 Cu(I) binding site [ion binding]; other site 355278002633 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 355278002634 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 355278002635 active site 355278002636 Zn binding site [ion binding]; other site 355278002637 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 355278002638 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278002639 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 355278002640 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 355278002641 FecR protein; Region: FecR; pfam04773 355278002642 Outer membrane efflux protein; Region: OEP; pfam02321 355278002643 Bacterial Ig-like domain; Region: Big_5; pfam13205 355278002644 Bacterial Ig-like domain; Region: Big_5; pfam13205 355278002645 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278002646 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 355278002647 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278002648 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278002649 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278002650 cyclase homology domain; Region: CHD; cd07302 355278002651 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278002652 nucleotidyl binding site; other site 355278002653 metal binding site [ion binding]; metal-binding site 355278002654 dimer interface [polypeptide binding]; other site 355278002655 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 355278002656 Uncharacterized conserved protein [Function unknown]; Region: COG3589 355278002657 O-Antigen ligase; Region: Wzy_C; pfam04932 355278002658 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278002659 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 355278002660 putative ADP-binding pocket [chemical binding]; other site 355278002661 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 355278002662 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 355278002663 putative active site [active] 355278002664 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 355278002665 NRDE protein; Region: NRDE; cl01315 355278002666 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 355278002667 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 355278002668 dimer interface [polypeptide binding]; other site 355278002669 active site 355278002670 glycine-pyridoxal phosphate binding site [chemical binding]; other site 355278002671 folate binding site [chemical binding]; other site 355278002672 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 355278002673 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 355278002674 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 355278002675 glycosyltransferase; Provisional; Region: PRK13481 355278002676 Transglycosylase; Region: Transgly; pfam00912 355278002677 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 355278002678 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278002679 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278002680 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 355278002681 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355278002682 tandem repeat interface [polypeptide binding]; other site 355278002683 oligomer interface [polypeptide binding]; other site 355278002684 active site residues [active] 355278002685 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 355278002686 active site 355278002687 catalytic residues [active] 355278002688 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 355278002689 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 355278002690 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 355278002691 endonuclease III; Region: ENDO3c; smart00478 355278002692 minor groove reading motif; other site 355278002693 helix-hairpin-helix signature motif; other site 355278002694 substrate binding pocket [chemical binding]; other site 355278002695 active site 355278002696 prenyltransferase; Reviewed; Region: ubiA; PRK12886 355278002697 UbiA prenyltransferase family; Region: UbiA; pfam01040 355278002698 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 355278002699 Flavoprotein; Region: Flavoprotein; pfam02441 355278002700 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 355278002701 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 355278002702 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 355278002703 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 355278002704 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 355278002705 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 355278002706 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 355278002707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002708 homodimer interface [polypeptide binding]; other site 355278002709 catalytic residue [active] 355278002710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 355278002711 transcription termination factor Rho; Provisional; Region: rho; PRK09376 355278002712 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 355278002713 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 355278002714 RNA binding site [nucleotide binding]; other site 355278002715 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 355278002716 multimer interface [polypeptide binding]; other site 355278002717 Walker A motif; other site 355278002718 ATP binding site [chemical binding]; other site 355278002719 Walker B motif; other site 355278002720 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 355278002721 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 355278002722 active site 355278002723 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 355278002724 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 355278002725 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 355278002726 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 355278002727 anti sigma factor interaction site; other site 355278002728 regulatory phosphorylation site [posttranslational modification]; other site 355278002729 Protein of unknown function (DUF342); Region: DUF342; pfam03961 355278002730 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 355278002731 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355278002732 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 355278002733 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 355278002734 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 355278002735 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278002736 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002737 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278002738 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278002739 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 355278002740 dimer interface [polypeptide binding]; other site 355278002741 Citrate synthase; Region: Citrate_synt; pfam00285 355278002742 active site 355278002743 citrylCoA binding site [chemical binding]; other site 355278002744 NADH binding [chemical binding]; other site 355278002745 cationic pore residues; other site 355278002746 oxalacetate/citrate binding site [chemical binding]; other site 355278002747 coenzyme A binding site [chemical binding]; other site 355278002748 catalytic triad [active] 355278002749 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 355278002750 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 355278002751 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355278002752 catalytic residue [active] 355278002753 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278002754 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 355278002755 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278002756 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 355278002757 inhibitor-cofactor binding pocket; inhibition site 355278002758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278002759 catalytic residue [active] 355278002760 TRL-like protein family; Region: TRL; pfam13146 355278002761 TRL-like protein family; Region: TRL; pfam13146 355278002762 TRL-like protein family; Region: TRL; pfam13146 355278002763 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 355278002764 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 355278002765 TPP-binding site [chemical binding]; other site 355278002766 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 355278002767 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 355278002768 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278002769 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278002770 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278002771 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 355278002772 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 355278002773 E3 interaction surface; other site 355278002774 lipoyl attachment site [posttranslational modification]; other site 355278002775 e3 binding domain; Region: E3_binding; pfam02817 355278002776 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 355278002777 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 355278002778 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 355278002779 trimer interface [polypeptide binding]; other site 355278002780 putative metal binding site [ion binding]; other site 355278002781 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278002782 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278002783 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278002784 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278002785 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278002786 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278002787 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 355278002788 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 355278002789 Multicopper oxidase; Region: Cu-oxidase; pfam00394 355278002790 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 355278002791 Cytochrome c; Region: Cytochrom_C; pfam00034 355278002792 Uncharacterized conserved protein [Function unknown]; Region: COG1262 355278002793 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 355278002794 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 355278002795 Cu(I) binding site [ion binding]; other site 355278002796 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278002797 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278002798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278002799 NAD(P) binding site [chemical binding]; other site 355278002800 active site 355278002801 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002803 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 355278002804 dimer interface [polypeptide binding]; other site 355278002805 phosphorylation site [posttranslational modification] 355278002806 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002807 ATP binding site [chemical binding]; other site 355278002808 Mg2+ binding site [ion binding]; other site 355278002809 G-X-G motif; other site 355278002810 Response regulator receiver domain; Region: Response_reg; pfam00072 355278002811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002812 active site 355278002813 phosphorylation site [posttranslational modification] 355278002814 intermolecular recognition site; other site 355278002815 dimerization interface [polypeptide binding]; other site 355278002816 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 355278002817 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278002818 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 355278002819 OmpA family; Region: OmpA; pfam00691 355278002820 ligand binding site [chemical binding]; other site 355278002821 malate:quinone oxidoreductase; Validated; Region: PRK05257 355278002822 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 355278002823 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 355278002824 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278002825 putative active site [active] 355278002826 putative metal binding site [ion binding]; other site 355278002827 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278002828 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278002829 dimer interface [polypeptide binding]; other site 355278002830 putative CheW interface [polypeptide binding]; other site 355278002831 PAS domain; Region: PAS_9; pfam13426 355278002832 PAS domain S-box; Region: sensory_box; TIGR00229 355278002833 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 355278002834 putative active site [active] 355278002835 heme pocket [chemical binding]; other site 355278002836 PAS fold; Region: PAS_4; pfam08448 355278002837 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278002838 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 355278002839 dimer interface [polypeptide binding]; other site 355278002840 phosphorylation site [posttranslational modification] 355278002841 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002842 ATP binding site [chemical binding]; other site 355278002843 Mg2+ binding site [ion binding]; other site 355278002844 G-X-G motif; other site 355278002845 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278002846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278002847 active site 355278002848 phosphorylation site [posttranslational modification] 355278002849 intermolecular recognition site; other site 355278002850 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278002851 cyclase homology domain; Region: CHD; cd07302 355278002852 nucleotidyl binding site; other site 355278002853 metal binding site [ion binding]; metal-binding site 355278002854 dimer interface [polypeptide binding]; other site 355278002855 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278002856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278002857 metal binding site [ion binding]; metal-binding site 355278002858 active site 355278002859 I-site; other site 355278002860 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 355278002861 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278002862 dimer interface [polypeptide binding]; other site 355278002863 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278002864 putative CheW interface [polypeptide binding]; other site 355278002865 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278002866 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002867 Histidine kinase; Region: His_kinase; pfam06580 355278002868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 355278002869 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 355278002870 dimerization interface [polypeptide binding]; other site 355278002871 LytTr DNA-binding domain; Region: LytTR; smart00850 355278002872 Predicted membrane protein [Function unknown]; Region: COG4270 355278002873 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 355278002874 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 355278002875 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 355278002876 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 355278002877 putative hydrophobic ligand binding site [chemical binding]; other site 355278002878 Putative Ig domain; Region: He_PIG; pfam05345 355278002879 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 355278002880 putative active site [active] 355278002881 putative metal binding site [ion binding]; other site 355278002882 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 355278002883 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278002884 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278002885 Repair protein; Region: Repair_PSII; pfam04536 355278002886 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 355278002887 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 355278002888 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 355278002889 active site 355278002890 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 355278002891 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 355278002892 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 355278002893 active site 355278002894 catalytic residues [active] 355278002895 metal binding site [ion binding]; metal-binding site 355278002896 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 355278002897 Na binding site [ion binding]; other site 355278002898 FOG: CBS domain [General function prediction only]; Region: COG0517 355278002899 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 355278002900 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278002901 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278002902 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 355278002903 acyl-activating enzyme (AAE) consensus motif; other site 355278002904 acyl-activating enzyme (AAE) consensus motif; other site 355278002905 putative AMP binding site [chemical binding]; other site 355278002906 putative active site [active] 355278002907 putative CoA binding site [chemical binding]; other site 355278002908 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278002909 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278002910 active site 355278002911 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 355278002912 PAS fold; Region: PAS_3; pfam08447 355278002913 putative active site [active] 355278002914 heme pocket [chemical binding]; other site 355278002915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278002916 Histidine kinase; Region: HisKA_2; pfam07568 355278002917 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278002918 ATP binding site [chemical binding]; other site 355278002919 Mg2+ binding site [ion binding]; other site 355278002920 G-X-G motif; other site 355278002921 (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 355278002922 dimer interaction site [polypeptide binding]; other site 355278002923 substrate-binding tunnel; other site 355278002924 active site 355278002925 catalytic site [active] 355278002926 substrate binding site [chemical binding]; other site 355278002927 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 355278002928 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 355278002929 active site 355278002930 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 355278002931 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355278002932 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278002933 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 355278002934 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278002935 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278002936 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278002937 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278002938 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 355278002939 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 355278002940 S-adenosylmethionine binding site [chemical binding]; other site 355278002941 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 355278002942 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 355278002943 non-specific DNA binding site [nucleotide binding]; other site 355278002944 salt bridge; other site 355278002945 sequence-specific DNA binding site [nucleotide binding]; other site 355278002946 Cupin domain; Region: Cupin_2; pfam07883 355278002947 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 355278002948 putative SAM binding site [chemical binding]; other site 355278002949 homodimer interface [polypeptide binding]; other site 355278002950 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 355278002951 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 355278002952 motif II; other site 355278002953 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278002954 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278002955 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 355278002956 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 355278002957 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 355278002958 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 355278002959 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 355278002960 Competence protein; Region: Competence; pfam03772 355278002961 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 355278002962 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 355278002963 active site 355278002964 HIGH motif; other site 355278002965 dimer interface [polypeptide binding]; other site 355278002966 KMSKS motif; other site 355278002967 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 355278002968 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 355278002969 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 355278002970 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 355278002971 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 355278002972 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 355278002973 Ligand binding site [chemical binding]; other site 355278002974 Electron transfer flavoprotein domain; Region: ETF; pfam01012 355278002975 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278002976 cyclase homology domain; Region: CHD; cd07302 355278002977 nucleotidyl binding site; other site 355278002978 metal binding site [ion binding]; metal-binding site 355278002979 dimer interface [polypeptide binding]; other site 355278002980 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 355278002981 isovaleryl-CoA dehydrogenase; Provisional; Region: PTZ00461 355278002982 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278002983 active site 355278002984 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 355278002985 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278002986 homoserine kinase; Provisional; Region: PRK01212 355278002987 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 355278002988 Thioredoxin; Region: Thioredoxin_4; pfam13462 355278002989 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355278002990 malate dehydrogenase; Provisional; Region: PRK05442 355278002991 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 355278002992 NAD(P) binding site [chemical binding]; other site 355278002993 dimer interface [polypeptide binding]; other site 355278002994 malate binding site [chemical binding]; other site 355278002995 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 355278002996 MarR family; Region: MarR_2; pfam12802 355278002997 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 355278002998 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 355278002999 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 355278003000 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278003001 ligand binding site [chemical binding]; other site 355278003002 flexible hinge region; other site 355278003003 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278003004 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 355278003005 ligand binding site [chemical binding]; other site 355278003006 flexible hinge region; other site 355278003007 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 355278003008 binding surface 355278003009 TPR motif; other site 355278003010 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 355278003011 binding surface 355278003012 TPR motif; other site 355278003013 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 355278003014 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 355278003015 active site 355278003016 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278003017 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278003018 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278003019 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 355278003020 elongation factor G; Reviewed; Region: PRK12740 355278003021 G1 box; other site 355278003022 putative GEF interaction site [polypeptide binding]; other site 355278003023 GTP/Mg2+ binding site [chemical binding]; other site 355278003024 Switch I region; other site 355278003025 G2 box; other site 355278003026 G3 box; other site 355278003027 Switch II region; other site 355278003028 G4 box; other site 355278003029 G5 box; other site 355278003030 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 355278003031 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 355278003032 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 355278003033 Cation transport protein; Region: TrkH; cl17365 355278003034 Cation transport protein; Region: TrkH; cl17365 355278003035 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 355278003036 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 355278003037 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 355278003038 catalytic residues [active] 355278003039 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 355278003040 active site 355278003041 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 355278003042 HEAT repeats; Region: HEAT_2; pfam13646 355278003043 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355278003044 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355278003045 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 355278003046 dimer interface [polypeptide binding]; other site 355278003047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003048 catalytic residue [active] 355278003049 DNA topoisomerase I; Validated; Region: PRK05582 355278003050 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 355278003051 active site 355278003052 metal binding site [ion binding]; metal-binding site 355278003053 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 355278003054 domain I; other site 355278003055 DNA binding groove [nucleotide binding] 355278003056 phosphate binding site [ion binding]; other site 355278003057 domain II; other site 355278003058 domain III; other site 355278003059 nucleotide binding site [chemical binding]; other site 355278003060 catalytic site [active] 355278003061 domain IV; other site 355278003062 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 355278003063 Ferrochelatase; Region: Ferrochelatase; pfam00762 355278003064 C-terminal domain interface [polypeptide binding]; other site 355278003065 active site 355278003066 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 355278003067 active site 355278003068 N-terminal domain interface [polypeptide binding]; other site 355278003069 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 355278003070 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278003071 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 355278003072 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 355278003073 FeS/SAM binding site; other site 355278003074 HemN C-terminal domain; Region: HemN_C; pfam06969 355278003075 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 355278003076 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 355278003077 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 355278003078 inhibitor-cofactor binding pocket; inhibition site 355278003079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003080 catalytic residue [active] 355278003081 delta-aminolevulinic acid dehydratase; Validated; Region: PRK09283 355278003082 dimer interface [polypeptide binding]; other site 355278003083 active site 355278003084 Schiff base residues; other site 355278003085 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 355278003086 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 355278003087 domain interfaces; other site 355278003088 active site 355278003089 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 355278003090 NAD(P) binding pocket [chemical binding]; other site 355278003091 methionine sulfoxide reductase B; Provisional; Region: PRK00222 355278003092 SelR domain; Region: SelR; pfam01641 355278003093 Nuclease-related domain; Region: NERD; pfam08378 355278003094 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355278003095 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 355278003096 Walker A motif; other site 355278003097 ATP binding site [chemical binding]; other site 355278003098 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 355278003099 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 355278003100 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 355278003101 active site 355278003102 SAM binding site [chemical binding]; other site 355278003103 homodimer interface [polypeptide binding]; other site 355278003104 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 355278003105 Flavodoxin; Region: Flavodoxin_1; pfam00258 355278003106 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 355278003107 FAD binding pocket [chemical binding]; other site 355278003108 FAD binding motif [chemical binding]; other site 355278003109 catalytic residues [active] 355278003110 NAD binding pocket [chemical binding]; other site 355278003111 phosphate binding motif [ion binding]; other site 355278003112 beta-alpha-beta structure motif; other site 355278003113 sulfite reductase subunit beta; Provisional; Region: PRK13504 355278003114 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355278003115 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355278003116 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 355278003117 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 355278003118 CysD dimerization site [polypeptide binding]; other site 355278003119 G1 box; other site 355278003120 putative GEF interaction site [polypeptide binding]; other site 355278003121 GTP/Mg2+ binding site [chemical binding]; other site 355278003122 Switch I region; other site 355278003123 G2 box; other site 355278003124 G3 box; other site 355278003125 Switch II region; other site 355278003126 G4 box; other site 355278003127 G5 box; other site 355278003128 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 355278003129 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 355278003130 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 355278003131 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 355278003132 Active Sites [active] 355278003133 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 355278003134 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 355278003135 Active Sites [active] 355278003136 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 355278003137 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 355278003138 Walker A/P-loop; other site 355278003139 ATP binding site [chemical binding]; other site 355278003140 Q-loop/lid; other site 355278003141 ABC transporter signature motif; other site 355278003142 Walker B; other site 355278003143 D-loop; other site 355278003144 H-loop/switch region; other site 355278003145 TOBE-like domain; Region: TOBE_3; pfam12857 355278003146 sulfate transport protein; Provisional; Region: cysT; CHL00187 355278003147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 355278003148 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 355278003149 dimer interface [polypeptide binding]; other site 355278003150 conserved gate region; other site 355278003151 putative PBP binding loops; other site 355278003152 ABC-ATPase subunit interface; other site 355278003153 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 355278003154 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 355278003155 dimer interface [polypeptide binding]; other site 355278003156 conserved gate region; other site 355278003157 putative PBP binding loops; other site 355278003158 ABC-ATPase subunit interface; other site 355278003159 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 355278003160 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 355278003161 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 355278003162 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 355278003163 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 355278003164 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 355278003165 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 355278003166 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 355278003167 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 355278003168 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278003169 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278003170 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278003171 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278003172 Zn2+ binding site [ion binding]; other site 355278003173 Mg2+ binding site [ion binding]; other site 355278003174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278003175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003176 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 355278003177 NAD(P) binding site [chemical binding]; other site 355278003178 active site 355278003179 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 355278003180 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 355278003181 NAD(P) binding pocket [chemical binding]; other site 355278003182 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278003183 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 355278003184 anti sigma factor interaction site; other site 355278003185 regulatory phosphorylation site [posttranslational modification]; other site 355278003186 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 355278003187 active site 355278003188 ribulose/triose binding site [chemical binding]; other site 355278003189 phosphate binding site [ion binding]; other site 355278003190 substrate (anthranilate) binding pocket [chemical binding]; other site 355278003191 product (indole) binding pocket [chemical binding]; other site 355278003192 MASE1; Region: MASE1; cl17823 355278003193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278003194 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 355278003195 dimer interface [polypeptide binding]; other site 355278003196 phosphorylation site [posttranslational modification] 355278003197 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003198 ATP binding site [chemical binding]; other site 355278003199 Mg2+ binding site [ion binding]; other site 355278003200 G-X-G motif; other site 355278003201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278003202 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003203 ATP binding site [chemical binding]; other site 355278003204 Mg2+ binding site [ion binding]; other site 355278003205 G-X-G motif; other site 355278003206 Retropepsins; pepsin-like aspartate proteases; Region: retropepsin_like; cd00303 355278003207 inhibitor binding site; inhibition site 355278003208 catalytic motif [active] 355278003209 Catalytic residue [active] 355278003210 Active site flap [active] 355278003211 integron integrase; Region: integrase_gron; TIGR02249 355278003212 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 355278003213 active site 355278003214 DNA binding site [nucleotide binding] 355278003215 Int/Topo IB signature motif; other site 355278003216 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003217 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 355278003218 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003219 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 355278003220 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 355278003221 Cytochrome c; Region: Cytochrom_C; pfam00034 355278003222 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 355278003223 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 355278003224 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278003225 RibD C-terminal domain; Region: RibD_C; cl17279 355278003226 Transposase; Region: HTH_Tnp_1; pfam01527 355278003227 Winged helix-turn helix; Region: HTH_29; pfam13551 355278003228 HTH-like domain; Region: HTH_21; pfam13276 355278003229 Integrase core domain; Region: rve; pfam00665 355278003230 Integrase core domain; Region: rve_3; pfam13683 355278003231 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 355278003232 PAS domain; Region: PAS_9; pfam13426 355278003233 putative active site [active] 355278003234 heme pocket [chemical binding]; other site 355278003235 Histidine kinase; Region: HisKA_2; pfam07568 355278003236 PAS domain; Region: PAS; smart00091 355278003237 PAS fold; Region: PAS_3; pfam08447 355278003238 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 355278003239 heme pocket [chemical binding]; other site 355278003240 putative active site [active] 355278003241 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 355278003242 putative active site [active] 355278003243 heme pocket [chemical binding]; other site 355278003244 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278003245 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278003246 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278003247 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278003248 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278003249 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 355278003250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 355278003251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 355278003252 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 355278003253 dimerization interface [polypeptide binding]; other site 355278003254 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 355278003255 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 355278003256 substrate binding site [chemical binding]; other site 355278003257 ligand binding site [chemical binding]; other site 355278003258 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 355278003259 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 355278003260 hypothetical protein; Provisional; Region: PRK14812 355278003261 substrate binding site [chemical binding]; other site 355278003262 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278003263 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003264 dimer interface [polypeptide binding]; other site 355278003265 putative CheW interface [polypeptide binding]; other site 355278003266 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003267 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 355278003268 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003269 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003270 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 355278003271 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003272 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 355278003273 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003274 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003275 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278003276 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 355278003277 YCII-related domain; Region: YCII; cl00999 355278003278 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 355278003279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278003280 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 355278003281 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; cl17426 355278003282 NADP+ binding site [chemical binding]; other site 355278003283 RibD C-terminal domain; Region: RibD_C; cl17279 355278003284 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 355278003285 dimerization interface [polypeptide binding]; other site 355278003286 putative DNA binding site [nucleotide binding]; other site 355278003287 putative Zn2+ binding site [ion binding]; other site 355278003288 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355278003289 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355278003290 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 355278003291 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 355278003292 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 355278003293 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003294 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003295 dimer interface [polypeptide binding]; other site 355278003296 putative CheW interface [polypeptide binding]; other site 355278003297 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278003298 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278003299 active site 355278003300 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 355278003301 active site 355278003302 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 355278003303 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 355278003304 intersubunit interface [polypeptide binding]; other site 355278003305 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 355278003306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278003307 Walker A/P-loop; other site 355278003308 ATP binding site [chemical binding]; other site 355278003309 Q-loop/lid; other site 355278003310 ABC transporter signature motif; other site 355278003311 Walker B; other site 355278003312 D-loop; other site 355278003313 H-loop/switch region; other site 355278003314 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 355278003315 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 355278003316 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278003317 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 355278003318 S-adenosylmethionine binding site [chemical binding]; other site 355278003319 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 355278003320 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 355278003321 TMP-binding site; other site 355278003322 ATP-binding site [chemical binding]; other site 355278003323 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 355278003324 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 355278003325 B12 binding domain; Region: B12-binding; pfam02310 355278003326 B12 binding site [chemical binding]; other site 355278003327 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 355278003328 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 355278003329 FeS/SAM binding site; other site 355278003330 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278003331 inosine-5'-monophosphate dehydrogenase; Provisional; Region: PTZ00314 355278003332 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 355278003333 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 355278003334 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 355278003335 active site 355278003336 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 355278003337 RNA methyltransferase, RsmE family; Region: TIGR00046 355278003338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278003339 Bacterial Ig-like domain; Region: Big_5; pfam13205 355278003340 MG2 domain; Region: A2M_N; pfam01835 355278003341 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 355278003342 Alpha-2-macroglobulin family; Region: A2M; pfam00207 355278003343 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355278003344 Sulfatase; Region: Sulfatase; cl17466 355278003345 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 355278003346 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278003347 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 355278003348 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 355278003349 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278003350 ATP-grasp domain; Region: ATP-grasp_4; cl17255 355278003351 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 355278003352 IMP binding site; other site 355278003353 dimer interface [polypeptide binding]; other site 355278003354 interdomain contacts; other site 355278003355 partial ornithine binding site; other site 355278003356 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 355278003357 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 355278003358 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 355278003359 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 355278003360 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 355278003361 minor groove reading motif; other site 355278003362 helix-hairpin-helix signature motif; other site 355278003363 substrate binding pocket [chemical binding]; other site 355278003364 active site 355278003365 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 355278003366 HAMP domain; Region: HAMP; pfam00672 355278003367 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 355278003368 dimer interface [polypeptide binding]; other site 355278003369 phosphorylation site [posttranslational modification] 355278003370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278003371 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003372 ATP binding site [chemical binding]; other site 355278003373 Mg2+ binding site [ion binding]; other site 355278003374 G-X-G motif; other site 355278003375 Response regulator receiver domain; Region: Response_reg; pfam00072 355278003376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003377 active site 355278003378 phosphorylation site [posttranslational modification] 355278003379 intermolecular recognition site; other site 355278003380 dimerization interface [polypeptide binding]; other site 355278003381 Smr domain; Region: Smr; pfam01713 355278003382 (R)-citramalate synthase; Provisional; Region: PRK09389 355278003383 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 355278003384 active site 355278003385 catalytic residues [active] 355278003386 metal binding site [ion binding]; metal-binding site 355278003387 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 355278003388 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 355278003389 putative active site [active] 355278003390 catalytic residue [active] 355278003391 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 355278003392 recombination factor protein RarA; Reviewed; Region: PRK13342 355278003393 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278003394 Walker A motif; other site 355278003395 ATP binding site [chemical binding]; other site 355278003396 Walker B motif; other site 355278003397 arginine finger; other site 355278003398 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 355278003399 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 355278003400 NADH dehydrogenase subunit B; Provisional; Region: PRK14814 355278003401 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 355278003402 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 355278003403 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 355278003404 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 355278003405 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 355278003406 putative dimer interface [polypeptide binding]; other site 355278003407 [2Fe-2S] cluster binding site [ion binding]; other site 355278003408 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 355278003409 SLBB domain; Region: SLBB; pfam10531 355278003410 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 355278003411 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 355278003412 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 355278003413 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 355278003414 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 355278003415 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 355278003416 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 355278003417 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 355278003418 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 355278003419 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 355278003420 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 355278003421 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 355278003422 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 355278003423 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 355278003424 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 355278003425 Cupin domain; Region: Cupin_2; cl17218 355278003426 DHH family; Region: DHH; pfam01368 355278003427 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 355278003428 DHHA1 domain; Region: DHHA1; pfam02272 355278003429 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278003430 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278003431 inorganic pyrophosphatase; Provisional; Region: PRK00642 355278003432 dimer interface [polypeptide binding]; other site 355278003433 substrate binding site [chemical binding]; other site 355278003434 metal binding sites [ion binding]; metal-binding site 355278003435 Outer membrane efflux protein; Region: OEP; pfam02321 355278003436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278003437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 355278003438 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278003439 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 355278003440 LexA repressor; Validated; Region: PRK00215 355278003441 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 355278003442 Catalytic site [active] 355278003443 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 355278003444 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 355278003445 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 355278003446 protein binding site [polypeptide binding]; other site 355278003447 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 355278003448 Catalytic dyad [active] 355278003449 UGMP family protein; Validated; Region: PRK09604 355278003450 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 355278003451 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 355278003452 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 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 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 355278003457 glycerol kinase; Provisional; Region: glpK; PRK00047 355278003458 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 355278003459 N- and C-terminal domain interface [polypeptide binding]; other site 355278003460 active site 355278003461 MgATP binding site [chemical binding]; other site 355278003462 catalytic site [active] 355278003463 metal binding site [ion binding]; metal-binding site 355278003464 glycerol binding site [chemical binding]; other site 355278003465 homotetramer interface [polypeptide binding]; other site 355278003466 homodimer interface [polypeptide binding]; other site 355278003467 FBP binding site [chemical binding]; other site 355278003468 protein IIAGlc interface [polypeptide binding]; other site 355278003469 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 355278003470 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 355278003471 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 355278003472 active site 355278003473 NAD binding site [chemical binding]; other site 355278003474 metal binding site [ion binding]; metal-binding site 355278003475 seryl-tRNA synthetase; Provisional; Region: PRK05431 355278003476 Predicted methyltransferases [General function prediction only]; Region: COG0313 355278003477 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 355278003478 putative SAM binding site [chemical binding]; other site 355278003479 putative homodimer interface [polypeptide binding]; other site 355278003480 NAD synthetase; Provisional; Region: PRK13981 355278003481 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 355278003482 multimer interface [polypeptide binding]; other site 355278003483 active site 355278003484 catalytic triad [active] 355278003485 protein interface 1 [polypeptide binding]; other site 355278003486 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 355278003487 Ligand Binding Site [chemical binding]; other site 355278003488 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 355278003489 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 355278003490 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 355278003491 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278003492 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 355278003493 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355278003494 catalytic residue [active] 355278003495 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 355278003496 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 355278003497 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278003498 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278003499 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278003500 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278003501 metal binding site [ion binding]; metal-binding site 355278003502 active site 355278003503 I-site; other site 355278003504 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 355278003505 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 355278003506 Ligand Binding Site [chemical binding]; other site 355278003507 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 355278003508 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 355278003509 active site 355278003510 substrate binding site [chemical binding]; other site 355278003511 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 355278003512 FMN binding site [chemical binding]; other site 355278003513 putative catalytic residues [active] 355278003514 PilZ domain; Region: PilZ; pfam07238 355278003515 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 355278003516 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278003517 active site 355278003518 DNA methylase; Region: N6_N4_Mtase; cl17433 355278003519 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278003520 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 355278003521 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278003522 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355278003523 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 355278003524 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278003525 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355278003526 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278003527 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 355278003528 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 355278003529 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 355278003530 active site 355278003531 metal binding site [ion binding]; metal-binding site 355278003532 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 355278003533 CoenzymeA binding site [chemical binding]; other site 355278003534 subunit interaction site [polypeptide binding]; other site 355278003535 PHB binding site; other site 355278003536 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 355278003537 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278003538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278003539 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278003540 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 355278003541 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 355278003542 dimer interface [polypeptide binding]; other site 355278003543 decamer (pentamer of dimers) interface [polypeptide binding]; other site 355278003544 catalytic triad [active] 355278003545 peroxidatic and resolving cysteines [active] 355278003546 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 355278003547 FeS assembly protein SufB; Region: sufB; TIGR01980 355278003548 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 355278003549 Sulfatase; Region: Sulfatase; pfam00884 355278003550 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 355278003551 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 355278003552 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14465 355278003553 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 355278003554 FeS/SAM binding site; other site 355278003555 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278003556 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 355278003557 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 355278003558 heme-binding residues [chemical binding]; other site 355278003559 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 355278003560 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 355278003561 molybdopterin cofactor binding site; other site 355278003562 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 355278003563 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 355278003564 4Fe-4S binding domain; Region: Fer4; cl02805 355278003565 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 355278003566 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 355278003567 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 355278003568 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 355278003569 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278003570 MarR family; Region: MarR_2; pfam12802 355278003571 cyclase homology domain; Region: CHD; cd07302 355278003572 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278003573 nucleotidyl binding site; other site 355278003574 metal binding site [ion binding]; metal-binding site 355278003575 dimer interface [polypeptide binding]; other site 355278003576 AAA domain; Region: AAA_11; pfam13086 355278003577 Part of AAA domain; Region: AAA_19; pfam13245 355278003578 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 355278003579 AAA domain; Region: AAA_12; pfam13087 355278003580 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 355278003581 binding surface 355278003582 TPR motif; other site 355278003583 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278003584 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 355278003585 binding surface 355278003586 TPR motif; other site 355278003587 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 355278003588 enoyl-CoA hydratase; Provisional; Region: PRK06142 355278003589 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 355278003590 substrate binding site [chemical binding]; other site 355278003591 oxyanion hole (OAH) forming residues; other site 355278003592 trimer interface [polypeptide binding]; other site 355278003593 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 355278003594 DoxX; Region: DoxX; pfam07681 355278003595 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278003596 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278003597 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 355278003598 active site 355278003599 NTP binding site [chemical binding]; other site 355278003600 metal binding triad [ion binding]; metal-binding site 355278003601 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 355278003602 thiamine monophosphate kinase; Provisional; Region: PRK05731 355278003603 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 355278003604 ATP binding site [chemical binding]; other site 355278003605 dimerization interface [polypeptide binding]; other site 355278003606 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 355278003607 23S rRNA interface [nucleotide binding]; other site 355278003608 L3 interface [polypeptide binding]; other site 355278003609 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 355278003610 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 355278003611 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 355278003612 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 355278003613 motif 1; other site 355278003614 active site 355278003615 motif 2; other site 355278003616 motif 3; other site 355278003617 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 355278003618 DHHA1 domain; Region: DHHA1; pfam02272 355278003619 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 355278003620 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 355278003621 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 355278003622 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 355278003623 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 355278003624 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 355278003625 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 355278003626 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 355278003627 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 355278003628 non-specific DNA binding site [nucleotide binding]; other site 355278003629 salt bridge; other site 355278003630 sequence-specific DNA binding site [nucleotide binding]; other site 355278003631 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 355278003632 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 355278003633 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355278003634 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 355278003635 FeS/SAM binding site; other site 355278003636 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 355278003637 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 355278003638 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 355278003639 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 355278003640 Preprotein translocase subunit; Region: YajC; pfam02699 355278003641 protein-export membrane protein SecD; Region: secD; TIGR01129 355278003642 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 355278003643 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 355278003644 Protein export membrane protein; Region: SecD_SecF; cl14618 355278003645 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 355278003646 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 355278003647 catalytic motif [active] 355278003648 Zn binding site [ion binding]; other site 355278003649 RibD C-terminal domain; Region: RibD_C; cl17279 355278003650 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 355278003651 Lumazine binding domain; Region: Lum_binding; pfam00677 355278003652 Lumazine binding domain; Region: Lum_binding; pfam00677 355278003653 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 355278003654 anti sigma factor interaction site; other site 355278003655 regulatory phosphorylation site [posttranslational modification]; other site 355278003656 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 355278003657 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 355278003658 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 355278003659 dimerization interface [polypeptide binding]; other site 355278003660 active site 355278003661 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 355278003662 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 355278003663 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 355278003664 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 355278003665 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 355278003666 aspartate aminotransferase; Provisional; Region: PRK05764 355278003667 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 355278003668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003669 homodimer interface [polypeptide binding]; other site 355278003670 catalytic residue [active] 355278003671 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 355278003672 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 355278003673 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 355278003674 SmpB-tmRNA interface; other site 355278003675 GTP-binding protein Der; Reviewed; Region: PRK00093 355278003676 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 355278003677 G1 box; other site 355278003678 GTP/Mg2+ binding site [chemical binding]; other site 355278003679 G2 box; other site 355278003680 Switch I region; other site 355278003681 G3 box; other site 355278003682 Switch II region; other site 355278003683 G4 box; other site 355278003684 G5 box; other site 355278003685 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 355278003686 G1 box; other site 355278003687 GTP/Mg2+ binding site [chemical binding]; other site 355278003688 Switch I region; other site 355278003689 G2 box; other site 355278003690 G3 box; other site 355278003691 Switch II region; other site 355278003692 G4 box; other site 355278003693 G5 box; other site 355278003694 membrane protein; Provisional; Region: PRK14409 355278003695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 355278003696 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 355278003697 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 355278003698 Walker A/P-loop; other site 355278003699 ATP binding site [chemical binding]; other site 355278003700 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 355278003701 ABC transporter signature motif; other site 355278003702 Walker B; other site 355278003703 D-loop; other site 355278003704 H-loop/switch region; other site 355278003705 glutamine synthetase, type I; Region: GlnA; TIGR00653 355278003706 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 355278003707 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 355278003708 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278003709 GAF domain; Region: GAF; pfam01590 355278003710 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278003711 Protein of unknown function (DUF328); Region: DUF328; cl01143 355278003712 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355278003713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003714 active site 355278003715 phosphorylation site [posttranslational modification] 355278003716 intermolecular recognition site; other site 355278003717 dimerization interface [polypeptide binding]; other site 355278003718 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 355278003719 DNA binding site [nucleotide binding] 355278003720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278003721 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 355278003722 dimer interface [polypeptide binding]; other site 355278003723 phosphorylation site [posttranslational modification] 355278003724 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003725 ATP binding site [chemical binding]; other site 355278003726 Mg2+ binding site [ion binding]; other site 355278003727 G-X-G motif; other site 355278003728 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 355278003729 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 355278003730 putative active site; other site 355278003731 catalytic residue [active] 355278003732 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 355278003733 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 355278003734 Protein of unknown function (DUF962); Region: DUF962; cl01879 355278003735 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 355278003736 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 355278003737 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 355278003738 LysM domain; Region: LysM; pfam01476 355278003739 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278003740 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278003741 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278003742 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278003743 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 355278003744 Transglycosylase; Region: Transgly; pfam00912 355278003745 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 355278003746 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 355278003747 diaminopimelate decarboxylase; Provisional; Region: PRK11165 355278003748 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 355278003749 active site 355278003750 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355278003751 substrate binding site [chemical binding]; other site 355278003752 catalytic residues [active] 355278003753 dimer interface [polypeptide binding]; other site 355278003754 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 355278003755 substrate binding site; other site 355278003756 dimer interface; other site 355278003757 PilZ domain; Region: PilZ; pfam07238 355278003758 PilZ domain; Region: PilZ; pfam07238 355278003759 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278003760 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 355278003761 ligand binding site [chemical binding]; other site 355278003762 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 355278003763 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278003764 ligand binding site [chemical binding]; other site 355278003765 flexible hinge region; other site 355278003766 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 355278003767 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278003768 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278003769 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 355278003770 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278003771 Family description; Region: VCBS; pfam13517 355278003772 FG-GAP repeat; Region: FG-GAP; pfam01839 355278003773 Family description; Region: VCBS; pfam13517 355278003774 Family description; Region: VCBS; pfam13517 355278003775 FG-GAP repeat; Region: FG-GAP; cl15299 355278003776 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 355278003777 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 355278003778 Sporulation related domain; Region: SPOR; pfam05036 355278003779 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 355278003780 dephospho-CoA kinase; Region: TIGR00152 355278003781 CoA-binding site [chemical binding]; other site 355278003782 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278003783 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 355278003784 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 355278003785 DNA-binding site [nucleotide binding]; DNA binding site 355278003786 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 355278003787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003788 homodimer interface [polypeptide binding]; other site 355278003789 catalytic residue [active] 355278003790 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 355278003791 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 355278003792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278003793 homodimer interface [polypeptide binding]; other site 355278003794 catalytic residue [active] 355278003795 FecR protein; Region: FecR; pfam04773 355278003796 lipoyl synthase; Provisional; Region: PRK05481 355278003797 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 355278003798 FeS/SAM binding site; other site 355278003799 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 355278003800 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 355278003801 RNA binding surface [nucleotide binding]; other site 355278003802 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 355278003803 active site 355278003804 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278003805 HPP family; Region: HPP; pfam04982 355278003806 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 355278003807 active site 355278003808 intersubunit interactions; other site 355278003809 catalytic residue [active] 355278003810 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 355278003811 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 355278003812 purine monophosphate binding site [chemical binding]; other site 355278003813 dimer interface [polypeptide binding]; other site 355278003814 putative catalytic residues [active] 355278003815 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 355278003816 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 355278003817 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 355278003818 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 355278003819 active site 355278003820 substrate binding site [chemical binding]; other site 355278003821 cosubstrate binding site; other site 355278003822 catalytic site [active] 355278003823 Flagellar protein FliS; Region: FliS; cl00654 355278003824 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 355278003825 HSP70 interaction site [polypeptide binding]; other site 355278003826 DctM-like transporters; Region: DctM; pfam06808 355278003827 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 355278003828 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 355278003829 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 355278003830 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 355278003831 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 355278003832 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 355278003833 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 355278003834 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278003835 Zn2+ binding site [ion binding]; other site 355278003836 Mg2+ binding site [ion binding]; other site 355278003837 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 355278003838 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278003839 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 355278003840 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278003841 N-terminal domain interface [polypeptide binding]; other site 355278003842 dimer interface [polypeptide binding]; other site 355278003843 substrate binding pocket (H-site) [chemical binding]; other site 355278003844 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355278003845 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 355278003846 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 355278003847 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 355278003848 dimer interface [polypeptide binding]; other site 355278003849 phosphorylation site [posttranslational modification] 355278003850 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003851 ATP binding site [chemical binding]; other site 355278003852 Mg2+ binding site [ion binding]; other site 355278003853 G-X-G motif; other site 355278003854 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 355278003855 PAS domain S-box; Region: sensory_box; TIGR00229 355278003856 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 355278003857 putative active site [active] 355278003858 heme pocket [chemical binding]; other site 355278003859 PAS domain; Region: PAS_9; pfam13426 355278003860 PAS fold; Region: PAS_4; pfam08448 355278003861 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 355278003862 dimer interface [polypeptide binding]; other site 355278003863 phosphorylation site [posttranslational modification] 355278003864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278003865 ATP binding site [chemical binding]; other site 355278003866 Mg2+ binding site [ion binding]; other site 355278003867 G-X-G motif; other site 355278003868 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278003869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278003870 active site 355278003871 phosphorylation site [posttranslational modification] 355278003872 intermolecular recognition site; other site 355278003873 dimerization interface [polypeptide binding]; other site 355278003874 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 355278003875 dimerization interface [polypeptide binding]; other site 355278003876 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278003877 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003878 dimer interface [polypeptide binding]; other site 355278003879 putative CheW interface [polypeptide binding]; other site 355278003880 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278003881 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 355278003882 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278003883 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 355278003884 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 355278003885 Active site serine [active] 355278003886 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 355278003887 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278003888 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 355278003889 dimer interface [polypeptide binding]; other site 355278003890 substrate binding site [chemical binding]; other site 355278003891 metal binding site [ion binding]; metal-binding site 355278003892 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 355278003893 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 355278003894 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 355278003895 nucleotide binding site/active site [active] 355278003896 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 355278003897 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 355278003898 nucleotide binding site [chemical binding]; other site 355278003899 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278003900 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 355278003901 Walker A/P-loop; other site 355278003902 ATP binding site [chemical binding]; other site 355278003903 Q-loop/lid; other site 355278003904 ABC transporter signature motif; other site 355278003905 Walker B; other site 355278003906 D-loop; other site 355278003907 H-loop/switch region; other site 355278003908 Restriction endonuclease; Region: Mrr_cat; pfam04471 355278003909 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 355278003910 RuvA N terminal domain; Region: RuvA_N; pfam01330 355278003911 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278003912 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 355278003913 ligand binding site [chemical binding]; other site 355278003914 flexible hinge region; other site 355278003915 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278003916 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 355278003917 nucleophile elbow; other site 355278003918 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278003919 NlpC/P60 family; Region: NLPC_P60; pfam00877 355278003920 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278003921 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 355278003922 active site 355278003923 nucleophile elbow; other site 355278003924 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 355278003925 Peptidase family M48; Region: Peptidase_M48; cl12018 355278003926 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 355278003927 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278003928 cyclase homology domain; Region: CHD; cd07302 355278003929 nucleotidyl binding site; other site 355278003930 metal binding site [ion binding]; metal-binding site 355278003931 dimer interface [polypeptide binding]; other site 355278003932 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278003933 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 355278003934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278003935 dimer interface [polypeptide binding]; other site 355278003936 putative CheW interface [polypeptide binding]; other site 355278003937 Surface antigen; Region: Bac_surface_Ag; pfam01103 355278003938 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 355278003939 HIT family signature motif; other site 355278003940 catalytic residue [active] 355278003941 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 355278003942 Transcriptional regulators [Transcription]; Region: MarR; COG1846 355278003943 MarR family; Region: MarR_2; pfam12802 355278003944 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 355278003945 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 355278003946 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 355278003947 putative substrate binding site [chemical binding]; other site 355278003948 putative ATP binding site [chemical binding]; other site 355278003949 hypothetical protein; Provisional; Region: PRK14635 355278003950 ribosome maturation protein RimP; Reviewed; Region: PRK00092 355278003951 heptamer interface [polypeptide binding]; other site 355278003952 Sm1 motif; other site 355278003953 hexamer interface [polypeptide binding]; other site 355278003954 RNA binding site [nucleotide binding]; other site 355278003955 Sm2 motif; other site 355278003956 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 355278003957 NusA N-terminal domain; Region: NusA_N; pfam08529 355278003958 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 355278003959 RNA binding site [nucleotide binding]; other site 355278003960 homodimer interface [polypeptide binding]; other site 355278003961 NusA-like KH domain; Region: KH_5; pfam13184 355278003962 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 355278003963 G-X-X-G motif; other site 355278003964 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 355278003965 translation initiation factor IF-2; Region: IF-2; TIGR00487 355278003966 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 355278003967 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 355278003968 G1 box; other site 355278003969 putative GEF interaction site [polypeptide binding]; other site 355278003970 GTP/Mg2+ binding site [chemical binding]; other site 355278003971 Switch I region; other site 355278003972 G2 box; other site 355278003973 G3 box; other site 355278003974 Switch II region; other site 355278003975 G4 box; other site 355278003976 G5 box; other site 355278003977 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 355278003978 Translation-initiation factor 2; Region: IF-2; pfam11987 355278003979 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 355278003980 Ribosome-binding factor A; Region: RBFA; pfam02033 355278003981 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 355278003982 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 355278003983 active site 355278003984 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 355278003985 16S/18S rRNA binding site [nucleotide binding]; other site 355278003986 S13e-L30e interaction site [polypeptide binding]; other site 355278003987 25S rRNA binding site [nucleotide binding]; other site 355278003988 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 355278003989 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 355278003990 RNase E interface [polypeptide binding]; other site 355278003991 trimer interface [polypeptide binding]; other site 355278003992 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 355278003993 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 355278003994 RNase E interface [polypeptide binding]; other site 355278003995 trimer interface [polypeptide binding]; other site 355278003996 active site 355278003997 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 355278003998 putative nucleic acid binding region [nucleotide binding]; other site 355278003999 G-X-X-G motif; other site 355278004000 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 355278004001 RNA binding site [nucleotide binding]; other site 355278004002 domain interface; other site 355278004003 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 355278004004 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355278004005 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355278004006 Bacteriophage T4-like capsid assembly protein (Gp20); Region: Phage_T4_Gp20; pfam07230 355278004007 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 355278004008 trimer interface [polypeptide binding]; other site 355278004009 active site 355278004010 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12816 355278004011 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 355278004012 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 355278004013 Flagellar L-ring protein; Region: FlgH; cl17277 355278004014 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 355278004015 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 355278004016 Rod binding protein; Region: Rod-binding; pfam10135 355278004017 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 355278004018 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 355278004019 Methyltransferase domain; Region: Methyltransf_23; pfam13489 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 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 355278004023 S-adenosylmethionine binding site [chemical binding]; other site 355278004024 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 355278004025 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 355278004026 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 355278004027 RNA recognition motif; Region: RRM; smart00360 355278004028 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 355278004029 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 355278004030 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 355278004031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278004032 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278004033 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 355278004034 putative NAD(P) binding site [chemical binding]; other site 355278004035 short chain dehydrogenase; Provisional; Region: PRK06179 355278004036 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 355278004037 NADP binding site [chemical binding]; other site 355278004038 active site 355278004039 steroid binding site; other site 355278004040 Predicted transcriptional regulators [Transcription]; Region: COG1733 355278004041 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 355278004042 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355278004043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278004044 NAD(P) binding site [chemical binding]; other site 355278004045 active site 355278004046 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 355278004047 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 355278004048 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 355278004049 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 355278004050 PAS domain S-box; Region: sensory_box; TIGR00229 355278004051 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 355278004052 putative active site [active] 355278004053 heme pocket [chemical binding]; other site 355278004054 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 355278004055 putative active site [active] 355278004056 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278004057 heme pocket [chemical binding]; other site 355278004058 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 355278004059 dimer interface [polypeptide binding]; other site 355278004060 phosphorylation site [posttranslational modification] 355278004061 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278004062 ATP binding site [chemical binding]; other site 355278004063 Mg2+ binding site [ion binding]; other site 355278004064 G-X-G motif; other site 355278004065 Response regulator receiver domain; Region: Response_reg; pfam00072 355278004066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004067 active site 355278004068 phosphorylation site [posttranslational modification] 355278004069 intermolecular recognition site; other site 355278004070 dimerization interface [polypeptide binding]; other site 355278004071 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 355278004072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004073 active site 355278004074 phosphorylation site [posttranslational modification] 355278004075 intermolecular recognition site; other site 355278004076 dimerization interface [polypeptide binding]; other site 355278004077 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278004078 Zn2+ binding site [ion binding]; other site 355278004079 Mg2+ binding site [ion binding]; other site 355278004080 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 355278004081 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 355278004082 intersubunit interface [polypeptide binding]; other site 355278004083 active site 355278004084 Zn2+ binding site [ion binding]; other site 355278004085 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278004086 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 355278004087 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 355278004088 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 355278004089 FliG C-terminal domain; Region: FliG_C; pfam01706 355278004090 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 355278004091 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 355278004092 E3 interaction surface; other site 355278004093 lipoyl attachment site [posttranslational modification]; other site 355278004094 e3 binding domain; Region: E3_binding; pfam02817 355278004095 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 355278004096 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 355278004097 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 355278004098 alpha subunit interface [polypeptide binding]; other site 355278004099 TPP binding site [chemical binding]; other site 355278004100 heterodimer interface [polypeptide binding]; other site 355278004101 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355278004102 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 355278004103 AMP binding site [chemical binding]; other site 355278004104 metal binding site [ion binding]; metal-binding site 355278004105 active site 355278004106 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 355278004107 Yqey-like protein; Region: YqeY; pfam09424 355278004108 CHC2 zinc finger; Region: zf-CHC2; cl17510 355278004109 DNA primase; Validated; Region: dnaG; PRK05667 355278004110 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 355278004111 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 355278004112 active site 355278004113 metal binding site [ion binding]; metal-binding site 355278004114 interdomain interaction site; other site 355278004115 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 355278004116 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 355278004117 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 355278004118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278004119 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 355278004120 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 355278004121 DNA binding residues [nucleotide binding] 355278004122 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 355278004123 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 355278004124 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 355278004125 active site 355278004126 HIGH motif; other site 355278004127 dimer interface [polypeptide binding]; other site 355278004128 KMSKS motif; other site 355278004129 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 355278004130 RNA binding surface [nucleotide binding]; other site 355278004131 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 355278004132 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 355278004133 NodB motif; other site 355278004134 active site 355278004135 catalytic site [active] 355278004136 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278004137 Protein export membrane protein; Region: SecD_SecF; cl14618 355278004138 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 355278004139 active site 355278004140 catalytic residues [active] 355278004141 metal binding site [ion binding]; metal-binding site 355278004142 GAF domain; Region: GAF_3; pfam13492 355278004143 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278004144 GAF domain; Region: GAF; pfam01590 355278004145 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278004146 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278004147 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278004148 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278004149 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 355278004150 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278004151 anti sigma factor interaction site; other site 355278004152 regulatory phosphorylation site [posttranslational modification]; other site 355278004153 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 355278004154 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 355278004155 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 355278004156 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355278004157 ATP-grasp domain; Region: ATP-grasp_4; cl17255 355278004158 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 355278004159 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 355278004160 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 355278004161 carboxyltransferase (CT) interaction site; other site 355278004162 biotinylation site [posttranslational modification]; other site 355278004163 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355278004164 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004165 active site 355278004166 phosphorylation site [posttranslational modification] 355278004167 intermolecular recognition site; other site 355278004168 dimerization interface [polypeptide binding]; other site 355278004169 CheB methylesterase; Region: CheB_methylest; pfam01339 355278004170 CheD chemotactic sensory transduction; Region: CheD; cl00810 355278004171 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 355278004172 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278004173 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 355278004174 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278004175 putative active site [active] 355278004176 heme pocket [chemical binding]; other site 355278004177 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 355278004178 putative active site [active] 355278004179 heme pocket [chemical binding]; other site 355278004180 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278004181 dimer interface [polypeptide binding]; other site 355278004182 putative CheW interface [polypeptide binding]; other site 355278004183 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 355278004184 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 355278004185 putative binding surface; other site 355278004186 active site 355278004187 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 355278004188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278004189 ATP binding site [chemical binding]; other site 355278004190 Mg2+ binding site [ion binding]; other site 355278004191 G-X-G motif; other site 355278004192 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 355278004193 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 355278004194 anti sigma factor interaction site; other site 355278004195 regulatory phosphorylation site [posttranslational modification]; other site 355278004196 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 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 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278004203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004204 active site 355278004205 phosphorylation site [posttranslational modification] 355278004206 intermolecular recognition site; other site 355278004207 dimerization interface [polypeptide binding]; other site 355278004208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278004209 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 355278004210 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278004211 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 355278004212 dimer interface [polypeptide binding]; other site 355278004213 phosphorylation site [posttranslational modification] 355278004214 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278004215 ATP binding site [chemical binding]; other site 355278004216 Mg2+ binding site [ion binding]; other site 355278004217 G-X-G motif; other site 355278004218 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 355278004219 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 355278004220 flagellin; Provisional; Region: PRK12804 355278004221 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278004222 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355278004223 threonine dehydratase; Validated; Region: PRK08639 355278004224 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 355278004225 tetramer interface [polypeptide binding]; other site 355278004226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004227 catalytic residue [active] 355278004228 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278004229 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278004230 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 355278004231 S-adenosylmethionine binding site [chemical binding]; other site 355278004232 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 355278004233 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 355278004234 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 355278004235 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 355278004236 homodimer interface [polypeptide binding]; other site 355278004237 substrate-cofactor binding pocket; other site 355278004238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004239 catalytic residue [active] 355278004240 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 355278004241 RNA methyltransferase, RsmE family; Region: TIGR00046 355278004242 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 355278004243 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355278004244 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004245 Walker A motif; other site 355278004246 ATP binding site [chemical binding]; other site 355278004247 Walker B motif; other site 355278004248 arginine finger; other site 355278004249 flagellar motor switch protein FliN; Region: fliN; TIGR02480 355278004250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278004251 Coenzyme A binding pocket [chemical binding]; other site 355278004252 RNHCP domain; Region: RNHCP; pfam12647 355278004253 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 355278004254 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 355278004255 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 355278004256 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 355278004257 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 355278004258 Haem-binding domain; Region: Haem_bd; pfam14376 355278004259 argininosuccinate lyase; Provisional; Region: PRK00855 355278004260 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 355278004261 active sites [active] 355278004262 tetramer interface [polypeptide binding]; other site 355278004263 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 355278004264 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 355278004265 active site 355278004266 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 355278004267 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 355278004268 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 355278004269 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 355278004270 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 355278004271 Uncharacterized conserved protein [Function unknown]; Region: COG4095 355278004272 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 355278004273 GMP synthase; Reviewed; Region: guaA; PRK00074 355278004274 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 355278004275 AMP/PPi binding site [chemical binding]; other site 355278004276 candidate oxyanion hole; other site 355278004277 catalytic triad [active] 355278004278 potential glutamine specificity residues [chemical binding]; other site 355278004279 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 355278004280 Ligand Binding Site [chemical binding]; other site 355278004281 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 355278004282 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 355278004283 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 355278004284 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 355278004285 putative metal binding site; other site 355278004286 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 355278004287 dimer interface [polypeptide binding]; other site 355278004288 active site 355278004289 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 355278004290 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 355278004291 Walker A/P-loop; other site 355278004292 ATP binding site [chemical binding]; other site 355278004293 Q-loop/lid; other site 355278004294 ABC transporter signature motif; other site 355278004295 Walker B; other site 355278004296 D-loop; other site 355278004297 H-loop/switch region; other site 355278004298 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 355278004299 phosphopeptide binding site; other site 355278004300 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 355278004301 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 355278004302 substrate binding site [chemical binding]; other site 355278004303 ligand binding site [chemical binding]; other site 355278004304 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 355278004305 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 355278004306 substrate binding site [chemical binding]; other site 355278004307 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 355278004308 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 355278004309 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355278004310 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 355278004311 dimer interface [polypeptide binding]; other site 355278004312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004313 catalytic residue [active] 355278004314 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278004315 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 355278004316 ligand binding site [chemical binding]; other site 355278004317 flexible hinge region; other site 355278004318 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278004319 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278004320 nucleophile elbow; other site 355278004321 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 355278004322 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 355278004323 Walker A/P-loop; other site 355278004324 ATP binding site [chemical binding]; other site 355278004325 Q-loop/lid; other site 355278004326 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 355278004327 Q-loop/lid; other site 355278004328 ABC transporter signature motif; other site 355278004329 Walker B; other site 355278004330 D-loop; other site 355278004331 H-loop/switch region; other site 355278004332 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 355278004333 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 355278004334 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 355278004335 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 355278004336 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 355278004337 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 355278004338 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 355278004339 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 355278004340 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 355278004341 Surface antigen; Region: Bac_surface_Ag; pfam01103 355278004342 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 355278004343 Part of AAA domain; Region: AAA_19; pfam13245 355278004344 Family description; Region: UvrD_C_2; pfam13538 355278004345 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 355278004346 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 355278004347 active site 355278004348 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 355278004349 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278004350 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 355278004351 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 355278004352 catalytic residues [active] 355278004353 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278004354 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 355278004355 acyl-activating enzyme (AAE) consensus motif; other site 355278004356 putative AMP binding site [chemical binding]; other site 355278004357 putative active site [active] 355278004358 putative CoA binding site [chemical binding]; other site 355278004359 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 355278004360 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 355278004361 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 355278004362 putative ribose interaction site [chemical binding]; other site 355278004363 putative ADP binding site [chemical binding]; other site 355278004364 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 355278004365 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 355278004366 active site 355278004367 nucleotide binding site [chemical binding]; other site 355278004368 HIGH motif; other site 355278004369 KMSKS motif; other site 355278004370 CTP synthetase; Validated; Region: pyrG; PRK05380 355278004371 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 355278004372 Catalytic site [active] 355278004373 active site 355278004374 UTP binding site [chemical binding]; other site 355278004375 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 355278004376 active site 355278004377 putative oxyanion hole; other site 355278004378 catalytic triad [active] 355278004379 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 355278004380 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 355278004381 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 355278004382 OstA-like protein; Region: OstA; cl00844 355278004383 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 355278004384 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 355278004385 Walker A/P-loop; other site 355278004386 ATP binding site [chemical binding]; other site 355278004387 Q-loop/lid; other site 355278004388 ABC transporter signature motif; other site 355278004389 Walker B; other site 355278004390 D-loop; other site 355278004391 H-loop/switch region; other site 355278004392 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 355278004393 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 355278004394 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 355278004395 HPr kinase/phosphorylase; Provisional; Region: PRK05428 355278004396 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 355278004397 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 355278004398 Hpr binding site; other site 355278004399 active site 355278004400 homohexamer subunit interaction site [polypeptide binding]; other site 355278004401 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 355278004402 regulatory protein interface [polypeptide binding]; other site 355278004403 active site 355278004404 regulatory phosphorylation site [posttranslational modification]; other site 355278004405 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 355278004406 dimerization interface [polypeptide binding]; other site 355278004407 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 355278004408 dimer interface [polypeptide binding]; other site 355278004409 phosphorylation site [posttranslational modification] 355278004410 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278004411 ATP binding site [chemical binding]; other site 355278004412 Mg2+ binding site [ion binding]; other site 355278004413 G-X-G motif; other site 355278004414 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 355278004415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004416 active site 355278004417 phosphorylation site [posttranslational modification] 355278004418 intermolecular recognition site; other site 355278004419 dimerization interface [polypeptide binding]; other site 355278004420 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004421 Walker A motif; other site 355278004422 ATP binding site [chemical binding]; other site 355278004423 Walker B motif; other site 355278004424 arginine finger; other site 355278004425 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 355278004426 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 355278004427 primosome assembly protein PriA; Validated; Region: PRK05580 355278004428 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 355278004429 ATP binding site [chemical binding]; other site 355278004430 putative Mg++ binding site [ion binding]; other site 355278004431 helicase superfamily c-terminal domain; Region: HELICc; smart00490 355278004432 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 355278004433 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 355278004434 putative active site [active] 355278004435 substrate binding site [chemical binding]; other site 355278004436 putative cosubstrate binding site; other site 355278004437 catalytic site [active] 355278004438 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 355278004439 substrate binding site [chemical binding]; other site 355278004440 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 355278004441 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 355278004442 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 355278004443 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 355278004444 substrate binding site [chemical binding]; other site 355278004445 hexamer interface [polypeptide binding]; other site 355278004446 metal binding site [ion binding]; metal-binding site 355278004447 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 355278004448 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 355278004449 hypothetical protein; Provisional; Region: PRK00468 355278004450 G-X-X-G motif; other site 355278004451 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14590 355278004452 RimM N-terminal domain; Region: RimM; pfam01782 355278004453 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Provisional; Region: trmD; PRK14599 355278004454 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 355278004455 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 355278004456 RNA/DNA hybrid binding site [nucleotide binding]; other site 355278004457 active site 355278004458 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 355278004459 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278004460 Zn2+ binding site [ion binding]; other site 355278004461 Mg2+ binding site [ion binding]; other site 355278004462 hypothetical protein; Reviewed; Region: PRK12497 355278004463 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 355278004464 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 355278004465 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 355278004466 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 355278004467 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 355278004468 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278004469 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278004470 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278004471 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 355278004472 type II secretion system protein D; Region: type_II_gspD; TIGR02517 355278004473 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 355278004474 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 355278004475 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 355278004476 type II secretion system protein E; Region: type_II_gspE; TIGR02533 355278004477 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 355278004478 Walker A motif; other site 355278004479 ATP binding site [chemical binding]; other site 355278004480 Walker B motif; other site 355278004481 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 355278004482 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 355278004483 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 355278004484 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355278004485 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 355278004486 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355278004487 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 355278004488 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355278004489 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 355278004490 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 355278004491 Cell division protein FtsA; Region: FtsA; pfam14450 355278004492 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 355278004493 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 355278004494 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 355278004495 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355278004496 Transcriptional regulator; Region: Transcrip_reg; cl00361 355278004497 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 355278004498 active site 355278004499 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355278004500 TSCPD domain; Region: TSCPD; pfam12637 355278004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 355278004502 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 355278004503 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 355278004504 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278004505 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 355278004506 Sulfate transporter family; Region: Sulfate_transp; pfam00916 355278004507 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 355278004508 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 355278004509 active site clefts [active] 355278004510 zinc binding site [ion binding]; other site 355278004511 dimer interface [polypeptide binding]; other site 355278004512 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 355278004513 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 355278004514 putative Iron-sulfur protein interface [polypeptide binding]; other site 355278004515 proximal heme binding site [chemical binding]; other site 355278004516 distal heme binding site [chemical binding]; other site 355278004517 putative dimer interface [polypeptide binding]; other site 355278004518 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 355278004519 L-aspartate oxidase; Provisional; Region: PRK06175 355278004520 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355278004521 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 355278004522 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 355278004523 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 355278004524 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 355278004525 active site 355278004526 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 355278004527 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 355278004528 GTP-binding protein LepA; Provisional; Region: PRK05433 355278004529 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 355278004530 G1 box; other site 355278004531 putative GEF interaction site [polypeptide binding]; other site 355278004532 GTP/Mg2+ binding site [chemical binding]; other site 355278004533 Switch I region; other site 355278004534 G2 box; other site 355278004535 G3 box; other site 355278004536 Switch II region; other site 355278004537 G4 box; other site 355278004538 G5 box; other site 355278004539 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 355278004540 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 355278004541 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 355278004542 enolase; Provisional; Region: eno; PRK00077 355278004543 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 355278004544 dimer interface [polypeptide binding]; other site 355278004545 metal binding site [ion binding]; metal-binding site 355278004546 substrate binding pocket [chemical binding]; other site 355278004547 Septum formation initiator; Region: DivIC; cl17659 355278004548 Clp protease; Region: CLP_protease; pfam00574 355278004549 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 355278004550 oligomer interface [polypeptide binding]; other site 355278004551 active site residues [active] 355278004552 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 355278004553 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 355278004554 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 355278004555 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 355278004556 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 355278004557 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 355278004558 anti sigma factor interaction site; other site 355278004559 regulatory phosphorylation site [posttranslational modification]; other site 355278004560 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 355278004561 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 355278004562 non-specific DNA binding site [nucleotide binding]; other site 355278004563 salt bridge; other site 355278004564 sequence-specific DNA binding site [nucleotide binding]; other site 355278004565 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 355278004566 non-specific DNA binding site [nucleotide binding]; other site 355278004567 salt bridge; other site 355278004568 sequence-specific DNA binding site [nucleotide binding]; other site 355278004569 Aquifex aeolicus LeuT and related proteins; solute binding domain; Region: LeuT-like_sbd; cd10333 355278004570 Na2 binding site [ion binding]; other site 355278004571 substrate binding site 1 [chemical binding]; other site 355278004572 Na binding site 1 [ion binding]; other site 355278004573 substrate binding site 2 [chemical binding]; other site 355278004574 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 355278004575 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 355278004576 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 355278004577 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 355278004578 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 355278004579 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 355278004580 Dimer interface [polypeptide binding]; other site 355278004581 anticodon binding site; other site 355278004582 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 355278004583 homodimer interface [polypeptide binding]; other site 355278004584 motif 1; other site 355278004585 motif 2; other site 355278004586 active site 355278004587 motif 3; other site 355278004588 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14177 355278004589 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 355278004590 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 355278004591 homodimer interface [polypeptide binding]; other site 355278004592 NADP binding site [chemical binding]; other site 355278004593 substrate binding site [chemical binding]; other site 355278004594 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 355278004595 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278004596 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 355278004597 active site 355278004598 HIGH motif; other site 355278004599 nucleotide binding site [chemical binding]; other site 355278004600 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278004601 active site 355278004602 KMSKS motif; other site 355278004603 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 355278004604 tRNA binding surface [nucleotide binding]; other site 355278004605 anticodon binding site; other site 355278004606 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 355278004607 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 355278004608 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 355278004609 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 355278004610 PGAP1-like protein; Region: PGAP1; pfam07819 355278004611 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 355278004612 Na binding site [ion binding]; other site 355278004613 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 355278004614 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 355278004615 substrate binding site [chemical binding]; other site 355278004616 glutamase interaction surface [polypeptide binding]; other site 355278004617 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 355278004618 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 355278004619 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 355278004620 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 355278004621 Bacterial sugar transferase; Region: Bac_transf; pfam02397 355278004622 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 355278004623 Response regulator receiver domain; Region: Response_reg; pfam00072 355278004624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278004625 active site 355278004626 phosphorylation site [posttranslational modification] 355278004627 intermolecular recognition site; other site 355278004628 dimerization interface [polypeptide binding]; other site 355278004629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278004630 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 355278004631 dimer interface [polypeptide binding]; other site 355278004632 phosphorylation site [posttranslational modification] 355278004633 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 355278004634 Part of AAA domain; Region: AAA_19; pfam13245 355278004635 Family description; Region: UvrD_C_2; pfam13538 355278004636 MORN repeat; Region: MORN; cl14787 355278004637 Peptidase family M48; Region: Peptidase_M48; pfam01435 355278004638 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 355278004639 PAS domain; Region: PAS_9; pfam13426 355278004640 putative active site [active] 355278004641 heme pocket [chemical binding]; other site 355278004642 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278004643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278004644 metal binding site [ion binding]; metal-binding site 355278004645 active site 355278004646 I-site; other site 355278004647 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 355278004648 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 355278004649 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278004650 anti sigma factor interaction site; other site 355278004651 regulatory phosphorylation site [posttranslational modification]; other site 355278004652 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 355278004653 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278004654 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 355278004655 dimerization interface [polypeptide binding]; other site 355278004656 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278004657 Protease prsW family; Region: PrsW-protease; pfam13367 355278004658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 355278004659 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004660 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355278004661 Walker A motif; other site 355278004662 ATP binding site [chemical binding]; other site 355278004663 Walker B motif; other site 355278004664 arginine finger; other site 355278004665 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278004666 active site 355278004667 catalytic triad [active] 355278004668 dimer interface [polypeptide binding]; other site 355278004669 lipoprotein signal peptidase; Provisional; Region: PRK14783 355278004670 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 355278004671 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 355278004672 active site 355278004673 ATP binding site [chemical binding]; other site 355278004674 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355278004675 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 355278004676 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 355278004677 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 355278004678 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355278004679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278004680 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278004681 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 355278004682 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 355278004683 ATP-grasp domain; Region: ATP-grasp; pfam02222 355278004684 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 355278004685 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355278004686 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278004687 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278004688 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 355278004689 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 355278004690 homodimer interface [polypeptide binding]; other site 355278004691 active site 355278004692 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355278004693 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 355278004694 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 355278004695 Mg++ binding site [ion binding]; other site 355278004696 putative catalytic motif [active] 355278004697 putative substrate binding site [chemical binding]; other site 355278004698 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 355278004699 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355278004700 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355278004701 MraW methylase family; Region: Methyltransf_5; cl17771 355278004702 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 355278004703 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 355278004704 nucleotide binding site/active site [active] 355278004705 HIT family signature motif; other site 355278004706 catalytic residue [active] 355278004707 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 355278004708 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 355278004709 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 355278004710 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 355278004711 ammonium transporter; Region: amt; TIGR00836 355278004712 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278004713 GAF domain; Region: GAF; pfam01590 355278004714 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278004715 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 355278004716 binding surface 355278004717 TPR motif; other site 355278004718 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278004719 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 355278004720 binding surface 355278004721 TPR motif; other site 355278004722 TPR repeat; Region: TPR_11; pfam13414 355278004723 Putative Fe-S cluster; Region: FeS; cl17515 355278004724 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 355278004725 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 355278004726 G1 box; other site 355278004727 putative GEF interaction site [polypeptide binding]; other site 355278004728 GTP/Mg2+ binding site [chemical binding]; other site 355278004729 Switch I region; other site 355278004730 G2 box; other site 355278004731 G3 box; other site 355278004732 Switch II region; other site 355278004733 G4 box; other site 355278004734 G5 box; other site 355278004735 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 355278004736 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 355278004737 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 355278004738 Protein of unknown function (DUF464); Region: DUF464; pfam04327 355278004739 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 355278004740 GTPase CgtA; Reviewed; Region: obgE; PRK12299 355278004741 GTP1/OBG; Region: GTP1_OBG; pfam01018 355278004742 Obg GTPase; Region: Obg; cd01898 355278004743 G1 box; other site 355278004744 GTP/Mg2+ binding site [chemical binding]; other site 355278004745 Switch I region; other site 355278004746 G2 box; other site 355278004747 G3 box; other site 355278004748 Switch II region; other site 355278004749 G4 box; other site 355278004750 G5 box; other site 355278004751 gamma-glutamyl kinase; Provisional; Region: PRK05429 355278004752 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 355278004753 nucleotide binding site [chemical binding]; other site 355278004754 homotetrameric interface [polypeptide binding]; other site 355278004755 putative phosphate binding site [ion binding]; other site 355278004756 putative allosteric binding site; other site 355278004757 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 355278004758 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 355278004759 putative catalytic cysteine [active] 355278004760 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 355278004761 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 355278004762 active site 355278004763 (T/H)XGH motif; other site 355278004764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278004765 Zn2+ binding site [ion binding]; other site 355278004766 Mg2+ binding site [ion binding]; other site 355278004767 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 355278004768 Oligomerisation domain; Region: Oligomerisation; pfam02410 355278004769 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 355278004770 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 355278004771 catalytic residues [active] 355278004772 Outer membrane efflux protein; Region: OEP; pfam02321 355278004773 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 355278004774 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 355278004775 metal binding site [ion binding]; metal-binding site 355278004776 dimer interface [polypeptide binding]; other site 355278004777 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355278004778 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 355278004779 substrate binding site [chemical binding]; other site 355278004780 oxyanion hole (OAH) forming residues; other site 355278004781 trimer interface [polypeptide binding]; other site 355278004782 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278004783 MarR family; Region: MarR_2; pfam12802 355278004784 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 355278004785 proline aminopeptidase P II; Provisional; Region: PRK10879 355278004786 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 355278004787 active site 355278004788 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 355278004789 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 355278004790 putative active site [active] 355278004791 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 355278004792 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 355278004793 active site 355278004794 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 355278004795 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 355278004796 heme binding site [chemical binding]; other site 355278004797 ferroxidase pore; other site 355278004798 ferroxidase diiron center [ion binding]; other site 355278004799 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 355278004800 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 355278004801 acetylglutamate kinase; Provisional; Region: PRK04531 355278004802 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 355278004803 nucleotide binding site [chemical binding]; other site 355278004804 substrate binding site [chemical binding]; other site 355278004805 DUF619 domain of various N-acetylglutamate Kinases and N-acetylglutamate Synthases; Region: DUF619-like; cl14605 355278004806 Protein of unknown function, DUF393; Region: DUF393; cl01136 355278004807 Domain of Unknown Function with PDB structure (DUF3865); Region: DUF3865; pfam12981 355278004808 ATP-grasp domain; Region: ATP-grasp_4; cl17255 355278004809 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 355278004810 Radical SAM superfamily; Region: Radical_SAM; pfam04055 355278004811 FeS/SAM binding site; other site 355278004812 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 355278004813 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 355278004814 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 355278004815 motif II; other site 355278004816 Sporulation and spore germination; Region: Germane; pfam10646 355278004817 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278004818 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278004819 metal binding site [ion binding]; metal-binding site 355278004820 active site 355278004821 I-site; other site 355278004822 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 355278004823 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 355278004824 FeS/SAM binding site; other site 355278004825 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 355278004826 Cysteine-rich domain; Region: CCG; pfam02754 355278004827 Cysteine-rich domain; Region: CCG; pfam02754 355278004828 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278004829 FecR protein; Region: FecR; pfam04773 355278004830 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278004831 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278004832 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 355278004833 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 355278004834 G1 box; other site 355278004835 putative GEF interaction site [polypeptide binding]; other site 355278004836 GTP/Mg2+ binding site [chemical binding]; other site 355278004837 Switch I region; other site 355278004838 G2 box; other site 355278004839 G3 box; other site 355278004840 Switch II region; other site 355278004841 G4 box; other site 355278004842 G5 box; other site 355278004843 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 355278004844 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 355278004845 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278004846 binding surface 355278004847 TPR motif; other site 355278004848 NHL repeat; Region: NHL; pfam01436 355278004849 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 355278004850 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 355278004851 binding surface 355278004852 TPR motif; other site 355278004853 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 355278004854 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278004855 TPR motif; other site 355278004856 binding surface 355278004857 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278004858 hydrophobic ligand binding site; other site 355278004859 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 355278004860 active site 355278004861 dimer interfaces [polypeptide binding]; other site 355278004862 catalytic residues [active] 355278004863 chromosome segregation protein; Provisional; Region: PRK02224 355278004864 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355278004865 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 355278004866 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355278004867 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 355278004868 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14332 355278004869 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355278004870 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 355278004871 FeS/SAM binding site; other site 355278004872 TRAM domain; Region: TRAM; cl01282 355278004873 DnaJ domain; Region: DnaJ; pfam00226 355278004874 HSP70 interaction site [polypeptide binding]; other site 355278004875 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278004876 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278004877 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 355278004878 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 355278004879 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 355278004880 putative RNA binding site [nucleotide binding]; other site 355278004881 Methyltransferase domain; Region: Methyltransf_26; pfam13659 355278004882 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278004883 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278004884 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 355278004885 TPR motif; other site 355278004886 binding surface 355278004887 Bacitracin resistance protein BacA; Region: BacA; pfam02673 355278004888 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 355278004889 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 355278004890 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 355278004891 ATP binding site [chemical binding]; other site 355278004892 putative Mg++ binding site [ion binding]; other site 355278004893 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 355278004894 nucleotide binding region [chemical binding]; other site 355278004895 ATP-binding site [chemical binding]; other site 355278004896 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 355278004897 pantoate--beta-alanine ligase; Region: panC; TIGR00018 355278004898 Pantoate-beta-alanine ligase; Region: PanC; cd00560 355278004899 active site 355278004900 ATP-binding site [chemical binding]; other site 355278004901 pantoate-binding site; other site 355278004902 HXXH motif; other site 355278004903 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 355278004904 histidinol dehydrogenase; Region: hisD; TIGR00069 355278004905 NAD binding site [chemical binding]; other site 355278004906 dimerization interface [polypeptide binding]; other site 355278004907 product binding site; other site 355278004908 substrate binding site [chemical binding]; other site 355278004909 zinc binding site [ion binding]; other site 355278004910 catalytic residues [active] 355278004911 FecR protein; Region: FecR; pfam04773 355278004912 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 355278004913 dimerization interface [polypeptide binding]; other site 355278004914 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278004915 cyclase homology domain; Region: CHD; cd07302 355278004916 nucleotidyl binding site; other site 355278004917 metal binding site [ion binding]; metal-binding site 355278004918 dimer interface [polypeptide binding]; other site 355278004919 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 355278004920 putative catalytic site [active] 355278004921 putative metal binding site [ion binding]; other site 355278004922 putative phosphate binding site [ion binding]; other site 355278004923 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 355278004924 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 355278004925 MgtE intracellular N domain; Region: MgtE_N; pfam03448 355278004926 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 355278004927 Divalent cation transporter; Region: MgtE; pfam01769 355278004928 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278004929 ligand binding site [chemical binding]; other site 355278004930 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 355278004931 Acyl-CoA dehydrogenase, middle domain; Region: Acyl-CoA_dh_M; pfam02770 355278004932 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 355278004933 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 355278004934 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 355278004935 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 355278004936 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 355278004937 active site 355278004938 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355278004939 tandem repeat interface [polypeptide binding]; other site 355278004940 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 355278004941 oligomer interface [polypeptide binding]; other site 355278004942 active site residues [active] 355278004943 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 355278004944 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 355278004945 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 355278004946 active site 355278004947 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 355278004948 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 355278004949 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 355278004950 active site 355278004951 catalytic site [active] 355278004952 2-isopropylmalate synthase; Validated; Region: PRK00915 355278004953 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 355278004954 active site 355278004955 catalytic residues [active] 355278004956 metal binding site [ion binding]; metal-binding site 355278004957 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 355278004958 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 355278004959 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 355278004960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278004961 homodimer interface [polypeptide binding]; other site 355278004962 catalytic residue [active] 355278004963 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 355278004964 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 355278004965 putative dimer interface [polypeptide binding]; other site 355278004966 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 355278004967 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 355278004968 putative dimer interface [polypeptide binding]; other site 355278004969 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 355278004970 homotrimer interaction site [polypeptide binding]; other site 355278004971 putative active site [active] 355278004972 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 355278004973 Clp amino terminal domain; Region: Clp_N; pfam02861 355278004974 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004975 Walker A motif; other site 355278004976 ATP binding site [chemical binding]; other site 355278004977 Walker B motif; other site 355278004978 arginine finger; other site 355278004979 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278004980 Walker A motif; other site 355278004981 ATP binding site [chemical binding]; other site 355278004982 Walker B motif; other site 355278004983 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 355278004984 Uncharacterized conserved protein [Function unknown]; Region: COG2127 355278004985 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 355278004986 Protein of unknown function, DUF482; Region: DUF482; pfam04339 355278004987 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 355278004988 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278004989 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 355278004990 dimerization interface [polypeptide binding]; other site 355278004991 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278004992 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 355278004993 binding surface 355278004994 TPR motif; other site 355278004995 TPR repeat; Region: TPR_11; pfam13414 355278004996 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 355278004997 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 355278004998 Domain of unknown function DUF20; Region: UPF0118; pfam01594 355278004999 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 355278005000 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 355278005001 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 355278005002 generic binding surface II; other site 355278005003 generic binding surface I; other site 355278005004 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14069 355278005005 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 355278005006 Na binding site [ion binding]; other site 355278005007 putative glycosylation site [posttranslational modification]; other site 355278005008 putative glycosylation site [posttranslational modification]; other site 355278005009 D-alanyl-alanine synthetase A; Provisional; Region: PRK14572 355278005010 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 355278005011 ATP-grasp domain; Region: ATP-grasp_4; cl17255 355278005012 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 355278005013 Permease; Region: Permease; pfam02405 355278005014 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 355278005015 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 355278005016 Walker A/P-loop; other site 355278005017 ATP binding site [chemical binding]; other site 355278005018 Q-loop/lid; other site 355278005019 ABC transporter signature motif; other site 355278005020 Walker B; other site 355278005021 D-loop; other site 355278005022 H-loop/switch region; other site 355278005023 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 355278005024 mce related protein; Region: MCE; pfam02470 355278005025 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 355278005026 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 355278005027 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 355278005028 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 355278005029 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 355278005030 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 355278005031 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 355278005032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278005033 POT family; Region: PTR2; cl17359 355278005034 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 355278005035 flagellin; Provisional; Region: PRK12804 355278005036 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278005037 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355278005038 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278005039 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278005040 ligand binding site [chemical binding]; other site 355278005041 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 355278005042 Voltage-dependent potassium channel; Provisional; Region: PLN03192 355278005043 Ion channel; Region: Ion_trans_2; pfam07885 355278005044 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 355278005045 ligand binding site [chemical binding]; other site 355278005046 flexible hinge region; other site 355278005047 AAA domain; Region: AAA_31; pfam13614 355278005048 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 355278005049 P-loop; other site 355278005050 Magnesium ion binding site [ion binding]; other site 355278005051 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 355278005052 Magnesium ion binding site [ion binding]; other site 355278005053 YopX protein; Region: YopX; cl09859 355278005054 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278005055 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278005056 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 355278005057 acyl-activating enzyme (AAE) consensus motif; other site 355278005058 acyl-activating enzyme (AAE) consensus motif; other site 355278005059 putative AMP binding site [chemical binding]; other site 355278005060 putative active site [active] 355278005061 putative CoA binding site [chemical binding]; other site 355278005062 aminopeptidase N; Provisional; Region: pepN; PRK14015 355278005063 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 355278005064 active site 355278005065 Zn binding site [ion binding]; other site 355278005066 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 355278005067 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278005068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005069 active site 355278005070 phosphorylation site [posttranslational modification] 355278005071 intermolecular recognition site; other site 355278005072 dimerization interface [polypeptide binding]; other site 355278005073 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278005074 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 355278005075 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 355278005076 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 355278005077 N-terminal plug; other site 355278005078 ligand-binding site [chemical binding]; other site 355278005079 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 355278005080 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 355278005081 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278005082 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 355278005083 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 355278005084 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 355278005085 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 355278005086 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 355278005087 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 355278005088 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 355278005089 dimer interface [polypeptide binding]; other site 355278005090 putative anticodon binding site; other site 355278005091 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 355278005092 motif 1; other site 355278005093 active site 355278005094 motif 2; other site 355278005095 motif 3; other site 355278005096 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 355278005097 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 355278005098 ligand binding site [chemical binding]; other site 355278005099 NAD binding site [chemical binding]; other site 355278005100 tetramer interface [polypeptide binding]; other site 355278005101 catalytic site [active] 355278005102 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 355278005103 L-serine binding site [chemical binding]; other site 355278005104 ACT domain interface; other site 355278005105 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278005106 MAPEG family; Region: MAPEG; cl09190 355278005107 Endonuclease I; Region: Endonuclease_1; pfam04231 355278005108 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 355278005109 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278005110 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278005111 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 355278005112 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 355278005113 active site residue [active] 355278005114 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355278005115 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 355278005116 Walker A/P-loop; other site 355278005117 ATP binding site [chemical binding]; other site 355278005118 Q-loop/lid; other site 355278005119 ABC transporter signature motif; other site 355278005120 Walker B; other site 355278005121 D-loop; other site 355278005122 H-loop/switch region; other site 355278005123 inner membrane transport permease; Provisional; Region: PRK15066 355278005124 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 355278005125 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 355278005126 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278005127 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278005128 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278005129 N-terminal domain interface [polypeptide binding]; other site 355278005130 dimer interface [polypeptide binding]; other site 355278005131 substrate binding pocket (H-site) [chemical binding]; other site 355278005132 BolA-like protein; Region: BolA; pfam01722 355278005133 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 355278005134 putative GSH binding site [chemical binding]; other site 355278005135 catalytic residues [active] 355278005136 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278005137 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 355278005138 ATP-grasp domain; Region: ATP-grasp_4; cl17255 355278005139 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 355278005140 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 355278005141 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 355278005142 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 355278005143 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 355278005144 active site 355278005145 trimerization site [polypeptide binding]; other site 355278005146 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 355278005147 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 355278005148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278005149 catalytic residue [active] 355278005150 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 355278005151 [2Fe-2S] cluster binding site [ion binding]; other site 355278005152 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 355278005153 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 355278005154 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 355278005155 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 355278005156 Walker A/P-loop; other site 355278005157 ATP binding site [chemical binding]; other site 355278005158 Q-loop/lid; other site 355278005159 ABC transporter signature motif; other site 355278005160 Walker B; other site 355278005161 D-loop; other site 355278005162 H-loop/switch region; other site 355278005163 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 355278005164 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 355278005165 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 355278005166 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 355278005167 ligand binding site; other site 355278005168 oligomer interface; other site 355278005169 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 355278005170 dimer interface [polypeptide binding]; other site 355278005171 N-terminal domain interface [polypeptide binding]; other site 355278005172 sulfate 1 binding site; other site 355278005173 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 355278005174 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 355278005175 putative active site [active] 355278005176 catalytic triad [active] 355278005177 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 355278005178 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 355278005179 ATP binding site [chemical binding]; other site 355278005180 active site 355278005181 substrate binding site [chemical binding]; other site 355278005182 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278005183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005184 active site 355278005185 phosphorylation site [posttranslational modification] 355278005186 intermolecular recognition site; other site 355278005187 dimerization interface [polypeptide binding]; other site 355278005188 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278005189 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 355278005190 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355278005191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278005192 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 355278005193 Walker A/P-loop; other site 355278005194 ATP binding site [chemical binding]; other site 355278005195 Q-loop/lid; other site 355278005196 ABC transporter signature motif; other site 355278005197 Walker B; other site 355278005198 D-loop; other site 355278005199 H-loop/switch region; other site 355278005200 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 355278005201 binding surface 355278005202 TPR motif; other site 355278005203 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 355278005204 binding surface 355278005205 TPR motif; other site 355278005206 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 355278005207 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 355278005208 Walker A/P-loop; other site 355278005209 ATP binding site [chemical binding]; other site 355278005210 Q-loop/lid; other site 355278005211 ABC transporter signature motif; other site 355278005212 Walker B; other site 355278005213 D-loop; other site 355278005214 H-loop/switch region; other site 355278005215 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 355278005216 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 355278005217 active site 355278005218 catalytic residues [active] 355278005219 metal binding site [ion binding]; metal-binding site 355278005220 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 355278005221 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 355278005222 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 355278005223 GDP-binding site [chemical binding]; other site 355278005224 ACT binding site; other site 355278005225 IMP binding site; other site 355278005226 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 355278005227 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 355278005228 motif 1; other site 355278005229 dimer interface [polypeptide binding]; other site 355278005230 active site 355278005231 motif 2; other site 355278005232 motif 3; other site 355278005233 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278005234 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278005235 putative acyl-acceptor binding pocket; other site 355278005236 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 355278005237 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 355278005238 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355278005239 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 355278005240 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278005241 putative active site [active] 355278005242 heme pocket [chemical binding]; other site 355278005243 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 355278005244 putative active site [active] 355278005245 heme pocket [chemical binding]; other site 355278005246 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 355278005247 dimer interface [polypeptide binding]; other site 355278005248 phosphorylation site [posttranslational modification] 355278005249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278005250 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005251 ATP binding site [chemical binding]; other site 355278005252 Mg2+ binding site [ion binding]; other site 355278005253 G-X-G motif; other site 355278005254 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 355278005255 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 355278005256 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 355278005257 alphaNTD - beta interaction site [polypeptide binding]; other site 355278005258 alphaNTD homodimer interface [polypeptide binding]; other site 355278005259 alphaNTD - beta' interaction site [polypeptide binding]; other site 355278005260 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 355278005261 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 355278005262 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 355278005263 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 355278005264 RNA binding surface [nucleotide binding]; other site 355278005265 30S ribosomal protein S11; Validated; Region: PRK05309 355278005266 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 355278005267 30S ribosomal protein S13; Region: bact_S13; TIGR03631 355278005268 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 355278005269 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 355278005270 rRNA binding site [nucleotide binding]; other site 355278005271 predicted 30S ribosome binding site; other site 355278005272 adenylate kinase; Provisional; Region: PRK14528 355278005273 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 355278005274 AMP-binding site [chemical binding]; other site 355278005275 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 355278005276 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 355278005277 SecY translocase; Region: SecY; pfam00344 355278005278 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 355278005279 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 355278005280 23S rRNA binding site [nucleotide binding]; other site 355278005281 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 355278005282 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 355278005283 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 355278005284 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 355278005285 23S rRNA interface [nucleotide binding]; other site 355278005286 5S rRNA interface [nucleotide binding]; other site 355278005287 L27 interface [polypeptide binding]; other site 355278005288 L5 interface [polypeptide binding]; other site 355278005289 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 355278005290 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355278005291 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355278005292 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 355278005293 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 355278005294 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 355278005295 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 355278005296 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 355278005297 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 355278005298 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 355278005299 RNA binding site [nucleotide binding]; other site 355278005300 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 355278005301 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 355278005302 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 355278005303 putative translocon interaction site; other site 355278005304 23S rRNA interface [nucleotide binding]; other site 355278005305 signal recognition particle (SRP54) interaction site; other site 355278005306 L23 interface [polypeptide binding]; other site 355278005307 trigger factor interaction site; other site 355278005308 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 355278005309 23S rRNA interface [nucleotide binding]; other site 355278005310 5S rRNA interface [nucleotide binding]; other site 355278005311 putative antibiotic binding site [chemical binding]; other site 355278005312 L25 interface [polypeptide binding]; other site 355278005313 L27 interface [polypeptide binding]; other site 355278005314 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 355278005315 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 355278005316 G-X-X-G motif; other site 355278005317 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 355278005318 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 355278005319 putative translocon binding site; other site 355278005320 protein-rRNA interface [nucleotide binding]; other site 355278005321 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 355278005322 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 355278005323 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 355278005324 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 355278005325 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 355278005326 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 355278005327 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 355278005328 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 355278005329 elongation factor Tu; Reviewed; Region: PRK00049 355278005330 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 355278005331 G1 box; other site 355278005332 GEF interaction site [polypeptide binding]; other site 355278005333 GTP/Mg2+ binding site [chemical binding]; other site 355278005334 Switch I region; other site 355278005335 G2 box; other site 355278005336 G3 box; other site 355278005337 Switch II region; other site 355278005338 G4 box; other site 355278005339 G5 box; other site 355278005340 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 355278005341 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 355278005342 Antibiotic Binding Site [chemical binding]; other site 355278005343 elongation factor G; Reviewed; Region: PRK13351 355278005344 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 355278005345 G1 box; other site 355278005346 GTP/Mg2+ binding site [chemical binding]; other site 355278005347 G2 box; other site 355278005348 Switch I region; other site 355278005349 G3 box; other site 355278005350 Switch II region; other site 355278005351 G4 box; other site 355278005352 G5 box; other site 355278005353 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cd01514 355278005354 30S ribosomal protein S7; Validated; Region: PRK05302 355278005355 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 355278005356 S17 interaction site [polypeptide binding]; other site 355278005357 S8 interaction site; other site 355278005358 16S rRNA interaction site [nucleotide binding]; other site 355278005359 streptomycin interaction site [chemical binding]; other site 355278005360 23S rRNA interaction site [nucleotide binding]; other site 355278005361 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 355278005362 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 355278005363 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 355278005364 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 355278005365 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 355278005366 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 355278005367 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 355278005368 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 355278005369 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 355278005370 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 355278005371 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 355278005372 DNA binding site [nucleotide binding] 355278005373 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 355278005374 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 355278005375 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 355278005376 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 355278005377 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 355278005378 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 355278005379 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 355278005380 RPB10 interaction site [polypeptide binding]; other site 355278005381 RPB1 interaction site [polypeptide binding]; other site 355278005382 RPB11 interaction site [polypeptide binding]; other site 355278005383 RPB3 interaction site [polypeptide binding]; other site 355278005384 RPB12 interaction site [polypeptide binding]; other site 355278005385 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 355278005386 core dimer interface [polypeptide binding]; other site 355278005387 peripheral dimer interface [polypeptide binding]; other site 355278005388 L10 interface [polypeptide binding]; other site 355278005389 L11 interface [polypeptide binding]; other site 355278005390 putative EF-Tu interaction site [polypeptide binding]; other site 355278005391 putative EF-G interaction site [polypeptide binding]; other site 355278005392 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 355278005393 23S rRNA interface [nucleotide binding]; other site 355278005394 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 355278005395 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 355278005396 mRNA/rRNA interface [nucleotide binding]; other site 355278005397 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 355278005398 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 355278005399 23S rRNA interface [nucleotide binding]; other site 355278005400 L7/L12 interface [polypeptide binding]; other site 355278005401 putative thiostrepton binding site; other site 355278005402 L25 interface [polypeptide binding]; other site 355278005403 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 355278005404 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 355278005405 putative homodimer interface [polypeptide binding]; other site 355278005406 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 355278005407 heterodimer interface [polypeptide binding]; other site 355278005408 homodimer interface [polypeptide binding]; other site 355278005409 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 355278005410 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 355278005411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005412 NAD(P) binding site [chemical binding]; other site 355278005413 active site 355278005414 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 355278005415 dimerization interface [polypeptide binding]; other site 355278005416 putative DNA binding site [nucleotide binding]; other site 355278005417 putative Zn2+ binding site [ion binding]; other site 355278005418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005419 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 355278005420 NAD(P) binding site [chemical binding]; other site 355278005421 active site 355278005422 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 355278005423 Uncharacterized conserved protein [Function unknown]; Region: COG4850 355278005424 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 355278005425 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 355278005426 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 355278005427 Ligand binding site; other site 355278005428 Putative Catalytic site; other site 355278005429 DXD motif; other site 355278005430 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 355278005431 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278005432 Ligand binding site; other site 355278005433 Putative Catalytic site; other site 355278005434 DXD motif; other site 355278005435 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 355278005436 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278005437 Ligand binding site; other site 355278005438 Putative Catalytic site; other site 355278005439 DXD motif; other site 355278005440 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 355278005441 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 355278005442 active site 355278005443 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 355278005444 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278005445 UDP-galactopyranose mutase; Region: GLF; pfam03275 355278005446 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 355278005447 metal-binding site 355278005448 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278005449 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 355278005450 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 355278005451 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278005452 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 355278005453 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 355278005454 metal-binding site 355278005455 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 355278005456 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 355278005457 putative ligand binding site [chemical binding]; other site 355278005458 putative NAD binding site [chemical binding]; other site 355278005459 catalytic site [active] 355278005460 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 355278005461 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 355278005462 active site 355278005463 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278005464 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 355278005465 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 355278005466 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 355278005467 inhibitor-cofactor binding pocket; inhibition site 355278005468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005469 catalytic residue [active] 355278005470 WxcM-like, C-terminal; Region: FdtA; pfam05523 355278005471 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278005472 Methyltransferase domain; Region: Methyltransf_11; pfam08241 355278005473 S-adenosylmethionine binding site [chemical binding]; other site 355278005474 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 355278005475 active site 355278005476 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 355278005477 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 355278005478 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 355278005479 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 355278005480 Walker A/P-loop; other site 355278005481 ATP binding site [chemical binding]; other site 355278005482 Q-loop/lid; other site 355278005483 ABC transporter signature motif; other site 355278005484 Walker B; other site 355278005485 D-loop; other site 355278005486 H-loop/switch region; other site 355278005487 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 355278005488 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 355278005489 trimer interface [polypeptide binding]; other site 355278005490 active site 355278005491 substrate binding site [chemical binding]; other site 355278005492 CoA binding site [chemical binding]; other site 355278005493 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 355278005494 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 355278005495 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 355278005496 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 355278005497 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 355278005498 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278005499 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 355278005500 inhibitor-cofactor binding pocket; inhibition site 355278005501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005502 catalytic residue [active] 355278005503 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355278005504 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 355278005505 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355278005506 ligand binding site; other site 355278005507 pseudaminic acid synthase; Region: PseI; TIGR03586 355278005508 NeuB family; Region: NeuB; pfam03102 355278005509 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 355278005510 NeuB binding interface [polypeptide binding]; other site 355278005511 putative substrate binding site [chemical binding]; other site 355278005512 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_1; cd08821 355278005513 putative active site [active] 355278005514 putative substrate binding site [chemical binding]; other site 355278005515 putative cosubstrate binding site; other site 355278005516 catalytic site [active] 355278005517 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 355278005518 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 355278005519 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 355278005520 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 355278005521 Coenzyme A binding pocket [chemical binding]; other site 355278005522 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 355278005523 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355278005524 ligand binding site; other site 355278005525 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 355278005526 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 355278005527 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278005528 catalytic residue [active] 355278005529 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 355278005530 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 355278005531 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 355278005532 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 355278005533 active site 355278005534 catalytic tetrad [active] 355278005535 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355278005536 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 355278005537 inhibitor-cofactor binding pocket; inhibition site 355278005538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278005539 catalytic residue [active] 355278005540 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 355278005541 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 355278005542 NAD(P) binding site [chemical binding]; other site 355278005543 homodimer interface [polypeptide binding]; other site 355278005544 substrate binding site [chemical binding]; other site 355278005545 active site 355278005546 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 355278005547 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 355278005548 NADP binding site [chemical binding]; other site 355278005549 active site 355278005550 putative substrate binding site [chemical binding]; other site 355278005551 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 355278005552 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 355278005553 NAD binding site [chemical binding]; other site 355278005554 substrate binding site [chemical binding]; other site 355278005555 homodimer interface [polypeptide binding]; other site 355278005556 active site 355278005557 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 355278005558 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 355278005559 substrate binding site; other site 355278005560 tetramer interface; other site 355278005561 Transcriptional regulators [Transcription]; Region: MarR; COG1846 355278005562 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; cl17220 355278005563 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 355278005564 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278005565 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278005566 putative acyl-acceptor binding pocket; other site 355278005567 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355278005568 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 355278005569 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 355278005570 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 355278005571 active site 355278005572 FMN binding site [chemical binding]; other site 355278005573 2,4-decadienoyl-CoA binding site; other site 355278005574 catalytic residue [active] 355278005575 4Fe-4S cluster binding site [ion binding]; other site 355278005576 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 355278005577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278005578 Response regulator receiver domain; Region: Response_reg; pfam00072 355278005579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005580 active site 355278005581 phosphorylation site [posttranslational modification] 355278005582 intermolecular recognition site; other site 355278005583 dimerization interface [polypeptide binding]; other site 355278005584 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 355278005585 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278005586 putative active site [active] 355278005587 heme pocket [chemical binding]; other site 355278005588 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278005589 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 355278005590 putative active site [active] 355278005591 heme pocket [chemical binding]; other site 355278005592 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 355278005593 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278005594 putative active site [active] 355278005595 heme pocket [chemical binding]; other site 355278005596 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 355278005597 putative active site [active] 355278005598 heme pocket [chemical binding]; other site 355278005599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278005600 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005601 ATP binding site [chemical binding]; other site 355278005602 Mg2+ binding site [ion binding]; other site 355278005603 G-X-G motif; other site 355278005604 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278005605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278005606 NAD(P) binding site [chemical binding]; other site 355278005607 active site 355278005608 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278005609 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278005610 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 355278005611 binding surface 355278005612 TPR motif; other site 355278005613 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355278005614 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355278005615 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 355278005616 Interdomain contacts; other site 355278005617 Cytokine receptor motif; other site 355278005618 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 355278005619 Interdomain contacts; other site 355278005620 Cytokine receptor motif; other site 355278005621 Thrombospondin type 1 repeats; Region: TSP1; smart00209 355278005622 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 355278005623 active site 355278005624 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 355278005625 PAS domain; Region: PAS_9; pfam13426 355278005626 putative active site [active] 355278005627 heme pocket [chemical binding]; other site 355278005628 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 355278005629 PAS domain; Region: PAS_9; pfam13426 355278005630 putative active site [active] 355278005631 heme pocket [chemical binding]; other site 355278005632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278005633 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005634 ATP binding site [chemical binding]; other site 355278005635 Mg2+ binding site [ion binding]; other site 355278005636 G-X-G motif; other site 355278005637 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 355278005638 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 355278005639 CoA-ligase; Region: Ligase_CoA; pfam00549 355278005640 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 355278005641 CoA binding domain; Region: CoA_binding; smart00881 355278005642 CoA-ligase; Region: Ligase_CoA; pfam00549 355278005643 Outer membrane efflux protein; Region: OEP; pfam02321 355278005644 Outer membrane efflux protein; Region: OEP; pfam02321 355278005645 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 355278005646 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 355278005647 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 355278005648 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 355278005649 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 355278005650 Part of AAA domain; Region: AAA_19; pfam13245 355278005651 Family description; Region: UvrD_C_2; pfam13538 355278005652 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278005653 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 355278005654 C-terminal domain interface [polypeptide binding]; other site 355278005655 GSH binding site (G-site) [chemical binding]; other site 355278005656 dimer interface [polypeptide binding]; other site 355278005657 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 355278005658 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 355278005659 dimer interface [polypeptide binding]; other site 355278005660 ADP-ribose binding site [chemical binding]; other site 355278005661 active site 355278005662 nudix motif; other site 355278005663 metal binding site [ion binding]; metal-binding site 355278005664 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278005665 FecR protein; Region: FecR; pfam04773 355278005666 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 355278005667 enterobactin exporter EntS; Provisional; Region: PRK10489 355278005668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278005669 putative substrate translocation pore; other site 355278005670 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 355278005671 PLD-like domain; Region: PLDc_2; pfam13091 355278005672 putative active site [active] 355278005673 catalytic site [active] 355278005674 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 355278005675 PLD-like domain; Region: PLDc_2; pfam13091 355278005676 putative active site [active] 355278005677 catalytic site [active] 355278005678 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 355278005679 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 355278005680 GIY-YIG motif/motif A; other site 355278005681 active site 355278005682 catalytic site [active] 355278005683 putative DNA binding site [nucleotide binding]; other site 355278005684 metal binding site [ion binding]; metal-binding site 355278005685 UvrB/uvrC motif; Region: UVR; pfam02151 355278005686 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 355278005687 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 355278005688 active site 355278005689 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 355278005690 dimerization interface [polypeptide binding]; other site 355278005691 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278005692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278005693 dimer interface [polypeptide binding]; other site 355278005694 putative CheW interface [polypeptide binding]; other site 355278005695 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 355278005696 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 355278005697 Catalytic site [active] 355278005698 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278005699 GAF domain; Region: GAF; pfam01590 355278005700 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 355278005701 dimer interface [polypeptide binding]; other site 355278005702 phosphorylation site [posttranslational modification] 355278005703 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278005704 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005705 ATP binding site [chemical binding]; other site 355278005706 Mg2+ binding site [ion binding]; other site 355278005707 G-X-G motif; other site 355278005708 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 355278005709 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 355278005710 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 355278005711 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 355278005712 Phosphoglycerate kinase; Region: PGK; pfam00162 355278005713 substrate binding site [chemical binding]; other site 355278005714 hinge regions; other site 355278005715 ADP binding site [chemical binding]; other site 355278005716 catalytic site [active] 355278005717 triosephosphate isomerase; Provisional; Region: PRK14567 355278005718 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 355278005719 substrate binding site [chemical binding]; other site 355278005720 dimer interface [polypeptide binding]; other site 355278005721 catalytic triad [active] 355278005722 Preprotein translocase SecG subunit; Region: SecG; pfam03840 355278005723 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 355278005724 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 355278005725 dimer interface [polypeptide binding]; other site 355278005726 phosphorylation site [posttranslational modification] 355278005727 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005728 ATP binding site [chemical binding]; other site 355278005729 Mg2+ binding site [ion binding]; other site 355278005730 G-X-G motif; other site 355278005731 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278005732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278005733 active site 355278005734 phosphorylation site [posttranslational modification] 355278005735 intermolecular recognition site; other site 355278005736 dimerization interface [polypeptide binding]; other site 355278005737 PQQ-like domain; Region: PQQ_2; pfam13360 355278005738 competence damage-inducible protein A; Provisional; Region: PRK00549 355278005739 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 355278005740 putative MPT binding site; other site 355278005741 Competence-damaged protein; Region: CinA; pfam02464 355278005742 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 355278005743 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 355278005744 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278005745 active site 355278005746 HIGH motif; other site 355278005747 nucleotide binding site [chemical binding]; other site 355278005748 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 355278005749 KMSK motif region; other site 355278005750 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 355278005751 tRNA binding surface [nucleotide binding]; other site 355278005752 anticodon binding site; other site 355278005753 Recombination protein O N terminal; Region: RecO_N; pfam11967 355278005754 DNA repair protein RecO; Region: reco; TIGR00613 355278005755 Recombination protein O C terminal; Region: RecO_C; pfam02565 355278005756 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 355278005757 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 355278005758 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 355278005759 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 355278005760 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278005761 Zn2+ binding site [ion binding]; other site 355278005762 Mg2+ binding site [ion binding]; other site 355278005763 PhoH-like protein; Region: PhoH; pfam02562 355278005764 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 355278005765 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 355278005766 dimer interface [polypeptide binding]; other site 355278005767 anticodon binding site; other site 355278005768 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 355278005769 homodimer interface [polypeptide binding]; other site 355278005770 motif 1; other site 355278005771 active site 355278005772 motif 2; other site 355278005773 GAD domain; Region: GAD; pfam02938 355278005774 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 355278005775 active site 355278005776 motif 3; other site 355278005777 replicative DNA helicase; Region: DnaB; TIGR00665 355278005778 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 355278005779 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 355278005780 Walker A motif; other site 355278005781 ATP binding site [chemical binding]; other site 355278005782 Walker B motif; other site 355278005783 DNA binding loops [nucleotide binding] 355278005784 ribosomal protein L9; Region: L9; TIGR00158 355278005785 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 355278005786 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 355278005787 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 355278005788 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 355278005789 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 355278005790 dimer interface [polypeptide binding]; other site 355278005791 ssDNA binding site [nucleotide binding]; other site 355278005792 tetramer (dimer of dimers) interface [polypeptide binding]; other site 355278005793 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 355278005794 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 355278005795 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 355278005796 putative active site [active] 355278005797 putative metal binding site [ion binding]; other site 355278005798 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 355278005799 binding surface 355278005800 TPR motif; other site 355278005801 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 355278005802 TPR repeat; Region: TPR_11; pfam13414 355278005803 binding surface 355278005804 TPR motif; other site 355278005805 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 355278005806 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 355278005807 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278005808 catalytic residue [active] 355278005809 CHAT domain; Region: CHAT; cl17868 355278005810 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355278005811 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 355278005812 DNA binding residues [nucleotide binding] 355278005813 GTP-binding protein YchF; Reviewed; Region: PRK09601 355278005814 YchF GTPase; Region: YchF; cd01900 355278005815 G1 box; other site 355278005816 GTP/Mg2+ binding site [chemical binding]; other site 355278005817 Switch I region; other site 355278005818 G2 box; other site 355278005819 Switch II region; other site 355278005820 G3 box; other site 355278005821 G4 box; other site 355278005822 G5 box; other site 355278005823 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 355278005824 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 355278005825 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278005826 active site 355278005827 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 355278005828 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 355278005829 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278005830 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278005831 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 355278005832 dimer interface [polypeptide binding]; other site 355278005833 phosphorylation site [posttranslational modification] 355278005834 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005835 ATP binding site [chemical binding]; other site 355278005836 Mg2+ binding site [ion binding]; other site 355278005837 G-X-G motif; other site 355278005838 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 355278005839 active site residue [active] 355278005840 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 355278005841 active site 355278005842 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 355278005843 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 355278005844 TrkA-N domain; Region: TrkA_N; pfam02254 355278005845 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 355278005846 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 355278005847 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 355278005848 ATP-grasp domain; Region: ATP-grasp_4; cl17255 355278005849 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278005850 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 355278005851 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278005852 cyclase homology domain; Region: CHD; cd07302 355278005853 nucleotidyl binding site; other site 355278005854 metal binding site [ion binding]; metal-binding site 355278005855 dimer interface [polypeptide binding]; other site 355278005856 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 355278005857 binding surface 355278005858 TPR motif; other site 355278005859 flagellin; Provisional; Region: PRK12804 355278005860 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278005861 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355278005862 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 355278005863 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 355278005864 active site 355278005865 metal binding site [ion binding]; metal-binding site 355278005866 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 355278005867 DEAD-like helicases superfamily; Region: DEXDc; smart00487 355278005868 ATP binding site [chemical binding]; other site 355278005869 Mg++ binding site [ion binding]; other site 355278005870 motif III; other site 355278005871 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 355278005872 nucleotide binding region [chemical binding]; other site 355278005873 ATP-binding site [chemical binding]; other site 355278005874 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278005875 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 355278005876 S-adenosylmethionine binding site [chemical binding]; other site 355278005877 TPR repeat; Region: TPR_11; pfam13414 355278005878 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 355278005879 TPR motif; other site 355278005880 binding surface 355278005881 TPR repeat; Region: TPR_11; pfam13414 355278005882 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 355278005883 binding surface 355278005884 TPR motif; other site 355278005885 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278005886 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278005887 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 355278005888 binding surface 355278005889 TPR motif; other site 355278005890 TPR repeat; Region: TPR_11; pfam13414 355278005891 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 355278005892 binding surface 355278005893 TPR repeat; Region: TPR_11; pfam13414 355278005894 TPR motif; other site 355278005895 TPR repeat; Region: TPR_11; pfam13414 355278005896 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 355278005897 TPR repeat; Region: TPR_11; pfam13414 355278005898 binding surface 355278005899 TPR motif; other site 355278005900 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 355278005901 putative RNA binding site [nucleotide binding]; other site 355278005902 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 355278005903 homopentamer interface [polypeptide binding]; other site 355278005904 active site 355278005905 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 355278005906 Uncharacterized conserved protein [Function unknown]; Region: COG1543 355278005907 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 355278005908 active site 355278005909 substrate binding site [chemical binding]; other site 355278005910 catalytic site [active] 355278005911 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 355278005912 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 355278005913 30S subunit binding site; other site 355278005914 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 355278005915 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278005916 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 355278005917 DNA binding residues [nucleotide binding] 355278005918 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 355278005919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278005920 ATP binding site [chemical binding]; other site 355278005921 Mg2+ binding site [ion binding]; other site 355278005922 G-X-G motif; other site 355278005923 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 355278005924 ATP binding site [chemical binding]; other site 355278005925 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 355278005926 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278005927 metal binding site 2 [ion binding]; metal-binding site 355278005928 putative DNA binding helix; other site 355278005929 metal binding site 1 [ion binding]; metal-binding site 355278005930 dimer interface [polypeptide binding]; other site 355278005931 structural Zn2+ binding site [ion binding]; other site 355278005932 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 355278005933 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 355278005934 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 355278005935 dimerization interface [polypeptide binding]; other site 355278005936 ATP binding site [chemical binding]; other site 355278005937 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 355278005938 dimerization interface [polypeptide binding]; other site 355278005939 ATP binding site [chemical binding]; other site 355278005940 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 355278005941 DNA polymerase I; Reviewed; Region: PRK05761 355278005942 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 355278005943 active site 355278005944 metal-binding site 355278005945 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278005946 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 355278005947 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 355278005948 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 355278005949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278005950 AAA domain; Region: AAA_21; pfam13304 355278005951 Walker A/P-loop; other site 355278005952 ATP binding site [chemical binding]; other site 355278005953 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 355278005954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278005955 AAA domain; Region: AAA_21; pfam13304 355278005956 Walker A/P-loop; other site 355278005957 ATP binding site [chemical binding]; other site 355278005958 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278005959 Walker B; other site 355278005960 D-loop; other site 355278005961 H-loop/switch region; other site 355278005962 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 355278005963 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278005964 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 355278005965 S-adenosylmethionine binding site [chemical binding]; other site 355278005966 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 355278005967 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 355278005968 cyclase homology domain; Region: CHD; cd07302 355278005969 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278005970 nucleotidyl binding site; other site 355278005971 metal binding site [ion binding]; metal-binding site 355278005972 dimer interface [polypeptide binding]; other site 355278005973 MerT mercuric transport protein; Region: MerT; cl03578 355278005974 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 355278005975 metal-binding site [ion binding] 355278005976 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 355278005977 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 355278005978 DNA binding residues [nucleotide binding] 355278005979 Domain of unknown function (DUF4209); Region: DUF4209; pfam13910 355278005980 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 355278005981 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 355278005982 non-specific DNA binding site [nucleotide binding]; other site 355278005983 salt bridge; other site 355278005984 sequence-specific DNA binding site [nucleotide binding]; other site 355278005985 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 355278005986 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 355278005987 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 355278005988 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 355278005989 putative active site [active] 355278005990 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 355278005991 AAA domain; Region: AAA_22; pfam13401 355278005992 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 355278005993 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 355278005994 non-specific DNA binding site [nucleotide binding]; other site 355278005995 salt bridge; other site 355278005996 sequence-specific DNA binding site [nucleotide binding]; other site 355278005997 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 355278005998 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 355278005999 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 355278006000 motif II; other site 355278006001 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 355278006002 Divergent AAA domain; Region: AAA_4; pfam04326 355278006003 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 355278006004 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 355278006005 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 355278006006 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278006007 putative active site [active] 355278006008 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 355278006009 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 355278006010 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 355278006011 sequence-specific DNA binding site [nucleotide binding]; other site 355278006012 salt bridge; other site 355278006013 MerT mercuric transport protein; Region: MerT; cl03578 355278006014 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 355278006015 metal-binding site [ion binding] 355278006016 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 355278006017 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 355278006018 DNA binding residues [nucleotide binding] 355278006019 PIN domain; Region: PIN_3; pfam13470 355278006020 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 355278006021 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 355278006022 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 355278006023 putative active site [active] 355278006024 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 355278006025 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 355278006026 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 355278006027 PIN domain; Region: PIN_3; cl17397 355278006028 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 355278006029 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 355278006030 oligomeric interface; other site 355278006031 putative active site [active] 355278006032 homodimer interface [polypeptide binding]; other site 355278006033 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 355278006034 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 355278006035 non-specific DNA binding site [nucleotide binding]; other site 355278006036 salt bridge; other site 355278006037 sequence-specific DNA binding site [nucleotide binding]; other site 355278006038 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 355278006039 oxyanion hole [active] 355278006040 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 355278006041 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 355278006042 addiction module antidote protein, HigA family; Region: antidote_HigA; TIGR02607 355278006043 sequence-specific DNA binding site [nucleotide binding]; other site 355278006044 salt bridge; other site 355278006045 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 355278006046 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 355278006047 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 355278006048 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 355278006049 DNA binding residues [nucleotide binding] 355278006050 hypothetical protein; Provisional; Region: PRK02237 355278006051 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 355278006052 conserved cys residue [active] 355278006053 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 355278006054 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 355278006055 putative C-terminal domain interface [polypeptide binding]; other site 355278006056 putative GSH binding site (G-site) [chemical binding]; other site 355278006057 putative dimer interface [polypeptide binding]; other site 355278006058 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 355278006059 putative N-terminal domain interface [polypeptide binding]; other site 355278006060 putative dimer interface [polypeptide binding]; other site 355278006061 putative substrate binding pocket (H-site) [chemical binding]; other site 355278006062 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 355278006063 MepB protein; Region: MepB; cl01985 355278006064 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 355278006065 active site 355278006066 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 355278006067 active site 355278006068 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 355278006069 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 355278006070 RNA binding surface [nucleotide binding]; other site 355278006071 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 355278006072 active site 355278006073 uracil binding [chemical binding]; other site 355278006074 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 355278006075 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355278006076 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 355278006077 Walker A/P-loop; other site 355278006078 ATP binding site [chemical binding]; other site 355278006079 Q-loop/lid; other site 355278006080 ABC transporter signature motif; other site 355278006081 Walker B; other site 355278006082 D-loop; other site 355278006083 H-loop/switch region; other site 355278006084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278006085 putative CheW interface [polypeptide binding]; other site 355278006086 Cache domain; Region: Cache_1; pfam02743 355278006087 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 355278006088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006090 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 355278006091 active site 355278006092 DinB superfamily; Region: DinB_2; pfam12867 355278006093 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355278006094 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 355278006095 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 355278006096 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 355278006097 Ligand binding site; other site 355278006098 Putative Catalytic site; other site 355278006099 DXD motif; other site 355278006100 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 355278006101 anti sigma factor interaction site; other site 355278006102 regulatory phosphorylation site [posttranslational modification]; other site 355278006103 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 355278006104 Ca binding site [ion binding]; other site 355278006105 active site 355278006106 catalytic site [active] 355278006107 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 355278006108 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278006109 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278006110 dimer interface [polypeptide binding]; other site 355278006111 putative CheW interface [polypeptide binding]; other site 355278006112 Uncharacterized conserved protein [Function unknown]; Region: COG1284 355278006113 Leucine rich repeat; Region: LRR_8; pfam13855 355278006114 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 355278006115 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278006116 active site 355278006117 HIGH motif; other site 355278006118 nucleotide binding site [chemical binding]; other site 355278006119 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 355278006120 active site 355278006121 KMSKS motif; other site 355278006122 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 355278006123 tRNA binding surface [nucleotide binding]; other site 355278006124 anticodon binding site; other site 355278006125 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 355278006126 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 355278006127 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 355278006128 anti sigma factor interaction site; other site 355278006129 regulatory phosphorylation site [posttranslational modification]; other site 355278006130 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 355278006131 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 355278006132 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 355278006133 tetramerization interface [polypeptide binding]; other site 355278006134 active site 355278006135 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 355278006136 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 355278006137 catalytic residues [active] 355278006138 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 355278006139 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278006140 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 355278006141 ligand binding site [chemical binding]; other site 355278006142 flexible hinge region; other site 355278006143 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278006144 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 355278006145 ligand binding site [chemical binding]; other site 355278006146 flexible hinge region; other site 355278006147 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278006148 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278006149 active site 355278006150 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 355278006151 ThiC-associated domain; Region: ThiC-associated; pfam13667 355278006152 ThiC family; Region: ThiC; pfam01964 355278006153 PilZ domain; Region: PilZ; pfam07238 355278006154 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278006155 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278006156 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278006157 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278006158 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278006159 Bifunctional nuclease; Region: DNase-RNase; pfam02577 355278006160 UvrB/uvrC motif; Region: UVR; pfam02151 355278006161 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 355278006162 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 355278006163 FeS/SAM binding site; other site 355278006164 FOG: CBS domain [General function prediction only]; Region: COG0517 355278006165 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 355278006166 RNase_H superfamily; Region: RNase_H_2; pfam13482 355278006167 active site 355278006168 substrate binding site [chemical binding]; other site 355278006169 catalytic site [active] 355278006170 transaminase; Validated; Region: PRK07324 355278006171 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 355278006172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006173 homodimer interface [polypeptide binding]; other site 355278006174 catalytic residue [active] 355278006175 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 355278006176 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 355278006177 active site 355278006178 substrate binding site [chemical binding]; other site 355278006179 metal binding site [ion binding]; metal-binding site 355278006180 acetylornithine aminotransferase; Provisional; Region: PRK02627 355278006181 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 355278006182 inhibitor-cofactor binding pocket; inhibition site 355278006183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006184 catalytic residue [active] 355278006185 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 355278006186 tartrate dehydrogenase; Region: TTC; TIGR02089 355278006187 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006189 active site 355278006190 phosphorylation site [posttranslational modification] 355278006191 intermolecular recognition site; other site 355278006192 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 355278006193 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 355278006194 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 355278006195 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_1; cd11347 355278006196 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 355278006197 active site 355278006198 catalytic site [active] 355278006199 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 355278006200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278006201 Zn2+ binding site [ion binding]; other site 355278006202 Mg2+ binding site [ion binding]; other site 355278006203 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 355278006204 synthetase active site [active] 355278006205 NTP binding site [chemical binding]; other site 355278006206 metal binding site [ion binding]; metal-binding site 355278006207 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 355278006208 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 355278006209 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 355278006210 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 355278006211 dimerization interface [polypeptide binding]; other site 355278006212 active site 355278006213 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 355278006214 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278006215 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 355278006216 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278006217 anti sigma factor interaction site; other site 355278006218 regulatory phosphorylation site [posttranslational modification]; other site 355278006219 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 355278006220 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 355278006221 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278006222 metal binding site 2 [ion binding]; metal-binding site 355278006223 putative DNA binding helix; other site 355278006224 metal binding site 1 [ion binding]; metal-binding site 355278006225 dimer interface [polypeptide binding]; other site 355278006226 structural Zn2+ binding site [ion binding]; other site 355278006227 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278006228 transcript cleavage factor/unknown domain fusion protein; Provisional; Region: PRK14720 355278006229 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 355278006230 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 355278006231 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278006232 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278006233 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278006234 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 355278006235 ligand binding site [chemical binding]; other site 355278006236 flexible hinge region; other site 355278006237 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278006238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006239 active site 355278006240 phosphorylation site [posttranslational modification] 355278006241 intermolecular recognition site; other site 355278006242 dimerization interface [polypeptide binding]; other site 355278006243 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 355278006244 DNA binding residues [nucleotide binding] 355278006245 dimerization interface [polypeptide binding]; other site 355278006246 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006247 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 355278006248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278006249 dimer interface [polypeptide binding]; other site 355278006250 phosphorylation site [posttranslational modification] 355278006251 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006252 ATP binding site [chemical binding]; other site 355278006253 Mg2+ binding site [ion binding]; other site 355278006254 G-X-G motif; other site 355278006255 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006257 active site 355278006258 phosphorylation site [posttranslational modification] 355278006259 intermolecular recognition site; other site 355278006260 dimerization interface [polypeptide binding]; other site 355278006261 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 355278006262 Zonular occludens toxin (Zot); Region: Zot; cl17485 355278006263 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 355278006264 oligomerisation interface [polypeptide binding]; other site 355278006265 mobile loop; other site 355278006266 roof hairpin; other site 355278006267 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 355278006268 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 355278006269 ring oligomerisation interface [polypeptide binding]; other site 355278006270 ATP/Mg binding site [chemical binding]; other site 355278006271 stacking interactions; other site 355278006272 hinge regions; other site 355278006273 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 355278006274 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 355278006275 oligomeric interface; other site 355278006276 putative active site [active] 355278006277 homodimer interface [polypeptide binding]; other site 355278006278 RF-1 domain; Region: RF-1; pfam00472 355278006279 antiporter inner membrane protein; Provisional; Region: PRK11670 355278006280 Domain of unknown function DUF59; Region: DUF59; pfam01883 355278006281 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 355278006282 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278006283 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 355278006284 putative active site [active] 355278006285 putative metal binding site [ion binding]; other site 355278006286 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278006287 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 355278006288 E3 interaction surface; other site 355278006289 lipoyl attachment site [posttranslational modification]; other site 355278006290 aminodeoxychorismate synthase; Provisional; Region: PRK07508 355278006291 chorismate binding enzyme; Region: Chorismate_bind; cl10555 355278006292 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 355278006293 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 355278006294 substrate-cofactor binding pocket; other site 355278006295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006296 catalytic residue [active] 355278006297 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 355278006298 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006299 Walker A motif; other site 355278006300 ATP binding site [chemical binding]; other site 355278006301 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 355278006302 Walker B motif; other site 355278006303 arginine finger; other site 355278006304 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 355278006305 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 355278006306 active site 355278006307 HslU subunit interaction site [polypeptide binding]; other site 355278006308 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278006309 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006310 ATP binding site [chemical binding]; other site 355278006311 Mg2+ binding site [ion binding]; other site 355278006312 G-X-G motif; other site 355278006313 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 355278006314 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 355278006315 active site 355278006316 Int/Topo IB signature motif; other site 355278006317 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 355278006318 binding surface 355278006319 TPR motif; other site 355278006320 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 355278006321 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278006322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278006323 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 355278006324 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 355278006325 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 355278006326 putative valine binding site [chemical binding]; other site 355278006327 dimer interface [polypeptide binding]; other site 355278006328 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 355278006329 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 355278006330 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 355278006331 PYR/PP interface [polypeptide binding]; other site 355278006332 dimer interface [polypeptide binding]; other site 355278006333 TPP binding site [chemical binding]; other site 355278006334 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 355278006335 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 355278006336 TPP-binding site [chemical binding]; other site 355278006337 dimer interface [polypeptide binding]; other site 355278006338 Integrase core domain; Region: rve; pfam00665 355278006339 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278006340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278006341 putative substrate translocation pore; other site 355278006342 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 355278006343 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 355278006344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278006345 catalytic residue [active] 355278006346 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 355278006347 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 355278006348 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 355278006349 binding surface 355278006350 TPR motif; other site 355278006351 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278006352 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 355278006353 TPR motif; other site 355278006354 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278006355 binding surface 355278006356 Methyltransferase domain; Region: Methyltransf_18; pfam12847 355278006357 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 355278006358 Part of AAA domain; Region: AAA_19; pfam13245 355278006359 Family description; Region: UvrD_C_2; pfam13538 355278006360 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 355278006361 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278006362 LemA family; Region: LemA; pfam04011 355278006363 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 355278006364 prephenate dehydrogenase; Validated; Region: PRK08507 355278006365 Chorismate mutase type II; Region: CM_2; smart00830 355278006366 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 355278006367 Prephenate dehydratase; Region: PDT; pfam00800 355278006368 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 355278006369 putative L-Phe binding site [chemical binding]; other site 355278006370 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 355278006371 ScpA/B protein; Region: ScpA_ScpB; cl00598 355278006372 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006374 active site 355278006375 phosphorylation site [posttranslational modification] 355278006376 intermolecular recognition site; other site 355278006377 dimerization interface [polypeptide binding]; other site 355278006378 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355278006379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006380 active site 355278006381 phosphorylation site [posttranslational modification] 355278006382 intermolecular recognition site; other site 355278006383 dimerization interface [polypeptide binding]; other site 355278006384 CheB methylesterase; Region: CheB_methylest; pfam01339 355278006385 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 355278006386 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 355278006387 putative binding surface; other site 355278006388 active site 355278006389 P2 response regulator binding domain; Region: P2; pfam07194 355278006390 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 355278006391 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006392 ATP binding site [chemical binding]; other site 355278006393 Mg2+ binding site [ion binding]; other site 355278006394 G-X-G motif; other site 355278006395 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 355278006396 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 355278006397 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 355278006398 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 355278006399 Cell division protein ZapA; Region: ZapA; pfam05164 355278006400 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 355278006401 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 355278006402 23S rRNA binding site [nucleotide binding]; other site 355278006403 L21 binding site [polypeptide binding]; other site 355278006404 L13 binding site [polypeptide binding]; other site 355278006405 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 355278006406 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 355278006407 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 355278006408 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 355278006409 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 355278006410 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 355278006411 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 355278006412 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 355278006413 active site 355278006414 dimer interface [polypeptide binding]; other site 355278006415 motif 1; other site 355278006416 motif 2; other site 355278006417 motif 3; other site 355278006418 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 355278006419 anticodon binding site; other site 355278006420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006421 WHG domain; Region: WHG; pfam13305 355278006422 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278006423 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278006424 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355278006425 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 355278006426 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278006427 Walker A/P-loop; other site 355278006428 ATP binding site [chemical binding]; other site 355278006429 Q-loop/lid; other site 355278006430 ABC transporter signature motif; other site 355278006431 Walker B; other site 355278006432 D-loop; other site 355278006433 H-loop/switch region; other site 355278006434 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 355278006435 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 355278006436 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 355278006437 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355278006438 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 355278006439 photolyase PhrII; Region: phr2; TIGR00591 355278006440 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 355278006441 A new structural DNA glycosylase; Region: AlkD_like; cd06561 355278006442 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 355278006443 active site 355278006444 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 355278006445 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278006446 cyclase homology domain; Region: CHD; cd07302 355278006447 nucleotidyl binding site; other site 355278006448 metal binding site [ion binding]; metal-binding site 355278006449 dimer interface [polypeptide binding]; other site 355278006450 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 355278006451 Stage II sporulation protein; Region: SpoIID; pfam08486 355278006452 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 355278006453 HDOD domain; Region: HDOD; pfam08668 355278006454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 355278006455 active site 355278006456 phosphorylation site [posttranslational modification] 355278006457 intermolecular recognition site; other site 355278006458 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278006459 cyclase homology domain; Region: CHD; cd07302 355278006460 nucleotidyl binding site; other site 355278006461 metal binding site [ion binding]; metal-binding site 355278006462 dimer interface [polypeptide binding]; other site 355278006463 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 355278006464 4Fe-4S binding domain; Region: Fer4; pfam00037 355278006465 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 355278006466 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 355278006467 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 355278006468 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 355278006469 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 355278006470 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 355278006471 NADH dehydrogenase; Region: NADHdh; cl00469 355278006472 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 355278006473 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278006474 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 355278006475 Walker A/P-loop; other site 355278006476 ATP binding site [chemical binding]; other site 355278006477 Q-loop/lid; other site 355278006478 ABC transporter signature motif; other site 355278006479 Walker B; other site 355278006480 D-loop; other site 355278006481 H-loop/switch region; other site 355278006482 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355278006483 FtsX-like permease family; Region: FtsX; pfam02687 355278006484 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278006485 active site 355278006486 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278006488 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 355278006489 PilZ domain; Region: PilZ; pfam07238 355278006490 ornithine carbamoyltransferase; Provisional; Region: PRK14804 355278006491 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 355278006492 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 355278006493 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 355278006494 heme-binding site [chemical binding]; other site 355278006495 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 355278006496 Cache domain; Region: Cache_1; pfam02743 355278006497 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 355278006498 dimerization interface [polypeptide binding]; other site 355278006499 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278006500 dimer interface [polypeptide binding]; other site 355278006501 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355278006502 putative CheW interface [polypeptide binding]; other site 355278006503 FecR protein; Region: FecR; pfam04773 355278006504 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 355278006505 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 355278006506 putative Cl- selectivity filter; other site 355278006507 putative pore gating glutamate residue; other site 355278006508 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278006509 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 355278006510 putative acyl-acceptor binding pocket; other site 355278006511 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006512 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006513 active site 355278006514 phosphorylation site [posttranslational modification] 355278006515 intermolecular recognition site; other site 355278006516 dimerization interface [polypeptide binding]; other site 355278006517 PAS fold; Region: PAS; pfam00989 355278006518 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 355278006519 putative active site [active] 355278006520 heme pocket [chemical binding]; other site 355278006521 PAS fold; Region: PAS; pfam00989 355278006522 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 355278006523 putative active site [active] 355278006524 heme pocket [chemical binding]; other site 355278006525 PAS domain; Region: PAS_9; pfam13426 355278006526 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 355278006527 putative active site [active] 355278006528 heme pocket [chemical binding]; other site 355278006529 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278006530 Histidine kinase; Region: HisKA_2; pfam07568 355278006531 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006532 ATP binding site [chemical binding]; other site 355278006533 Mg2+ binding site [ion binding]; other site 355278006534 G-X-G motif; other site 355278006535 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 355278006536 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278006537 active site 355278006538 catalytic triad [active] 355278006539 dimer interface [polypeptide binding]; other site 355278006540 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006541 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278006542 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 355278006543 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 355278006544 active site 355278006545 DNA binding site [nucleotide binding] 355278006546 Int/Topo IB signature motif; other site 355278006547 recombinase A; Provisional; Region: recA; PRK09354 355278006548 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 355278006549 hexamer interface [polypeptide binding]; other site 355278006550 Walker A motif; other site 355278006551 ATP binding site [chemical binding]; other site 355278006552 Walker B motif; other site 355278006553 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 355278006554 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 355278006555 active site 355278006556 catalytic tetrad [active] 355278006557 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 355278006558 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006559 Walker A motif; other site 355278006560 ATP binding site [chemical binding]; other site 355278006561 Walker B motif; other site 355278006562 arginine finger; other site 355278006563 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006564 Walker A motif; other site 355278006565 ATP binding site [chemical binding]; other site 355278006566 Walker B motif; other site 355278006567 arginine finger; other site 355278006568 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 355278006569 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278006570 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278006571 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278006572 CHASE3 domain; Region: CHASE3; pfam05227 355278006573 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 355278006574 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 355278006575 putative active site [active] 355278006576 heme pocket [chemical binding]; other site 355278006577 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 355278006578 dimer interface [polypeptide binding]; other site 355278006579 phosphorylation site [posttranslational modification] 355278006580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006581 ATP binding site [chemical binding]; other site 355278006582 Mg2+ binding site [ion binding]; other site 355278006583 G-X-G motif; other site 355278006584 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006586 active site 355278006587 phosphorylation site [posttranslational modification] 355278006588 intermolecular recognition site; other site 355278006589 dimerization interface [polypeptide binding]; other site 355278006590 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278006591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006592 active site 355278006593 phosphorylation site [posttranslational modification] 355278006594 intermolecular recognition site; other site 355278006595 dimerization interface [polypeptide binding]; other site 355278006596 PAS fold; Region: PAS_4; pfam08448 355278006597 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 355278006598 dimer interface [polypeptide binding]; other site 355278006599 phosphorylation site [posttranslational modification] 355278006600 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006601 ATP binding site [chemical binding]; other site 355278006602 Mg2+ binding site [ion binding]; other site 355278006603 G-X-G motif; other site 355278006604 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278006605 Hypothetical patatin similar to WS1459 of Wolinella succinogenes; Region: Pat_hypo_W_succinogenes_WS1459_like; cd07210 355278006606 active site 355278006607 nucleophile elbow; other site 355278006608 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 355278006609 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 355278006610 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278006611 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 355278006612 motif II; other site 355278006613 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 355278006614 Peptidase family C69; Region: Peptidase_C69; cl17793 355278006615 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 355278006616 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 355278006617 MOFRL family; Region: MOFRL; pfam05161 355278006618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278006619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278006620 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 355278006621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278006622 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 355278006623 dimer interface [polypeptide binding]; other site 355278006624 phosphorylation site [posttranslational modification] 355278006625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006626 ATP binding site [chemical binding]; other site 355278006627 Mg2+ binding site [ion binding]; other site 355278006628 G-X-G motif; other site 355278006629 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278006630 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278006631 metal binding site 2 [ion binding]; metal-binding site 355278006632 putative DNA binding helix; other site 355278006633 structural Zn2+ binding site [ion binding]; other site 355278006634 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 355278006635 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 355278006636 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 355278006637 PaaX-like protein; Region: PaaX; pfam07848 355278006638 Predicted membrane protein [Function unknown]; Region: COG4270 355278006639 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278006640 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 355278006641 ligand binding site [chemical binding]; other site 355278006642 flexible hinge region; other site 355278006643 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278006644 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 355278006645 ligand binding site [chemical binding]; other site 355278006646 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 355278006647 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 355278006648 active site 355278006649 metal binding site [ion binding]; metal-binding site 355278006650 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 355278006651 UbiA prenyltransferase family; Region: UbiA; pfam01040 355278006652 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 355278006653 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 355278006654 active site 355278006655 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355278006656 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278006657 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 355278006658 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278006659 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 355278006660 putative NAD(P) binding site [chemical binding]; other site 355278006661 Haemolysin-III related; Region: HlyIII; cl03831 355278006662 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 355278006663 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 355278006664 Ca2+ binding site [ion binding]; other site 355278006665 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278006666 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278006667 active site 355278006668 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 355278006669 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 355278006670 active site 355278006671 FMN binding site [chemical binding]; other site 355278006672 2,4-decadienoyl-CoA binding site; other site 355278006673 catalytic residue [active] 355278006674 4Fe-4S cluster binding site [ion binding]; other site 355278006675 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 355278006676 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 355278006677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278006679 WHG domain; Region: WHG; pfam13305 355278006680 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278006681 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278006682 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; pfam04734 355278006683 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 355278006684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278006685 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 355278006686 NAD(P) binding site [chemical binding]; other site 355278006687 active site 355278006688 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 355278006689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006690 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278006691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006692 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 355278006693 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 355278006694 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 355278006695 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 355278006696 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 355278006697 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 355278006698 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 355278006699 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 355278006700 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 355278006701 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 355278006702 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 355278006703 dimer interface [polypeptide binding]; other site 355278006704 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 355278006705 active site 355278006706 heme binding site [chemical binding]; other site 355278006707 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 355278006708 High potential iron-sulfur protein; Region: HIPIP; pfam01355 355278006709 DEAD-like helicases superfamily; Region: DEXDc; smart00487 355278006710 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 355278006711 ATP binding site [chemical binding]; other site 355278006712 putative Mg++ binding site [ion binding]; other site 355278006713 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 355278006714 nucleotide binding region [chemical binding]; other site 355278006715 ATP-binding site [chemical binding]; other site 355278006716 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006717 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278006718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006719 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278006720 cyclase homology domain; Region: CHD; cd07302 355278006721 nucleotidyl binding site; other site 355278006722 metal binding site [ion binding]; metal-binding site 355278006723 dimer interface [polypeptide binding]; other site 355278006724 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 355278006725 YceI-like domain; Region: YceI; pfam04264 355278006726 Response regulator receiver domain; Region: Response_reg; pfam00072 355278006727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006728 active site 355278006729 phosphorylation site [posttranslational modification] 355278006730 intermolecular recognition site; other site 355278006731 dimerization interface [polypeptide binding]; other site 355278006732 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278006733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278006734 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006735 Histidine kinase; Region: His_kinase; pfam06580 355278006736 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 355278006737 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278006738 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 355278006739 ligand binding site [chemical binding]; other site 355278006740 flexible hinge region; other site 355278006741 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278006742 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 355278006743 ligand binding site [chemical binding]; other site 355278006744 flexible hinge region; other site 355278006745 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 355278006746 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 355278006747 nucleophile elbow; other site 355278006748 FG-GAP repeat; Region: FG-GAP_2; pfam14312 355278006749 FG-GAP repeat; Region: FG-GAP_2; pfam14312 355278006750 FG-GAP repeat; Region: FG-GAP_2; pfam14312 355278006751 FG-GAP repeat; Region: FG-GAP_2; pfam14312 355278006752 FG-GAP repeat; Region: FG-GAP_2; pfam14312 355278006753 FG-GAP repeat; Region: FG-GAP_2; pfam14312 355278006754 FG-GAP repeat; Region: FG-GAP_2; pfam14312 355278006755 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355278006756 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006757 GAF domain; Region: GAF; cl17456 355278006758 GAF domain; Region: GAF_2; pfam13185 355278006759 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278006760 GAF domain; Region: GAF; cl17456 355278006761 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355278006762 cyclase homology domain; Region: CHD; cd07302 355278006763 nucleotidyl binding site; other site 355278006764 metal binding site [ion binding]; metal-binding site 355278006765 dimer interface [polypeptide binding]; other site 355278006766 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278006767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278006768 active site 355278006769 phosphorylation site [posttranslational modification] 355278006770 intermolecular recognition site; other site 355278006771 dimerization interface [polypeptide binding]; other site 355278006772 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 355278006773 DNA binding residues [nucleotide binding] 355278006774 dimerization interface [polypeptide binding]; other site 355278006775 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278006776 Uncharacterized conserved protein [Function unknown]; Region: COG4938 355278006777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278006778 Walker A/P-loop; other site 355278006779 ATP binding site [chemical binding]; other site 355278006780 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 355278006781 Protein of unknown function DUF262; Region: DUF262; pfam03235 355278006782 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278006783 Esterase/lipase [General function prediction only]; Region: COG1647 355278006784 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 355278006785 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 355278006786 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 355278006787 dimerization interface [polypeptide binding]; other site 355278006788 DPS ferroxidase diiron center [ion binding]; other site 355278006789 ion pore; other site 355278006790 acyl-CoA esterase; Provisional; Region: PRK10673 355278006791 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278006792 aspartate aminotransferase; Provisional; Region: PRK05764 355278006793 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 355278006794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006795 homodimer interface [polypeptide binding]; other site 355278006796 catalytic residue [active] 355278006797 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 355278006798 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 355278006799 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 355278006800 ATP binding site [chemical binding]; other site 355278006801 putative Mg++ binding site [ion binding]; other site 355278006802 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 355278006803 nucleotide binding region [chemical binding]; other site 355278006804 ATP-binding site [chemical binding]; other site 355278006805 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 355278006806 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 355278006807 FMN binding site [chemical binding]; other site 355278006808 active site 355278006809 catalytic residues [active] 355278006810 substrate binding site [chemical binding]; other site 355278006811 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 355278006812 FHIPEP family; Region: FHIPEP; pfam00771 355278006813 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 355278006814 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 355278006815 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 355278006816 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 355278006817 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 355278006818 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 355278006819 flagellar motor switch protein; Validated; Region: PRK08119 355278006820 flagellar motor switch protein FliN; Region: fliN; TIGR02480 355278006821 Protein of unknown function (DUF971); Region: DUF971; pfam06155 355278006822 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 355278006823 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 355278006824 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 355278006825 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 355278006826 ArsC family; Region: ArsC; pfam03960 355278006827 catalytic residue [active] 355278006828 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278006829 hydrophobic ligand binding site; other site 355278006830 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 355278006831 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 355278006832 trimer interface [polypeptide binding]; other site 355278006833 active site 355278006834 UDP-GlcNAc binding site [chemical binding]; other site 355278006835 lipid binding site [chemical binding]; lipid-binding site 355278006836 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278006837 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278006838 ligand binding site [chemical binding]; other site 355278006839 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 355278006840 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278006841 Ligand binding site; other site 355278006842 Putative Catalytic site; other site 355278006843 DXD motif; other site 355278006844 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 355278006845 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 355278006846 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 355278006847 active site residue [active] 355278006848 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 355278006849 active site residue [active] 355278006850 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 355278006851 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 355278006852 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 355278006853 homodimer interface [polypeptide binding]; other site 355278006854 substrate-cofactor binding pocket; other site 355278006855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278006856 catalytic residue [active] 355278006857 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278006858 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 355278006859 Walker A/P-loop; other site 355278006860 ATP binding site [chemical binding]; other site 355278006861 Q-loop/lid; other site 355278006862 ABC transporter signature motif; other site 355278006863 Walker B; other site 355278006864 D-loop; other site 355278006865 H-loop/switch region; other site 355278006866 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355278006867 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278006868 FtsX-like permease family; Region: FtsX; pfam02687 355278006869 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 355278006870 carboxyltransferase (CT) interaction site; other site 355278006871 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278006872 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 355278006873 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355278006874 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 355278006875 FeS/SAM binding site; other site 355278006876 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 355278006877 binding surface 355278006878 TPR motif; other site 355278006879 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 355278006880 TPR repeat; Region: TPR_11; pfam13414 355278006881 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 355278006882 Clp amino terminal domain; Region: Clp_N; pfam02861 355278006883 Clp amino terminal domain; Region: Clp_N; pfam02861 355278006884 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006885 Walker A motif; other site 355278006886 ATP binding site [chemical binding]; other site 355278006887 Walker B motif; other site 355278006888 arginine finger; other site 355278006889 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278006890 Walker A motif; other site 355278006891 ATP binding site [chemical binding]; other site 355278006892 Walker B motif; other site 355278006893 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 355278006894 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 355278006895 ADP binding site [chemical binding]; other site 355278006896 phosphagen binding site; other site 355278006897 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278006898 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 355278006899 Walker A/P-loop; other site 355278006900 ATP binding site [chemical binding]; other site 355278006901 Q-loop/lid; other site 355278006902 ABC transporter signature motif; other site 355278006903 Walker B; other site 355278006904 D-loop; other site 355278006905 H-loop/switch region; other site 355278006906 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355278006907 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278006908 FtsX-like permease family; Region: FtsX; pfam02687 355278006909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278006910 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 355278006911 Mechanosensitive ion channel; Region: MS_channel; pfam00924 355278006912 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 355278006913 active site 355278006914 dimer interface [polypeptide binding]; other site 355278006915 metal binding site [ion binding]; metal-binding site 355278006916 ribonuclease III; Reviewed; Region: rnc; PRK00102 355278006917 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 355278006918 dimerization interface [polypeptide binding]; other site 355278006919 active site 355278006920 metal binding site [ion binding]; metal-binding site 355278006921 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 355278006922 dsRNA binding site [nucleotide binding]; other site 355278006923 acyl carrier protein; Provisional; Region: acpP; PRK00982 355278006924 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 355278006925 active site residue [active] 355278006926 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006927 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006928 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006929 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 355278006930 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355278006931 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 355278006932 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 355278006933 NAD(P) binding site [chemical binding]; other site 355278006934 homotetramer interface [polypeptide binding]; other site 355278006935 homodimer interface [polypeptide binding]; other site 355278006936 active site 355278006937 Integrase core domain; Region: rve; pfam00665 355278006938 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 355278006939 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 355278006940 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278006941 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 355278006942 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 355278006943 RNA binding site [nucleotide binding]; other site 355278006944 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 355278006945 RNA binding site [nucleotide binding]; other site 355278006946 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 355278006947 RNA binding site [nucleotide binding]; other site 355278006948 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 355278006949 RNA binding site [nucleotide binding]; other site 355278006950 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 355278006951 RNA binding site [nucleotide binding]; other site 355278006952 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 355278006953 RNA binding site [nucleotide binding]; other site 355278006954 cytidylate kinase; Provisional; Region: cmk; PRK00023 355278006955 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 355278006956 active site 355278006957 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 355278006958 CMP-binding site; other site 355278006959 The sites determining sugar specificity; other site 355278006960 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278006961 GAF domain; Region: GAF_2; pfam13185 355278006962 PAS domain S-box; Region: sensory_box; TIGR00229 355278006963 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 355278006964 putative active site [active] 355278006965 heme pocket [chemical binding]; other site 355278006966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278006967 Histidine kinase; Region: HisKA_2; pfam07568 355278006968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278006969 ATP binding site [chemical binding]; other site 355278006970 Mg2+ binding site [ion binding]; other site 355278006971 G-X-G motif; other site 355278006972 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 355278006973 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 355278006974 hinge; other site 355278006975 active site 355278006976 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 355278006977 ligand binding site [chemical binding]; other site 355278006978 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 355278006979 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 355278006980 binding surface 355278006981 TPR motif; other site 355278006982 TPR repeat; Region: TPR_11; pfam13414 355278006983 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 355278006984 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 355278006985 TPP-binding site; other site 355278006986 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 355278006987 PYR/PP interface [polypeptide binding]; other site 355278006988 dimer interface [polypeptide binding]; other site 355278006989 TPP binding site [chemical binding]; other site 355278006990 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355278006991 CHASE2 domain; Region: CHASE2; pfam05226 355278006992 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278006993 cyclase homology domain; Region: CHD; cd07302 355278006994 nucleotidyl binding site; other site 355278006995 metal binding site [ion binding]; metal-binding site 355278006996 dimer interface [polypeptide binding]; other site 355278006997 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 355278006998 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 355278006999 substrate binding site [chemical binding]; other site 355278007000 active site 355278007001 catalytic residues [active] 355278007002 heterodimer interface [polypeptide binding]; other site 355278007003 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 355278007004 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 355278007005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278007006 catalytic residue [active] 355278007007 prolyl-tRNA synthetase; Provisional; Region: PRK09194 355278007008 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 355278007009 dimer interface [polypeptide binding]; other site 355278007010 motif 1; other site 355278007011 active site 355278007012 motif 2; other site 355278007013 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 355278007014 putative deacylase active site [active] 355278007015 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 355278007016 active site 355278007017 motif 3; other site 355278007018 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 355278007019 anticodon binding site; other site 355278007020 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 355278007021 active site 355278007022 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 355278007023 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 355278007024 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 355278007025 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 355278007026 putative substrate binding region [chemical binding]; other site 355278007027 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 355278007028 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 355278007029 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 355278007030 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 355278007031 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 355278007032 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 355278007033 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14842 355278007034 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 355278007035 catalytic residue [active] 355278007036 putative FPP diphosphate binding site; other site 355278007037 putative FPP binding hydrophobic cleft; other site 355278007038 dimer interface [polypeptide binding]; other site 355278007039 putative IPP diphosphate binding site; other site 355278007040 ribosome recycling factor; Reviewed; Region: frr; PRK00083 355278007041 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 355278007042 hinge region; other site 355278007043 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 355278007044 putative nucleotide binding site [chemical binding]; other site 355278007045 uridine monophosphate binding site [chemical binding]; other site 355278007046 homohexameric interface [polypeptide binding]; other site 355278007047 elongation factor Ts; Reviewed; Region: tsf; PRK12332 355278007048 UBA/TS-N domain; Region: UBA; pfam00627 355278007049 Elongation factor TS; Region: EF_TS; pfam00889 355278007050 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 355278007051 rRNA interaction site [nucleotide binding]; other site 355278007052 S8 interaction site; other site 355278007053 putative laminin-1 binding site; other site 355278007054 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 355278007055 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 355278007056 active site 355278007057 homotetramer interface [polypeptide binding]; other site 355278007058 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 355278007059 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 355278007060 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 355278007061 PAS fold; Region: PAS_3; pfam08447 355278007062 PAS fold; Region: PAS_3; pfam08447 355278007063 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 355278007064 putative active site [active] 355278007065 heme pocket [chemical binding]; other site 355278007066 PAS domain S-box; Region: sensory_box; TIGR00229 355278007067 PAS domain; Region: PAS_8; pfam13188 355278007068 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 355278007069 dimer interface [polypeptide binding]; other site 355278007070 phosphorylation site [posttranslational modification] 355278007071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007072 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007073 ATP binding site [chemical binding]; other site 355278007074 Mg2+ binding site [ion binding]; other site 355278007075 G-X-G motif; other site 355278007076 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 355278007077 putative dimer interface [polypeptide binding]; other site 355278007078 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278007079 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 355278007080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007081 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 355278007082 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 355278007083 active site 355278007084 catalytic triad [active] 355278007085 oxyanion hole [active] 355278007086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278007087 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278007088 dimer interface [polypeptide binding]; other site 355278007089 putative CheW interface [polypeptide binding]; other site 355278007090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278007091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278007092 metal binding site [ion binding]; metal-binding site 355278007093 active site 355278007094 I-site; other site 355278007095 PilZ domain; Region: PilZ; pfam07238 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 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278007099 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 355278007100 methionine sulfoxide reductase A; Provisional; Region: PRK14054 355278007101 HDOD domain; Region: HDOD; pfam08668 355278007102 UPF0126 domain; Region: UPF0126; pfam03458 355278007103 Predicted membrane protein [Function unknown]; Region: COG2860 355278007104 UPF0126 domain; Region: UPF0126; pfam03458 355278007105 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 355278007106 Strictosidine synthase; Region: Str_synth; pfam03088 355278007107 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278007108 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 355278007109 putative acyl-acceptor binding pocket; other site 355278007110 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278007111 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 355278007112 ligand binding site [chemical binding]; other site 355278007113 flexible hinge region; other site 355278007114 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278007115 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278007116 Cupin domain; Region: Cupin_2; pfam07883 355278007117 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 355278007118 short chain dehydrogenase; Provisional; Region: PRK06197 355278007119 putative NAD(P) binding site [chemical binding]; other site 355278007120 active site 355278007121 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278007122 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 355278007123 putative active site [active] 355278007124 heme pocket [chemical binding]; other site 355278007125 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 355278007126 dimer interface [polypeptide binding]; other site 355278007127 phosphorylation site [posttranslational modification] 355278007128 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007129 ATP binding site [chemical binding]; other site 355278007130 Mg2+ binding site [ion binding]; other site 355278007131 G-X-G motif; other site 355278007132 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278007133 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 355278007134 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 355278007135 Catalytic domain of Protein Kinases; Region: PKc; cd00180 355278007136 active site 355278007137 ATP binding site [chemical binding]; other site 355278007138 substrate binding site [chemical binding]; other site 355278007139 activation loop (A-loop); other site 355278007140 AAA ATPase domain; Region: AAA_16; pfam13191 355278007141 Predicted ATPase [General function prediction only]; Region: COG3899 355278007142 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278007143 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278007144 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278007145 short chain dehydrogenase; Provisional; Region: PRK06172 355278007146 classical (c) SDRs; Region: SDR_c; cd05233 355278007147 NAD(P) binding site [chemical binding]; other site 355278007148 active site 355278007149 A-factor biosynthesis hotdog domain; Region: AfsA; pfam03756 355278007150 PilZ domain; Region: PilZ; pfam07238 355278007151 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 355278007152 Ligand Binding Site [chemical binding]; other site 355278007153 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 355278007154 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 355278007155 dimer interface [polypeptide binding]; other site 355278007156 conserved gate region; other site 355278007157 putative PBP binding loops; other site 355278007158 ABC-ATPase subunit interface; other site 355278007159 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 355278007160 dimer interface [polypeptide binding]; other site 355278007161 conserved gate region; other site 355278007162 putative PBP binding loops; other site 355278007163 ABC-ATPase subunit interface; other site 355278007164 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 355278007165 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278007166 Walker A/P-loop; other site 355278007167 ATP binding site [chemical binding]; other site 355278007168 Q-loop/lid; other site 355278007169 ABC transporter signature motif; other site 355278007170 Walker B; other site 355278007171 D-loop; other site 355278007172 H-loop/switch region; other site 355278007173 TOBE domain; Region: TOBE_2; pfam08402 355278007174 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 355278007175 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 355278007176 succinic semialdehyde dehydrogenase; Region: PLN02278 355278007177 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 355278007178 tetramerization interface [polypeptide binding]; other site 355278007179 NAD(P) binding site [chemical binding]; other site 355278007180 catalytic residues [active] 355278007181 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 355278007182 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 355278007183 inhibitor-cofactor binding pocket; inhibition site 355278007184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278007185 catalytic residue [active] 355278007186 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 355278007187 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 355278007188 tetrameric interface [polypeptide binding]; other site 355278007189 NAD binding site [chemical binding]; other site 355278007190 catalytic residues [active] 355278007191 substrate binding site [chemical binding]; other site 355278007192 Domain of unknown function (DUF389); Region: DUF389; pfam04087 355278007193 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 355278007194 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 355278007195 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355278007196 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 355278007197 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278007198 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278007199 ligand binding site [chemical binding]; other site 355278007200 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 355278007201 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278007202 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278007203 ABC transporter; Region: ABC_tran_2; pfam12848 355278007204 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278007205 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 355278007206 active site 355278007207 dimerization interface [polypeptide binding]; other site 355278007208 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 355278007209 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278007210 anti sigma factor interaction site; other site 355278007211 regulatory phosphorylation site [posttranslational modification]; other site 355278007212 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 355278007213 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278007214 active site 355278007215 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 355278007216 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355278007217 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 355278007218 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 355278007219 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 355278007220 putative active site [active] 355278007221 catalytic triad [active] 355278007222 putative dimer interface [polypeptide binding]; other site 355278007223 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 355278007224 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 355278007225 putative active site [active] 355278007226 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 355278007227 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278007228 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 355278007229 S-adenosylmethionine binding site [chemical binding]; other site 355278007230 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278007231 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 355278007232 binding surface 355278007233 TPR motif; other site 355278007234 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 355278007235 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 355278007236 Subunit I/III interface [polypeptide binding]; other site 355278007237 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 355278007238 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 355278007239 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 355278007240 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 355278007241 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 355278007242 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 355278007243 Cytochrome c; Region: Cytochrom_C; pfam00034 355278007244 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 355278007245 Cu(I) binding site [ion binding]; other site 355278007246 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 355278007247 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 355278007248 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 355278007249 UbiA prenyltransferase family; Region: UbiA; pfam01040 355278007250 Repair protein; Region: Repair_PSII; cl01535 355278007251 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 355278007252 Repair protein; Region: Repair_PSII; pfam04536 355278007253 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007254 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278007255 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 355278007256 Citrate synthase; Region: Citrate_synt; pfam00285 355278007257 oxalacetate binding site [chemical binding]; other site 355278007258 citrylCoA binding site [chemical binding]; other site 355278007259 coenzyme A binding site [chemical binding]; other site 355278007260 catalytic triad [active] 355278007261 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 355278007262 anti sigma factor interaction site; other site 355278007263 regulatory phosphorylation site [posttranslational modification]; other site 355278007264 Cytochrome c; Region: Cytochrom_C; pfam00034 355278007265 TIGR01777 family protein; Region: yfcH 355278007266 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 355278007267 putative NAD(P) binding site [chemical binding]; other site 355278007268 putative active site [active] 355278007269 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 355278007270 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 355278007271 metal ion-dependent adhesion site (MIDAS); other site 355278007272 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 355278007273 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278007274 active site 355278007275 AMP binding site [chemical binding]; other site 355278007276 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 355278007277 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355278007278 active site 355278007279 nucleotide binding site [chemical binding]; other site 355278007280 HIGH motif; other site 355278007281 KMSKS motif; other site 355278007282 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cd02019 355278007283 active site 355278007284 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 355278007285 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278007286 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 355278007287 putative acyl-acceptor binding pocket; other site 355278007288 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 355278007289 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 355278007290 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 355278007291 active site 355278007292 Response regulator receiver domain; Region: Response_reg; pfam00072 355278007293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007294 active site 355278007295 phosphorylation site [posttranslational modification] 355278007296 intermolecular recognition site; other site 355278007297 dimerization interface [polypeptide binding]; other site 355278007298 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 355278007299 substrate binding site [chemical binding]; other site 355278007300 multimerization interface [polypeptide binding]; other site 355278007301 ATP binding site [chemical binding]; other site 355278007302 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 355278007303 thiamine phosphate binding site [chemical binding]; other site 355278007304 active site 355278007305 pyrophosphate binding site [ion binding]; other site 355278007306 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 355278007307 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 355278007308 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 355278007309 active site 355278007310 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 355278007311 ligand binding site [chemical binding]; other site 355278007312 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 355278007313 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278007314 active site 355278007315 nucleophile elbow; other site 355278007316 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278007317 Protein of unknown function DUF86; Region: DUF86; cl01031 355278007318 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 355278007319 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 355278007320 YHYH protein; Region: YHYH; pfam14240 355278007321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278007322 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 355278007323 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 355278007324 Cu(I) binding site [ion binding]; other site 355278007325 ABC-2 type transporter; Region: ABC2_membrane; cl17235 355278007326 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 355278007327 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355278007328 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 355278007329 Walker A/P-loop; other site 355278007330 ATP binding site [chemical binding]; other site 355278007331 Q-loop/lid; other site 355278007332 ABC transporter signature motif; other site 355278007333 Walker B; other site 355278007334 D-loop; other site 355278007335 H-loop/switch region; other site 355278007336 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355278007337 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278007338 ABC transporter; Region: ABC_tran_2; pfam12848 355278007339 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 355278007340 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 355278007341 ATP-grasp domain; Region: ATP-grasp; pfam02222 355278007342 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 355278007343 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007344 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007345 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355278007346 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 355278007347 metal-binding site [ion binding] 355278007348 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278007349 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 355278007350 motif II; other site 355278007351 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 355278007352 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 355278007353 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 355278007354 DNA binding residues [nucleotide binding] 355278007355 dimer interface [polypeptide binding]; other site 355278007356 copper binding site [ion binding]; other site 355278007357 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 355278007358 catalytic triad [active] 355278007359 Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]; Region: RPL43A; COG1997 355278007360 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 355278007361 anti sigma factor interaction site; other site 355278007362 regulatory phosphorylation site [posttranslational modification]; other site 355278007363 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278007364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007365 active site 355278007366 phosphorylation site [posttranslational modification] 355278007367 intermolecular recognition site; other site 355278007368 dimerization interface [polypeptide binding]; other site 355278007369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007370 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007371 ATP binding site [chemical binding]; other site 355278007372 Mg2+ binding site [ion binding]; other site 355278007373 G-X-G motif; other site 355278007374 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 355278007375 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 355278007376 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 355278007377 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278007378 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 355278007379 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 355278007380 motif II; other site 355278007381 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 355278007382 short chain dehydrogenase; Provisional; Region: PRK06181 355278007383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278007384 NAD(P) binding site [chemical binding]; other site 355278007385 active site 355278007386 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 355278007387 integral membrane protein; Region: integ_memb_HG; TIGR03954 355278007388 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 355278007389 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278007390 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278007391 putative substrate translocation pore; other site 355278007392 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 355278007393 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 355278007394 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 355278007395 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 355278007396 GXWXG protein; Region: GXWXG; pfam14231 355278007397 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 355278007398 CoA binding domain; Region: CoA_binding; cl17356 355278007399 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 355278007400 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 355278007401 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 355278007402 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 355278007403 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 355278007404 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278007405 Sulfate transporter family; Region: Sulfate_transp; pfam00916 355278007406 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 355278007407 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 355278007408 [4Fe-4S] binding site [ion binding]; other site 355278007409 molybdopterin cofactor binding site; other site 355278007410 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 355278007411 molybdopterin cofactor binding site; other site 355278007412 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 355278007413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278007414 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 355278007415 nitrite reductase subunit NirD; Provisional; Region: PRK14989 355278007416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278007417 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 355278007418 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 355278007419 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355278007420 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 355278007421 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 355278007422 active site 355278007423 SAM binding site [chemical binding]; other site 355278007424 homodimer interface [polypeptide binding]; other site 355278007425 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 355278007426 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 355278007427 trimer interface [polypeptide binding]; other site 355278007428 dimer interface [polypeptide binding]; other site 355278007429 putative active site [active] 355278007430 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 355278007431 MPT binding site; other site 355278007432 trimer interface [polypeptide binding]; other site 355278007433 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 355278007434 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 355278007435 dimer interface [polypeptide binding]; other site 355278007436 putative functional site; other site 355278007437 putative MPT binding site; other site 355278007438 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 355278007439 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278007440 putative substrate translocation pore; other site 355278007441 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 355278007442 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 355278007443 putative [Fe4-S4] binding site [ion binding]; other site 355278007444 putative molybdopterin cofactor binding site [chemical binding]; other site 355278007445 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 355278007446 putative molybdopterin cofactor binding site; other site 355278007447 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 355278007448 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 355278007449 ATP binding site [chemical binding]; other site 355278007450 substrate interface [chemical binding]; other site 355278007451 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 355278007452 active site residue [active] 355278007453 Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]; Region: MoaA; COG2896 355278007454 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 355278007455 FeS/SAM binding site; other site 355278007456 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 355278007457 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 355278007458 MoaE homodimer interface [polypeptide binding]; other site 355278007459 MoaD interaction [polypeptide binding]; other site 355278007460 active site residues [active] 355278007461 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 355278007462 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 355278007463 GTP binding site; other site 355278007464 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 355278007465 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 355278007466 active site 355278007467 motif I; other site 355278007468 motif II; other site 355278007469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278007470 Histidine kinase; Region: HisKA_2; pfam07568 355278007471 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007472 ATP binding site [chemical binding]; other site 355278007473 Mg2+ binding site [ion binding]; other site 355278007474 G-X-G motif; other site 355278007475 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 355278007476 putative active site [active] 355278007477 Zn binding site [ion binding]; other site 355278007478 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278007479 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278007480 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355278007481 MarR family; Region: MarR_2; pfam12802 355278007482 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 355278007483 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 355278007484 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 355278007485 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 355278007486 active site 355278007487 OmpA family; Region: OmpA; pfam00691 355278007488 ligand binding site [chemical binding]; other site 355278007489 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 355278007490 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007491 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007492 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 355278007493 dimer interface [polypeptide binding]; other site 355278007494 phosphorylation site [posttranslational modification] 355278007495 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007496 ATP binding site [chemical binding]; other site 355278007497 Mg2+ binding site [ion binding]; other site 355278007498 G-X-G motif; other site 355278007499 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278007500 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278007501 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278007502 intermolecular salt bridges; other site 355278007503 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278007504 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 355278007505 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007507 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 355278007508 active site residue [active] 355278007509 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 355278007510 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 355278007511 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 355278007512 catalytic loop [active] 355278007513 iron binding site [ion binding]; other site 355278007514 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 355278007515 FAD binding pocket [chemical binding]; other site 355278007516 FAD binding motif [chemical binding]; other site 355278007517 phosphate binding motif [ion binding]; other site 355278007518 beta-alpha-beta structure motif; other site 355278007519 NAD binding pocket [chemical binding]; other site 355278007520 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 355278007521 Fatty acid desaturase; Region: FA_desaturase; pfam00487 355278007522 Di-iron ligands [ion binding]; other site 355278007523 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278007524 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278007525 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 355278007526 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 355278007527 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278007528 DNA binding residues [nucleotide binding] 355278007529 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 355278007530 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 355278007531 Herpesvirus UL46 protein; Region: Herpes_UL46; cl17368 355278007532 Thioredoxin; Region: Thioredoxin_4; pfam13462 355278007533 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355278007534 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 355278007535 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 355278007536 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007537 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278007538 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 355278007539 Bacterial SH3 domain; Region: SH3_3; cl17532 355278007540 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 355278007541 binding surface 355278007542 TPR motif; other site 355278007543 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 355278007544 binding surface 355278007545 TPR motif; other site 355278007546 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007548 DJ-1 family protein; Region: not_thiJ; TIGR01383 355278007549 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 355278007550 conserved cys residue [active] 355278007551 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 355278007552 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 355278007553 ATP binding site [chemical binding]; other site 355278007554 Mg++ binding site [ion binding]; other site 355278007555 motif III; other site 355278007556 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 355278007557 nucleotide binding region [chemical binding]; other site 355278007558 ATP-binding site [chemical binding]; other site 355278007559 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278007560 Coenzyme A binding pocket [chemical binding]; other site 355278007561 PEGA domain; Region: PEGA; pfam08308 355278007562 PEGA domain; Region: PEGA; pfam08308 355278007563 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 355278007564 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 355278007565 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 355278007566 conserved gate region; other site 355278007567 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 355278007568 active site 355278007569 phosphorylation site [posttranslational modification] 355278007570 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 355278007571 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 355278007572 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 355278007573 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 355278007574 DXD motif; other site 355278007575 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355278007576 flagellar motor protein MotA; Validated; Region: PRK08124 355278007577 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 355278007578 S-adenosylmethionine binding site [chemical binding]; other site 355278007579 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 355278007580 RNA/DNA hybrid binding site [nucleotide binding]; other site 355278007581 active site 355278007582 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355278007583 metal binding site 2 [ion binding]; metal-binding site 355278007584 putative DNA binding helix; other site 355278007585 metal binding site 1 [ion binding]; metal-binding site 355278007586 dimer interface [polypeptide binding]; other site 355278007587 structural Zn2+ binding site [ion binding]; other site 355278007588 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 355278007589 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 355278007590 active site 355278007591 NTP binding site [chemical binding]; other site 355278007592 metal binding triad [ion binding]; metal-binding site 355278007593 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 355278007594 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 355278007595 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 355278007596 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 355278007597 dimerization interface [polypeptide binding]; other site 355278007598 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278007599 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278007600 dimer interface [polypeptide binding]; other site 355278007601 putative CheW interface [polypeptide binding]; other site 355278007602 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 355278007603 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 355278007604 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 355278007605 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 355278007606 nucleotide binding region [chemical binding]; other site 355278007607 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 355278007608 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 355278007609 catalytic triad [active] 355278007610 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278007611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 355278007612 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 355278007613 HDOD domain; Region: HDOD; pfam08668 355278007614 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278007615 Zn2+ binding site [ion binding]; other site 355278007616 Mg2+ binding site [ion binding]; other site 355278007617 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 355278007618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278007619 Walker A/P-loop; other site 355278007620 ATP binding site [chemical binding]; other site 355278007621 Q-loop/lid; other site 355278007622 ABC transporter signature motif; other site 355278007623 Walker B; other site 355278007624 D-loop; other site 355278007625 H-loop/switch region; other site 355278007626 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 355278007627 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 355278007628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 355278007629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 355278007630 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278007631 extended (e) SDRs; Region: SDR_e; cd08946 355278007632 NAD(P) binding site [chemical binding]; other site 355278007633 active site 355278007634 substrate binding site [chemical binding]; other site 355278007635 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 355278007636 dimerization interface [polypeptide binding]; other site 355278007637 putative DNA binding site [nucleotide binding]; other site 355278007638 putative Zn2+ binding site [ion binding]; other site 355278007639 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 355278007640 Low molecular weight phosphatase family; Region: LMWPc; cd00115 355278007641 active site 355278007642 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 355278007643 arsenical-resistance protein; Region: acr3; TIGR00832 355278007644 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 355278007645 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 355278007646 putative active site [active] 355278007647 putative FMN binding site [chemical binding]; other site 355278007648 putative substrate binding site [chemical binding]; other site 355278007649 putative catalytic residue [active] 355278007650 GAF domain; Region: GAF; pfam01590 355278007651 GAF domain; Region: GAF_2; pfam13185 355278007652 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278007653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278007654 metal binding site [ion binding]; metal-binding site 355278007655 active site 355278007656 I-site; other site 355278007657 PAS fold; Region: PAS_3; pfam08447 355278007658 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 355278007659 heme pocket [chemical binding]; other site 355278007660 putative active site [active] 355278007661 PAS domain; Region: PAS_9; pfam13426 355278007662 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 355278007663 putative active site [active] 355278007664 heme pocket [chemical binding]; other site 355278007665 PAS domain S-box; Region: sensory_box; TIGR00229 355278007666 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 355278007667 putative active site [active] 355278007668 heme pocket [chemical binding]; other site 355278007669 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 355278007670 phosphorylation site [posttranslational modification] 355278007671 dimer interface [polypeptide binding]; other site 355278007672 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 355278007673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 355278007674 Coenzyme A binding pocket [chemical binding]; other site 355278007675 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278007676 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278007677 active site 355278007678 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278007679 PGAP1-like protein; Region: PGAP1; pfam07819 355278007680 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355278007681 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 355278007682 NADP binding site [chemical binding]; other site 355278007683 substrate binding site [chemical binding]; other site 355278007684 active site 355278007685 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 355278007686 putative hydrophobic ligand binding site [chemical binding]; other site 355278007687 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 355278007688 dimerization interface [polypeptide binding]; other site 355278007689 putative DNA binding site [nucleotide binding]; other site 355278007690 putative Zn2+ binding site [ion binding]; other site 355278007691 Rhomboid family; Region: Rhomboid; cl11446 355278007692 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 355278007693 active site 355278007694 GAF domain; Region: GAF_2; pfam13185 355278007695 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278007696 cyclase homology domain; Region: CHD; cd07302 355278007697 nucleotidyl binding site; other site 355278007698 metal binding site [ion binding]; metal-binding site 355278007699 dimer interface [polypeptide binding]; other site 355278007700 isocitrate dehydrogenase; Validated; Region: PRK08299 355278007701 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 355278007702 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 355278007703 S-adenosylmethionine binding site [chemical binding]; other site 355278007704 TPR repeat; Region: TPR_11; pfam13414 355278007705 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 355278007706 binding surface 355278007707 TPR motif; other site 355278007708 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278007709 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 355278007710 binding surface 355278007711 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355278007712 TPR motif; other site 355278007713 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 355278007714 binding surface 355278007715 TPR motif; other site 355278007716 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 355278007717 binding surface 355278007718 TPR motif; other site 355278007719 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 355278007720 TPR motif; other site 355278007721 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278007722 binding surface 355278007723 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 355278007724 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 355278007725 binding surface 355278007726 TPR motif; other site 355278007727 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 355278007728 binding surface 355278007729 TPR motif; other site 355278007730 PEGA domain; Region: PEGA; pfam08308 355278007731 PEGA domain; Region: PEGA; pfam08308 355278007732 FecR protein; Region: FecR; pfam04773 355278007733 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 355278007734 RNA binding site [nucleotide binding]; other site 355278007735 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 355278007736 GTPase/Zn-binding domain interface [polypeptide binding]; other site 355278007737 GTP/Mg2+ binding site [chemical binding]; other site 355278007738 G4 box; other site 355278007739 G5 box; other site 355278007740 G1 box; other site 355278007741 Switch I region; other site 355278007742 G2 box; other site 355278007743 G3 box; other site 355278007744 Switch II region; other site 355278007745 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 355278007746 dimer interface [polypeptide binding]; other site 355278007747 phosphorylation site [posttranslational modification] 355278007748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007749 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007750 ATP binding site [chemical binding]; other site 355278007751 Mg2+ binding site [ion binding]; other site 355278007752 G-X-G motif; other site 355278007753 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 355278007754 Fatty acid desaturase; Region: FA_desaturase; pfam00487 355278007755 Di-iron ligands [ion binding]; other site 355278007756 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 355278007757 dimer interface [polypeptide binding]; other site 355278007758 catalytic triad [active] 355278007759 peroxidatic and resolving cysteines [active] 355278007760 AAA domain; Region: AAA_23; pfam13476 355278007761 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 355278007762 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 355278007763 ATP binding site [chemical binding]; other site 355278007764 Q-loop/lid; other site 355278007765 ABC transporter signature motif; other site 355278007766 Walker B; other site 355278007767 D-loop; other site 355278007768 H-loop/switch region; other site 355278007769 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 355278007770 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278007771 active site 355278007772 metal binding site [ion binding]; metal-binding site 355278007773 DNA binding site [nucleotide binding] 355278007774 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 355278007775 CoA-transferase family III; Region: CoA_transf_3; pfam02515 355278007776 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355278007777 Sulfatase; Region: Sulfatase; cl17466 355278007778 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 355278007779 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278007780 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278007781 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 355278007782 putative active site [active] 355278007783 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 355278007784 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355278007785 Uncharacterized conserved protein (COG2071); Region: DUF2071; pfam09844 355278007786 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278007787 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 355278007788 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278007789 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278007790 Putative methyltransferase; Region: Methyltransf_4; cl17290 355278007791 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278007792 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 355278007793 S-adenosylmethionine binding site [chemical binding]; other site 355278007794 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 355278007795 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 355278007796 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 355278007797 Protein of unknown function (DUF342); Region: DUF342; pfam03961 355278007798 Transcriptional activator; Region: Transcrip_act; pfam04949 355278007799 methionine sulfoxide reductase A; Provisional; Region: PRK14054 355278007800 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 355278007801 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 355278007802 CHAT domain; Region: CHAT; pfam12770 355278007803 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278007804 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278007805 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355278007806 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278007807 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 355278007808 acyl-activating enzyme (AAE) consensus motif; other site 355278007809 acyl-activating enzyme (AAE) consensus motif; other site 355278007810 putative AMP binding site [chemical binding]; other site 355278007811 putative active site [active] 355278007812 putative CoA binding site [chemical binding]; other site 355278007813 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278007814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007815 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 355278007816 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 355278007817 active site 355278007818 PHP Thumb interface [polypeptide binding]; other site 355278007819 metal binding site [ion binding]; metal-binding site 355278007820 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 355278007821 generic binding surface I; other site 355278007822 generic binding surface II; other site 355278007823 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 355278007824 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 355278007825 putative dimer interface [polypeptide binding]; other site 355278007826 active site pocket [active] 355278007827 putative cataytic base [active] 355278007828 cobalamin synthase; Reviewed; Region: cobS; PRK00235 355278007829 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 355278007830 catalytic core [active] 355278007831 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 355278007832 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 355278007833 GatB domain; Region: GatB_Yqey; smart00845 355278007834 Hemerythrin; Region: Hemerythrin; cd12107 355278007835 Fe binding site [ion binding]; other site 355278007836 Hemerythrin; Region: Hemerythrin; cd12107 355278007837 Fe binding site [ion binding]; other site 355278007838 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 355278007839 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 355278007840 NAD(P) binding site [chemical binding]; other site 355278007841 catalytic residues [active] 355278007842 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 355278007843 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007844 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278007845 cyclase homology domain; Region: CHD; cd07302 355278007846 nucleotidyl binding site; other site 355278007847 metal binding site [ion binding]; metal-binding site 355278007848 dimer interface [polypeptide binding]; other site 355278007849 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007850 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278007851 cyclase homology domain; Region: CHD; cd07302 355278007852 nucleotidyl binding site; other site 355278007853 metal binding site [ion binding]; metal-binding site 355278007854 dimer interface [polypeptide binding]; other site 355278007855 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 355278007856 FliG C-terminal domain; Region: FliG_C; pfam01706 355278007857 flagellar assembly protein H; Validated; Region: fliH; PRK06669 355278007858 Flagellar assembly protein FliH; Region: FliH; pfam02108 355278007859 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007860 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007861 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007862 ATP binding site [chemical binding]; other site 355278007863 Mg2+ binding site [ion binding]; other site 355278007864 G-X-G motif; other site 355278007865 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 355278007866 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007867 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 355278007868 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278007869 ligand binding site [chemical binding]; other site 355278007870 flexible hinge region; other site 355278007871 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 355278007872 putative switch regulator; other site 355278007873 non-specific DNA interactions [nucleotide binding]; other site 355278007874 DNA binding site [nucleotide binding] 355278007875 sequence specific DNA binding site [nucleotide binding]; other site 355278007876 putative cAMP binding site [chemical binding]; other site 355278007877 NnrS protein; Region: NnrS; pfam05940 355278007878 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 355278007879 metal ion-dependent adhesion site (MIDAS); other site 355278007880 MoxR-like ATPases [General function prediction only]; Region: COG0714 355278007881 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 355278007882 Walker A motif; other site 355278007883 ATP binding site [chemical binding]; other site 355278007884 Walker B motif; other site 355278007885 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 355278007886 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 355278007887 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 355278007888 Binuclear center (active site) [active] 355278007889 K-pathway; other site 355278007890 Putative proton exit pathway; other site 355278007891 Cytochrome c; Region: Cytochrom_C; pfam00034 355278007892 Cytochrome c; Region: Cytochrom_C; pfam00034 355278007893 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 355278007894 Subunit I/III interface [polypeptide binding]; other site 355278007895 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 355278007896 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 355278007897 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278007898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278007899 putative substrate translocation pore; other site 355278007900 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 355278007901 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 355278007902 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 355278007903 TPR motif; other site 355278007904 binding surface 355278007905 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 355278007906 binding surface 355278007907 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278007908 TPR motif; other site 355278007909 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 355278007910 binding surface 355278007911 TPR motif; other site 355278007912 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 355278007913 glycogen binding site [chemical binding]; other site 355278007914 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 355278007915 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 355278007916 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 355278007917 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 355278007918 PYR/PP interface [polypeptide binding]; other site 355278007919 dimer interface [polypeptide binding]; other site 355278007920 TPP binding site [chemical binding]; other site 355278007921 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355278007922 S-adenosylmethionine synthetase; Validated; Region: PRK05250 355278007923 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 355278007924 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 355278007925 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 355278007926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 355278007927 putative acyl-acceptor binding pocket; other site 355278007928 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 355278007929 NADH(P)-binding; Region: NAD_binding_10; pfam13460 355278007930 NAD binding site [chemical binding]; other site 355278007931 active site 355278007932 PilZ domain; Region: PilZ; cl01260 355278007933 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278007934 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 355278007935 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 355278007936 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 355278007937 dimer interface [polypeptide binding]; other site 355278007938 ssDNA binding site [nucleotide binding]; other site 355278007939 tetramer (dimer of dimers) interface [polypeptide binding]; other site 355278007940 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 355278007941 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278007942 putative active site [active] 355278007943 heme pocket [chemical binding]; other site 355278007944 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 355278007945 putative active site [active] 355278007946 heme pocket [chemical binding]; other site 355278007947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278007948 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278007949 ATP binding site [chemical binding]; other site 355278007950 Mg2+ binding site [ion binding]; other site 355278007951 G-X-G motif; other site 355278007952 Response regulator receiver domain; Region: Response_reg; pfam00072 355278007953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278007954 active site 355278007955 phosphorylation site [posttranslational modification] 355278007956 intermolecular recognition site; other site 355278007957 dimerization interface [polypeptide binding]; other site 355278007958 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 355278007959 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 355278007960 active site 355278007961 FMN binding site [chemical binding]; other site 355278007962 substrate binding site [chemical binding]; other site 355278007963 3Fe-4S cluster binding site [ion binding]; other site 355278007964 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278007965 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278007966 cyclase homology domain; Region: CHD; cd07302 355278007967 nucleotidyl binding site; other site 355278007968 metal binding site [ion binding]; metal-binding site 355278007969 dimer interface [polypeptide binding]; other site 355278007970 ethanolamine permease; Region: 2A0305; TIGR00908 355278007971 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 355278007972 Photosystem I reaction centre subunit XI; Region: PsaL; cl03651 355278007973 Repair protein; Region: Repair_PSII; pfam04536 355278007974 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 355278007975 hypothetical protein; Provisional; Region: PRK07758 355278007976 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 355278007977 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 355278007978 Interdomain contacts; other site 355278007979 Cytokine receptor motif; other site 355278007980 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 355278007981 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 355278007982 active site 355278007983 substrate-binding site [chemical binding]; other site 355278007984 metal-binding site [ion binding] 355278007985 ATP binding site [chemical binding]; other site 355278007986 glycogen synthase; Provisional; Region: glgA; PRK00654 355278007987 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 355278007988 ADP-binding pocket [chemical binding]; other site 355278007989 homodimer interface [polypeptide binding]; other site 355278007990 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 355278007991 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 355278007992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278007993 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 355278007994 Cupin; Region: Cupin_6; pfam12852 355278007995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007996 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 355278007997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278007998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278007999 NADH(P)-binding; Region: NAD_binding_10; pfam13460 355278008000 NAD(P) binding site [chemical binding]; other site 355278008001 active site 355278008002 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 355278008003 hypothetical protein; Provisional; Region: PRK10318 355278008004 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 355278008005 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008006 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008007 Sulfatase; Region: Sulfatase; cl17466 355278008008 Transglycosylase; Region: Transgly; pfam00912 355278008009 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 355278008010 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 355278008011 MG2 domain; Region: A2M_N; pfam01835 355278008012 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 355278008013 Alpha-2-macroglobulin family; Region: A2M; pfam00207 355278008014 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 355278008015 PAS fold; Region: PAS_3; pfam08447 355278008016 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278008017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278008018 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 355278008019 dimer interface [polypeptide binding]; other site 355278008020 phosphorylation site [posttranslational modification] 355278008021 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008022 ATP binding site [chemical binding]; other site 355278008023 Mg2+ binding site [ion binding]; other site 355278008024 G-X-G motif; other site 355278008025 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008027 active site 355278008028 phosphorylation site [posttranslational modification] 355278008029 intermolecular recognition site; other site 355278008030 dimerization interface [polypeptide binding]; other site 355278008031 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 355278008032 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 355278008033 catalytic residue [active] 355278008034 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355278008035 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278008036 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278008037 peroxiredoxin; Region: AhpC; TIGR03137 355278008038 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 355278008039 dimer interface [polypeptide binding]; other site 355278008040 decamer (pentamer of dimers) interface [polypeptide binding]; other site 355278008041 catalytic triad [active] 355278008042 peroxidatic and resolving cysteines [active] 355278008043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 355278008044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 355278008045 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 355278008046 dimerization interface [polypeptide binding]; other site 355278008047 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278008048 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278008049 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278008050 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 355278008051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008052 active site 355278008053 phosphorylation site [posttranslational modification] 355278008054 intermolecular recognition site; other site 355278008055 dimerization interface [polypeptide binding]; other site 355278008056 LytTr DNA-binding domain; Region: LytTR; pfam04397 355278008057 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 355278008058 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 355278008059 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 355278008060 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 355278008061 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 355278008062 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 355278008063 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 355278008064 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278008065 Histidine kinase; Region: His_kinase; pfam06580 355278008066 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355278008067 ATP binding site [chemical binding]; other site 355278008068 Mg2+ binding site [ion binding]; other site 355278008069 G-X-G motif; other site 355278008070 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 355278008071 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 355278008072 Cu(I) binding site [ion binding]; other site 355278008073 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 355278008074 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 355278008075 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 355278008076 putative pectinesterase; Region: PLN02432; cl01911 355278008077 Right handed beta helix region; Region: Beta_helix; pfam13229 355278008078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008080 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 355278008081 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 355278008082 Walker A/P-loop; other site 355278008083 ATP binding site [chemical binding]; other site 355278008084 Q-loop/lid; other site 355278008085 ABC transporter signature motif; other site 355278008086 Walker B; other site 355278008087 D-loop; other site 355278008088 H-loop/switch region; other site 355278008089 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278008090 FtsX-like permease family; Region: FtsX; pfam02687 355278008091 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278008092 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 355278008093 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278008094 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 355278008095 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 355278008096 Repair protein; Region: Repair_PSII; pfam04536 355278008097 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 355278008098 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278008099 Sulfate transporter family; Region: Sulfate_transp; pfam00916 355278008100 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278008101 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278008102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355278008103 Domain of unknown function (DUF897); Region: DUF897; pfam05982 355278008104 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355278008105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008106 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008107 WHG domain; Region: WHG; pfam13305 355278008108 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278008109 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 355278008110 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 355278008111 S-adenosylmethionine binding site [chemical binding]; other site 355278008112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 355278008113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 355278008114 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 355278008115 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278008116 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 355278008117 ligand binding site [chemical binding]; other site 355278008118 flexible hinge region; other site 355278008119 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278008120 cyclase homology domain; Region: CHD; cd07302 355278008121 nucleotidyl binding site; other site 355278008122 metal binding site [ion binding]; metal-binding site 355278008123 dimer interface [polypeptide binding]; other site 355278008124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 355278008125 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008126 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008127 WHG domain; Region: WHG; pfam13305 355278008128 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_HprK; cl00270 355278008129 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 355278008130 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 355278008131 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 355278008132 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278008133 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 355278008134 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 355278008135 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 355278008136 NAD(P) binding site [chemical binding]; other site 355278008137 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 355278008138 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 355278008139 Protein of unknown function (DUF497); Region: DUF497; pfam04365 355278008140 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 355278008141 S-adenosylmethionine binding site [chemical binding]; other site 355278008142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355278008143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355278008144 PemK-like protein; Region: PemK; pfam02452 355278008145 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 355278008146 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 355278008147 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278008148 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278008149 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 355278008150 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278008151 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278008152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355278008153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355278008154 rod shape-determining protein MreC; Provisional; Region: PRK13922 355278008155 rod shape-determining protein MreC; Region: MreC; pfam04085 355278008156 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 355278008157 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 355278008158 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 355278008159 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355278008160 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355278008161 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 355278008162 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 355278008163 active site 355278008164 Riboflavin kinase; Region: Flavokinase; pfam01687 355278008165 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 355278008166 anti sigma factor interaction site; other site 355278008167 regulatory phosphorylation site [posttranslational modification]; other site 355278008168 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 355278008169 HSP70 interaction site [polypeptide binding]; other site 355278008170 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 355278008171 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 355278008172 Pirin-related protein [General function prediction only]; Region: COG1741 355278008173 Pirin; Region: Pirin; pfam02678 355278008174 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 355278008175 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 355278008176 putative hydrophobic ligand binding site [chemical binding]; other site 355278008177 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 355278008178 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278008179 putative substrate translocation pore; other site 355278008180 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355278008181 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 355278008182 dimer interface [polypeptide binding]; other site 355278008183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278008184 catalytic residue [active] 355278008185 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278008186 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278008187 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 355278008188 Helix-turn-helix domain; Region: HTH_38; pfam13936 355278008189 Integrase core domain; Region: rve; pfam00665 355278008190 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 355278008191 Cytochrome c; Region: Cytochrom_C; pfam00034 355278008192 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 355278008193 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278008194 acyl-activating enzyme (AAE) consensus motif; other site 355278008195 AMP binding site [chemical binding]; other site 355278008196 active site 355278008197 CoA binding site [chemical binding]; other site 355278008198 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278008199 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278008200 Outer membrane efflux protein; Region: OEP; pfam02321 355278008201 Outer membrane efflux protein; Region: OEP; pfam02321 355278008202 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278008203 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 355278008204 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278008205 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278008206 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 355278008207 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278008208 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 355278008209 active site 355278008210 Fatty acid desaturase; Region: FA_desaturase; pfam00487 355278008211 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 355278008212 putative di-iron ligands [ion binding]; other site 355278008213 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 355278008214 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 355278008215 FAD binding pocket [chemical binding]; other site 355278008216 FAD binding motif [chemical binding]; other site 355278008217 phosphate binding motif [ion binding]; other site 355278008218 beta-alpha-beta structure motif; other site 355278008219 NAD binding pocket [chemical binding]; other site 355278008220 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 355278008221 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 355278008222 catalytic loop [active] 355278008223 iron binding site [ion binding]; other site 355278008224 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 355278008225 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008226 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278008227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008228 active site 355278008229 phosphorylation site [posttranslational modification] 355278008230 intermolecular recognition site; other site 355278008231 dimerization interface [polypeptide binding]; other site 355278008232 PAS domain S-box; Region: sensory_box; TIGR00229 355278008233 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 355278008234 putative active site [active] 355278008235 heme pocket [chemical binding]; other site 355278008236 PAS domain S-box; Region: sensory_box; TIGR00229 355278008237 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278008238 Histidine kinase; Region: HisKA_2; pfam07568 355278008239 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008240 ATP binding site [chemical binding]; other site 355278008241 Mg2+ binding site [ion binding]; other site 355278008242 G-X-G motif; other site 355278008243 TRL-like protein family; Region: TRL; pfam13146 355278008244 TRL-like protein family; Region: TRL; pfam13146 355278008245 TRL-like protein family; Region: TRL; pfam13146 355278008246 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 355278008247 active site 355278008248 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 355278008249 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 355278008250 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 355278008251 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278008252 putative NAD(P) binding site [chemical binding]; other site 355278008253 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278008254 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 355278008255 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 355278008256 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 355278008257 putative NAD(P) binding site [chemical binding]; other site 355278008258 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 355278008259 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 355278008260 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278008261 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278008262 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278008263 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 355278008264 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 355278008265 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 355278008266 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 355278008267 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 355278008268 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 355278008269 AAA domain; Region: AAA_33; pfam13671 355278008270 AAA domain; Region: AAA_17; pfam13207 355278008271 fumarate hydratase; Reviewed; Region: fumC; PRK00485 355278008272 Class II fumarases; Region: Fumarase_classII; cd01362 355278008273 active site 355278008274 tetramer interface [polypeptide binding]; other site 355278008275 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 355278008276 putative hydrophobic ligand binding site [chemical binding]; other site 355278008277 putative Hsp90 binding residues [polypeptide binding]; other site 355278008278 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 355278008279 S-adenosylmethionine binding site [chemical binding]; other site 355278008280 Escherichia coli YaeB and related proteins; Region: UPF0066; cl00749 355278008281 homodimer interaction site [polypeptide binding]; other site 355278008282 cofactor binding site; other site 355278008283 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 355278008284 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 355278008285 L-aspartate oxidase; Provisional; Region: PRK06175 355278008286 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355278008287 fumarate hydratase; Provisional; Region: PRK15389 355278008288 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 355278008289 Fumarase C-terminus; Region: Fumerase_C; pfam05683 355278008290 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278008291 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 355278008292 S-adenosylmethionine binding site [chemical binding]; other site 355278008293 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 355278008294 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 355278008295 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278008296 Soluble P-type ATPase [General function prediction only]; Region: COG4087 355278008297 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278008298 Outer membrane efflux protein; Region: OEP; pfam02321 355278008299 Outer membrane efflux protein; Region: OEP; pfam02321 355278008300 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 355278008301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008303 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 355278008304 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278008305 ligand binding site [chemical binding]; other site 355278008306 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 355278008307 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 355278008308 RNA binding surface [nucleotide binding]; other site 355278008309 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 355278008310 active site 355278008311 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 355278008312 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 355278008313 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278008314 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278008315 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 355278008316 dimer interface [polypeptide binding]; other site 355278008317 phosphorylation site [posttranslational modification] 355278008318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008319 ATP binding site [chemical binding]; other site 355278008320 Mg2+ binding site [ion binding]; other site 355278008321 G-X-G motif; other site 355278008322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008323 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008324 active site 355278008325 phosphorylation site [posttranslational modification] 355278008326 intermolecular recognition site; other site 355278008327 dimerization interface [polypeptide binding]; other site 355278008328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355278008329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008330 active site 355278008331 phosphorylation site [posttranslational modification] 355278008332 intermolecular recognition site; other site 355278008333 dimerization interface [polypeptide binding]; other site 355278008334 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 355278008335 DNA binding residues [nucleotide binding] 355278008336 dimerization interface [polypeptide binding]; other site 355278008337 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 355278008338 catalytic core [active] 355278008339 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278008340 active site 355278008341 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 355278008342 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 355278008343 dimerization interface [polypeptide binding]; other site 355278008344 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278008345 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278008346 ligand binding site [chemical binding]; other site 355278008347 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 355278008348 putative acyl-acceptor binding pocket; other site 355278008349 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355278008350 Sulfatase; Region: Sulfatase; pfam00884 355278008351 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 355278008352 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 355278008353 (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 355278008354 active site 355278008355 catalytic site [active] 355278008356 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 355278008357 active site 355278008358 catalytic site [active] 355278008359 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 355278008360 VanW like protein; Region: VanW; pfam04294 355278008361 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 355278008362 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 355278008363 catalytic residues [active] 355278008364 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 355278008365 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278008366 ligand binding site [chemical binding]; other site 355278008367 flexible hinge region; other site 355278008368 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 355278008369 potential catalytic triad [active] 355278008370 conserved cys residue [active] 355278008371 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 355278008372 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355278008373 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 355278008374 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 355278008375 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 355278008376 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 355278008377 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 355278008378 NADP binding site [chemical binding]; other site 355278008379 putative substrate binding site [chemical binding]; other site 355278008380 active site 355278008381 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 355278008382 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 355278008383 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 355278008384 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR3; cd08275 355278008385 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278008386 putative NAD(P) binding site [chemical binding]; other site 355278008387 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 355278008388 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 355278008389 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 355278008390 lipoyl attachment site [posttranslational modification]; other site 355278008391 glycine dehydrogenase; Provisional; Region: PRK05367 355278008392 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 355278008393 tetramer interface [polypeptide binding]; other site 355278008394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278008395 catalytic residue [active] 355278008396 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 355278008397 tetramer interface [polypeptide binding]; other site 355278008398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278008399 catalytic residue [active] 355278008400 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 355278008401 dimer interface [polypeptide binding]; other site 355278008402 [2Fe-2S] cluster binding site [ion binding]; other site 355278008403 Cytochrome c; Region: Cytochrom_C; pfam00034 355278008404 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 355278008405 active site 355278008406 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 355278008407 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 355278008408 B12 binding site [chemical binding]; other site 355278008409 cobalt ligand [ion binding]; other site 355278008410 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 355278008411 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 355278008412 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 355278008413 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355278008414 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355278008415 putative acyl-acceptor binding pocket; other site 355278008416 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 355278008417 active site 355278008418 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 355278008419 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 355278008420 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 355278008421 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008423 active site 355278008424 phosphorylation site [posttranslational modification] 355278008425 intermolecular recognition site; other site 355278008426 dimerization interface [polypeptide binding]; other site 355278008427 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278008428 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 355278008429 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 355278008430 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 355278008431 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 355278008432 protein binding site [polypeptide binding]; other site 355278008433 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 355278008434 active site residue [active] 355278008435 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 355278008436 active site residue [active] 355278008437 alpha-glucosidase; Provisional; Region: PRK10426 355278008438 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 355278008439 putative active site [active] 355278008440 putative catalytic site [active] 355278008441 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355278008442 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355278008443 active site 355278008444 metal binding site [ion binding]; metal-binding site 355278008445 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 355278008446 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 355278008447 putative acyl-acceptor binding pocket; other site 355278008448 carbon storage regulator; Provisional; Region: PRK01712 355278008449 flagellar assembly protein FliW; Provisional; Region: PRK13285 355278008450 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 355278008451 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355278008452 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 355278008453 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 355278008454 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 355278008455 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 355278008456 FlgN protein; Region: FlgN; pfam05130 355278008457 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 355278008458 Protein of unknown function (DUF962); Region: DUF962; pfam06127 355278008459 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 355278008460 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355278008461 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278008462 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 355278008463 DNA binding residues [nucleotide binding] 355278008464 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355278008465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008466 active site 355278008467 phosphorylation site [posttranslational modification] 355278008468 intermolecular recognition site; other site 355278008469 dimerization interface [polypeptide binding]; other site 355278008470 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 355278008471 DNA binding site [nucleotide binding] 355278008472 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 355278008473 dimerization interface [polypeptide binding]; other site 355278008474 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355278008475 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 355278008476 dimer interface [polypeptide binding]; other site 355278008477 phosphorylation site [posttranslational modification] 355278008478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008479 ATP binding site [chemical binding]; other site 355278008480 Mg2+ binding site [ion binding]; other site 355278008481 G-X-G motif; other site 355278008482 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 355278008483 heterotetramer interface [polypeptide binding]; other site 355278008484 active site pocket [active] 355278008485 cleavage site 355278008486 GAF domain; Region: GAF_2; pfam13185 355278008487 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278008488 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 355278008489 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278008490 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 355278008491 NAD binding site [chemical binding]; other site 355278008492 putative substrate binding site 2 [chemical binding]; other site 355278008493 putative substrate binding site 1 [chemical binding]; other site 355278008494 active site 355278008495 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 355278008496 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 355278008497 ligand binding site [chemical binding]; other site 355278008498 homodimer interface [polypeptide binding]; other site 355278008499 NAD(P) binding site [chemical binding]; other site 355278008500 trimer interface B [polypeptide binding]; other site 355278008501 trimer interface A [polypeptide binding]; other site 355278008502 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 355278008503 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 355278008504 putative acyl-acceptor binding pocket; other site 355278008505 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 355278008506 active site 355278008507 histidyl-tRNA synthetase; Region: hisS; TIGR00442 355278008508 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 355278008509 dimer interface [polypeptide binding]; other site 355278008510 motif 1; other site 355278008511 active site 355278008512 motif 2; other site 355278008513 motif 3; other site 355278008514 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 355278008515 anticodon binding site; other site 355278008516 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355278008517 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278008518 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278008519 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278008520 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278008521 ligand binding site [chemical binding]; other site 355278008522 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 355278008523 dihydropteroate synthase; Region: DHPS; TIGR01496 355278008524 substrate binding pocket [chemical binding]; other site 355278008525 dimer interface [polypeptide binding]; other site 355278008526 inhibitor binding site; inhibition site 355278008527 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 355278008528 binding surface 355278008529 TPR repeat; Region: TPR_11; pfam13414 355278008530 TPR motif; other site 355278008531 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 355278008532 TPR repeat; Region: TPR_11; pfam13414 355278008533 binding surface 355278008534 TPR motif; other site 355278008535 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 355278008536 binding surface 355278008537 TPR motif; other site 355278008538 TPR repeat; Region: TPR_11; pfam13414 355278008539 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 355278008540 binding surface 355278008541 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008542 TPR motif; other site 355278008543 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008544 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 355278008545 rare lipoprotein A; Region: rlpA; TIGR00413 355278008546 Sporulation related domain; Region: SPOR; pfam05036 355278008547 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355278008548 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 355278008549 dimerization interface [polypeptide binding]; other site 355278008550 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278008551 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008552 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 355278008553 binding surface 355278008554 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008555 TPR motif; other site 355278008556 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008557 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278008558 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278008559 dimer interface [polypeptide binding]; other site 355278008560 putative CheW interface [polypeptide binding]; other site 355278008561 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 355278008562 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 355278008563 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 355278008564 trimer interface [polypeptide binding]; other site 355278008565 active site 355278008566 enoyl-CoA hydratase; Provisional; Region: PRK07657 355278008567 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 355278008568 substrate binding site [chemical binding]; other site 355278008569 oxyanion hole (OAH) forming residues; other site 355278008570 trimer interface [polypeptide binding]; other site 355278008571 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278008572 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 355278008573 active site 355278008574 metal binding site [ion binding]; metal-binding site 355278008575 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 355278008576 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 355278008577 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355278008578 putative substrate translocation pore; other site 355278008579 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278008580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008581 NAD(P) binding site [chemical binding]; other site 355278008582 active site 355278008583 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 355278008584 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 355278008585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355278008586 homodimer interface [polypeptide binding]; other site 355278008587 catalytic residue [active] 355278008588 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 355278008589 Patatin-like phospholipase; Region: Patatin; pfam01734 355278008590 active site 355278008591 nucleophile elbow; other site 355278008592 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 355278008593 Peptidase family M48; Region: Peptidase_M48; pfam01435 355278008594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008595 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 355278008596 NAD(P) binding site [chemical binding]; other site 355278008597 active site 355278008598 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 355278008599 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278008600 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278008601 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 355278008602 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278008603 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 355278008604 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 355278008605 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 355278008606 active site 355278008607 dimerization interface [polypeptide binding]; other site 355278008608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 355278008609 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 355278008610 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 355278008611 active site 355278008612 Int/Topo IB signature motif; other site 355278008613 catalytic residues [active] 355278008614 DNA binding site [nucleotide binding] 355278008615 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 355278008616 anti sigma factor interaction site; other site 355278008617 regulatory phosphorylation site [posttranslational modification]; other site 355278008618 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 355278008619 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 355278008620 nucleotide binding site [chemical binding]; other site 355278008621 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 355278008622 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 355278008623 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355278008624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008625 NAD(P) binding site [chemical binding]; other site 355278008626 active site 355278008627 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 355278008628 FAD binding site [chemical binding]; other site 355278008629 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 355278008630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008631 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008632 active site 355278008633 phosphorylation site [posttranslational modification] 355278008634 intermolecular recognition site; other site 355278008635 dimerization interface [polypeptide binding]; other site 355278008636 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355278008637 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 355278008638 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 355278008639 dimer interface [polypeptide binding]; other site 355278008640 phosphorylation site [posttranslational modification] 355278008641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008642 ATP binding site [chemical binding]; other site 355278008643 Mg2+ binding site [ion binding]; other site 355278008644 G-X-G motif; other site 355278008645 Response regulator receiver domain; Region: Response_reg; pfam00072 355278008646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008647 active site 355278008648 phosphorylation site [posttranslational modification] 355278008649 intermolecular recognition site; other site 355278008650 dimerization interface [polypeptide binding]; other site 355278008651 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 355278008652 calcium binding site 1 [ion binding]; other site 355278008653 active site 355278008654 catalytic triad [active] 355278008655 calcium binding site 2 [ion binding]; other site 355278008656 calcium binding site 3 [ion binding]; other site 355278008657 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 355278008658 peptide chain release factor 1; Validated; Region: prfA; PRK00591 355278008659 PCRF domain; Region: PCRF; pfam03462 355278008660 RF-1 domain; Region: RF-1; pfam00472 355278008661 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355278008662 active site 355278008663 catalytic triad [active] 355278008664 dimer interface [polypeptide binding]; other site 355278008665 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 355278008666 nudix motif; other site 355278008667 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 355278008668 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 355278008669 NAD(P) binding site [chemical binding]; other site 355278008670 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 355278008671 Rhomboid family; Region: Rhomboid; cl11446 355278008672 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 355278008673 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 355278008674 putative NAD(P) binding site [chemical binding]; other site 355278008675 catalytic Zn binding site [ion binding]; other site 355278008676 structural Zn binding site [ion binding]; other site 355278008677 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278008678 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278008679 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 355278008680 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 355278008681 FMN binding site [chemical binding]; other site 355278008682 substrate binding site [chemical binding]; other site 355278008683 putative catalytic residue [active] 355278008684 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 355278008685 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 355278008686 FecR protein; Region: FecR; pfam04773 355278008687 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 355278008688 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278008689 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 355278008690 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 355278008691 hydrophobic ligand binding site; other site 355278008692 SnoaL-like domain; Region: SnoaL_2; pfam12680 355278008693 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 355278008694 active site residue [active] 355278008695 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 355278008696 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278008697 cyclase homology domain; Region: CHD; cd07302 355278008698 nucleotidyl binding site; other site 355278008699 metal binding site [ion binding]; metal-binding site 355278008700 dimer interface [polypeptide binding]; other site 355278008701 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 355278008702 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 355278008703 active site 355278008704 HIGH motif; other site 355278008705 KMSKS motif; other site 355278008706 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 355278008707 tRNA binding surface [nucleotide binding]; other site 355278008708 anticodon binding site; other site 355278008709 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 355278008710 dimer interface [polypeptide binding]; other site 355278008711 putative tRNA-binding site [nucleotide binding]; other site 355278008712 tellurium resistance terB-like protein; Region: terB_like; cd07177 355278008713 metal binding site [ion binding]; metal-binding site 355278008714 Tim44-like domain; Region: Tim44; cl09208 355278008715 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 355278008716 Double zinc ribbon; Region: DZR; pfam12773 355278008717 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 355278008718 S-adenosylmethionine binding site [chemical binding]; other site 355278008719 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 355278008720 putative lipid binding site [chemical binding]; other site 355278008721 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278008722 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355278008723 active site 355278008724 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 355278008725 active site 355278008726 putative DNA-binding cleft [nucleotide binding]; other site 355278008727 dimer interface [polypeptide binding]; other site 355278008728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008729 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 355278008730 NAD(P) binding site [chemical binding]; other site 355278008731 active site 355278008732 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008733 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008734 Putative serine esterase (DUF676); Region: DUF676; pfam05057 355278008735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 355278008736 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 355278008737 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 355278008738 catalytic core [active] 355278008739 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 355278008740 putative active site [active] 355278008741 Ap4A binding site [chemical binding]; other site 355278008742 nudix motif; other site 355278008743 putative metal binding site [ion binding]; other site 355278008744 Acylphosphatase; Region: Acylphosphatase; pfam00708 355278008745 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 355278008746 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 355278008747 active site 355278008748 catalytic tetrad [active] 355278008749 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 355278008750 catalytic core [active] 355278008751 Phosphotransferase enzyme family; Region: APH; pfam01636 355278008752 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 355278008753 putative active site [active] 355278008754 putative substrate binding site [chemical binding]; other site 355278008755 ATP binding site [chemical binding]; other site 355278008756 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355278008757 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 355278008758 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 355278008759 active site 355278008760 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278008761 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 355278008762 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278008763 CAAX protease self-immunity; Region: Abi; pfam02517 355278008764 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09419 355278008765 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 355278008766 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 355278008767 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 355278008768 active site 355278008769 Zn binding site [ion binding]; other site 355278008770 Domain of unknown function (DU1801); Region: DUF1801; cl17490 355278008771 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 355278008772 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 355278008773 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278008774 hydrophobic ligand binding site; other site 355278008775 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 355278008776 putative hydrophobic ligand binding site [chemical binding]; other site 355278008777 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 355278008778 dimerization interface [polypeptide binding]; other site 355278008779 putative DNA binding site [nucleotide binding]; other site 355278008780 putative Zn2+ binding site [ion binding]; other site 355278008781 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 355278008782 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 355278008783 FMN binding site [chemical binding]; other site 355278008784 active site 355278008785 substrate binding site [chemical binding]; other site 355278008786 catalytic residue [active] 355278008787 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278008788 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278008789 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 355278008790 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278008791 Pleckstrin homology-like domain; Region: PH-like; cl17171 355278008792 PAS domain; Region: PAS_9; pfam13426 355278008793 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 355278008794 putative active site [active] 355278008795 heme pocket [chemical binding]; other site 355278008796 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278008797 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 355278008798 dimer interface [polypeptide binding]; other site 355278008799 phosphorylation site [posttranslational modification] 355278008800 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278008801 ATP binding site [chemical binding]; other site 355278008802 Mg2+ binding site [ion binding]; other site 355278008803 G-X-G motif; other site 355278008804 Pirin-related protein [General function prediction only]; Region: COG1741 355278008805 Pirin; Region: Pirin; pfam02678 355278008806 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 355278008807 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 355278008808 Cna protein B-type domain; Region: Cna_B_2; pfam13715 355278008809 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 355278008810 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008811 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008812 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 355278008813 putative FMN binding site [chemical binding]; other site 355278008814 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 355278008815 S-adenosylmethionine binding site [chemical binding]; other site 355278008816 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 355278008817 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 355278008818 putative metal binding site [ion binding]; other site 355278008819 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 355278008820 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278008821 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 355278008822 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 355278008823 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 355278008824 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278008825 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278008826 Cna protein B-type domain; Region: Cna_B_2; pfam13715 355278008827 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 355278008828 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 355278008829 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 355278008830 YceG-like family; Region: YceG; pfam02618 355278008831 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 355278008832 dimerization interface [polypeptide binding]; other site 355278008833 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 355278008834 FAD binding domain; Region: FAD_binding_4; pfam01565 355278008835 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 355278008836 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 355278008837 ArsC family; Region: ArsC; pfam03960 355278008838 putative ArsC-like catalytic residues; other site 355278008839 putative TRX-like catalytic residues [active] 355278008840 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278008841 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 355278008842 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 355278008843 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 355278008844 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 355278008845 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 355278008846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 355278008847 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 355278008848 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 355278008849 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 355278008850 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 355278008851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 355278008852 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 355278008853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 355278008854 Uncharacterized conserved protein [Function unknown]; Region: COG2308 355278008855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278008856 active site 355278008857 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 355278008858 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355278008859 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 355278008860 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 355278008861 chaperone protein DnaJ; Provisional; Region: PRK14294 355278008862 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 355278008863 HSP70 interaction site [polypeptide binding]; other site 355278008864 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 355278008865 substrate binding site [polypeptide binding]; other site 355278008866 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 355278008867 Zn binding sites [ion binding]; other site 355278008868 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 355278008869 dimer interface [polypeptide binding]; other site 355278008870 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 355278008871 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 355278008872 nucleotide binding site [chemical binding]; other site 355278008873 NEF interaction site [polypeptide binding]; other site 355278008874 SBD interface [polypeptide binding]; other site 355278008875 GrpE; Region: GrpE; pfam01025 355278008876 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 355278008877 dimer interface [polypeptide binding]; other site 355278008878 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 355278008879 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 355278008880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 355278008881 DNA-binding site [nucleotide binding]; DNA binding site 355278008882 PAS domain S-box; Region: sensory_box; TIGR00229 355278008883 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 355278008884 putative active site [active] 355278008885 heme pocket [chemical binding]; other site 355278008886 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278008887 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278008888 metal binding site [ion binding]; metal-binding site 355278008889 active site 355278008890 I-site; other site 355278008891 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 355278008892 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 355278008893 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 355278008894 metal binding triad; other site 355278008895 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 355278008896 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355278008897 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 355278008898 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 355278008899 Ca binding site [ion binding]; other site 355278008900 active site 355278008901 catalytic site [active] 355278008902 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355278008903 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278008904 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 355278008905 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 355278008906 Protein of unknown function (DUF789); Region: DUF789; pfam05623 355278008907 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 355278008908 active site 1 [active] 355278008909 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355278008910 DUF35 OB-fold domain; Region: DUF35; pfam01796 355278008911 Bacterial SH3 domain; Region: SH3_3; pfam08239 355278008912 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 355278008913 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 355278008914 oligomeric interface; other site 355278008915 putative active site [active] 355278008916 homodimer interface [polypeptide binding]; other site 355278008917 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 355278008918 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 355278008919 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 355278008920 dimer interface [polypeptide binding]; other site 355278008921 active site 355278008922 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 355278008923 4Fe-4S binding domain; Region: Fer4; pfam00037 355278008924 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 355278008925 catalytic loop [active] 355278008926 iron binding site [ion binding]; other site 355278008927 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 355278008928 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 355278008929 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 355278008930 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355278008931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278008932 active site 355278008933 phosphorylation site [posttranslational modification] 355278008934 intermolecular recognition site; other site 355278008935 dimerization interface [polypeptide binding]; other site 355278008936 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 355278008937 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 355278008938 Tetramer interface [polypeptide binding]; other site 355278008939 active site 355278008940 FMN-binding site [chemical binding]; other site 355278008941 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 355278008942 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 355278008943 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 355278008944 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 355278008945 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 355278008946 putative active site [active] 355278008947 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 355278008948 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 355278008949 active site 355278008950 catalytic residue [active] 355278008951 dimer interface [polypeptide binding]; other site 355278008952 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008953 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 355278008954 binding surface 355278008955 TPR motif; other site 355278008956 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 355278008957 TPR motif; other site 355278008958 binding surface 355278008959 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 355278008960 binding surface 355278008961 TPR motif; other site 355278008962 TPR repeat; Region: TPR_11; pfam13414 355278008963 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 355278008964 binding surface 355278008965 TPR motif; other site 355278008966 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355278008967 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 355278008968 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355278008969 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; cl02712 355278008970 Zn binding residues [ion binding]; other site 355278008971 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 355278008972 amidase catalytic site [active] 355278008973 Zn binding residues [ion binding]; other site 355278008974 substrate binding site [chemical binding]; other site 355278008975 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 355278008976 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 355278008977 Zn binding site [ion binding]; other site 355278008978 TRL-like protein family; Region: TRL; pfam13146 355278008979 TRL-like protein family; Region: TRL; pfam13146 355278008980 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 355278008981 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 355278008982 active site 355278008983 catalytic site [active] 355278008984 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 355278008985 non-specific DNA binding site [nucleotide binding]; other site 355278008986 salt bridge; other site 355278008987 sequence-specific DNA binding site [nucleotide binding]; other site 355278008988 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 355278008989 FliG C-terminal domain; Region: FliG_C; pfam01706 355278008990 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278008991 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278008992 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 355278008993 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278008994 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278008995 PAS domain S-box; Region: sensory_box; TIGR00229 355278008996 PAS fold; Region: PAS_4; pfam08448 355278008997 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278008998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278008999 metal binding site [ion binding]; metal-binding site 355278009000 active site 355278009001 I-site; other site 355278009002 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 355278009003 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 355278009004 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 355278009005 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 355278009006 N-terminal plug; other site 355278009007 ligand-binding site [chemical binding]; other site 355278009008 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 355278009009 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 355278009010 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 355278009011 dimerization interface [polypeptide binding]; other site 355278009012 FAD binding pocket [chemical binding]; other site 355278009013 FAD binding motif [chemical binding]; other site 355278009014 catalytic residues [active] 355278009015 NAD binding pocket [chemical binding]; other site 355278009016 phosphate binding motif [ion binding]; other site 355278009017 beta-alpha-beta structure motif; other site 355278009018 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 355278009019 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 355278009020 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 355278009021 metal ion-dependent adhesion site (MIDAS); other site 355278009022 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 355278009023 anti sigma factor interaction site; other site 355278009024 regulatory phosphorylation site [posttranslational modification]; other site 355278009025 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 355278009026 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 355278009027 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 355278009028 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 355278009029 ATP binding site [chemical binding]; other site 355278009030 putative Mg++ binding site [ion binding]; other site 355278009031 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 355278009032 nucleotide binding region [chemical binding]; other site 355278009033 ATP-binding site [chemical binding]; other site 355278009034 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 355278009035 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 355278009036 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 355278009037 active site 355278009038 catalytic triad [active] 355278009039 oxyanion hole [active] 355278009040 TRL-like protein family; Region: TRL; pfam13146 355278009041 TRL-like protein family; Region: TRL; pfam13146 355278009042 Bacterial Ig-like domain; Region: Big_5; pfam13205 355278009043 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 355278009044 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 355278009045 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 355278009046 binding surface 355278009047 TPR motif; other site 355278009048 acetyl-CoA synthetase; Provisional; Region: PRK00174 355278009049 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 355278009050 active site 355278009051 CoA binding site [chemical binding]; other site 355278009052 acyl-activating enzyme (AAE) consensus motif; other site 355278009053 AMP binding site [chemical binding]; other site 355278009054 acetate binding site [chemical binding]; other site 355278009055 GTP cyclohydrolase I; Provisional; Region: PLN03044 355278009056 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 355278009057 homodecamer interface [polypeptide binding]; other site 355278009058 active site 355278009059 putative catalytic site residues [active] 355278009060 zinc binding site [ion binding]; other site 355278009061 GTP-CH-I/GFRP interaction surface; other site 355278009062 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 355278009063 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278009064 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 355278009065 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 355278009066 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 355278009067 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 355278009068 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278009069 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 355278009070 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 355278009071 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 355278009072 S-adenosylmethionine binding site [chemical binding]; other site 355278009073 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 355278009074 nucleoside/Zn binding site; other site 355278009075 dimer interface [polypeptide binding]; other site 355278009076 catalytic motif [active] 355278009077 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14956 355278009078 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278009079 Walker A motif; other site 355278009080 ATP binding site [chemical binding]; other site 355278009081 Walker B motif; other site 355278009082 arginine finger; other site 355278009083 hypothetical protein; Provisional; Region: PRK14624 355278009084 recombination protein RecR; Reviewed; Region: recR; PRK00076 355278009085 RecR protein; Region: RecR; pfam02132 355278009086 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 355278009087 putative active site [active] 355278009088 putative metal-binding site [ion binding]; other site 355278009089 tetramer interface [polypeptide binding]; other site 355278009090 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 355278009091 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 355278009092 substrate binding pocket [chemical binding]; other site 355278009093 membrane-bound complex binding site; other site 355278009094 hinge residues; other site 355278009095 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355278009096 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355278009097 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355278009098 ligand binding site [chemical binding]; other site 355278009099 seryl-tRNA synthetase; Provisional; Region: PRK05431 355278009100 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 355278009101 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 355278009102 dimer interface [polypeptide binding]; other site 355278009103 active site 355278009104 motif 1; other site 355278009105 motif 2; other site 355278009106 motif 3; other site 355278009107 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 355278009108 active site 355278009109 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 355278009110 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278009111 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 355278009112 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355278009113 Protein of unknown function (DUF327); Region: DUF327; pfam03885 355278009114 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 355278009115 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 355278009116 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 355278009117 Walker A/P-loop; other site 355278009118 ATP binding site [chemical binding]; other site 355278009119 Q-loop/lid; other site 355278009120 ABC transporter signature motif; other site 355278009121 Walker B; other site 355278009122 D-loop; other site 355278009123 H-loop/switch region; other site 355278009124 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 355278009125 ParB-like nuclease domain; Region: ParBc; pfam02195 355278009126 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355278009127 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 355278009128 P-loop; other site 355278009129 Magnesium ion binding site [ion binding]; other site 355278009130 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 355278009131 Magnesium ion binding site [ion binding]; other site 355278009132 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 355278009133 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 355278009134 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355278009135 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 355278009136 P-loop; other site 355278009137 Magnesium ion binding site [ion binding]; other site 355278009138 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 355278009139 Magnesium ion binding site [ion binding]; other site 355278009140 ParB-like nuclease domain; Region: ParB; smart00470 355278009141 Helix-turn-helix domain; Region: HTH_36; pfam13730 355278009142 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 355278009143 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 355278009144 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 355278009145 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 355278009146 PAS domain S-box; Region: sensory_box; TIGR00229 355278009147 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 355278009148 putative active site [active] 355278009149 heme pocket [chemical binding]; other site 355278009150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278009151 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 355278009152 dimer interface [polypeptide binding]; other site 355278009153 phosphorylation site [posttranslational modification] 355278009154 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009155 ATP binding site [chemical binding]; other site 355278009156 Mg2+ binding site [ion binding]; other site 355278009157 G-X-G motif; other site 355278009158 heat shock protein 90; Provisional; Region: PRK05218 355278009159 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009160 ATP binding site [chemical binding]; other site 355278009161 Mg2+ binding site [ion binding]; other site 355278009162 G-X-G motif; other site 355278009163 Oxygen tolerance; Region: BatD; pfam13584 355278009164 von Willebrand factor type A domain; Region: VWA_2; pfam13519 355278009165 metal ion-dependent adhesion site (MIDAS); other site 355278009166 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 355278009167 binding surface 355278009168 TPR motif; other site 355278009169 TPR repeat; Region: TPR_11; pfam13414 355278009170 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 355278009171 metal ion-dependent adhesion site (MIDAS); other site 355278009172 Protein of unknown function DUF58; Region: DUF58; pfam01882 355278009173 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 355278009174 metal ion-dependent adhesion site (MIDAS); other site 355278009175 MoxR-like ATPases [General function prediction only]; Region: COG0714 355278009176 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 355278009177 Walker A motif; other site 355278009178 ATP binding site [chemical binding]; other site 355278009179 Walker B motif; other site 355278009180 arginine finger; other site 355278009181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355278009182 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 355278009183 CoenzymeA binding site [chemical binding]; other site 355278009184 subunit interaction site [polypeptide binding]; other site 355278009185 PHB binding site; other site 355278009186 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278009187 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 355278009188 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278009189 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278009190 Low molecular weight phosphatase family; Region: LMWPc; cd00115 355278009191 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 355278009192 active site 355278009193 Protein of unknown function DUF45; Region: DUF45; pfam01863 355278009194 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355278009195 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 355278009196 P-loop; other site 355278009197 Magnesium ion binding site [ion binding]; other site 355278009198 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 355278009199 Magnesium ion binding site [ion binding]; other site 355278009200 ParB-like nuclease domain; Region: ParB; smart00470 355278009201 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 355278009202 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 355278009203 Predicted flavoprotein [General function prediction only]; Region: COG0431 355278009204 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355278009205 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355278009206 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 355278009207 ligand binding site [chemical binding]; other site 355278009208 flexible hinge region; other site 355278009209 HDOD domain; Region: HDOD; pfam08668 355278009210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355278009211 Zn2+ binding site [ion binding]; other site 355278009212 Mg2+ binding site [ion binding]; other site 355278009213 NADH kinase; Region: PLN02929 355278009214 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355278009215 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 355278009216 anti sigma factor interaction site; other site 355278009217 regulatory phosphorylation site [posttranslational modification]; other site 355278009218 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 355278009219 IHF dimer interface [polypeptide binding]; other site 355278009220 IHF - DNA interface [nucleotide binding]; other site 355278009221 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355278009222 FAD binding domain; Region: FAD_binding_4; pfam01565 355278009223 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278009224 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278009225 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 355278009226 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 355278009227 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 355278009228 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 355278009229 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 355278009230 active site 355278009231 ArgK protein; Region: ArgK; pfam03308 355278009232 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 355278009233 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 355278009234 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 355278009235 B12 binding site [chemical binding]; other site 355278009236 cobalt ligand [ion binding]; other site 355278009237 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 355278009238 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 355278009239 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355278009240 catalytic residue [active] 355278009241 Response regulator receiver domain; Region: Response_reg; pfam00072 355278009242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009243 active site 355278009244 phosphorylation site [posttranslational modification] 355278009245 intermolecular recognition site; other site 355278009246 dimerization interface [polypeptide binding]; other site 355278009247 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 355278009248 Aspartase; Region: Aspartase; cd01357 355278009249 active sites [active] 355278009250 tetramer interface [polypeptide binding]; other site 355278009251 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 355278009252 dimer interface [polypeptide binding]; other site 355278009253 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355278009254 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278009255 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 355278009256 DNA binding residues [nucleotide binding] 355278009257 Family description; Region: DsbD_2; pfam13386 355278009258 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 355278009259 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 355278009260 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355278009261 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 355278009262 metal-binding site [ion binding] 355278009263 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355278009264 Soluble P-type ATPase [General function prediction only]; Region: COG4087 355278009265 FixH; Region: FixH; pfam05751 355278009266 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 355278009267 4Fe-4S binding domain; Region: Fer4_5; pfam12801 355278009268 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 355278009269 Cytochrome c; Region: Cytochrom_C; cl11414 355278009270 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 355278009271 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 355278009272 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 355278009273 Low-spin heme binding site [chemical binding]; other site 355278009274 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 355278009275 D-pathway; other site 355278009276 Putative water exit pathway; other site 355278009277 Binuclear center (active site) [active] 355278009278 K-pathway; other site 355278009279 Putative proton exit pathway; other site 355278009280 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 355278009281 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 355278009282 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 355278009283 active site 355278009284 dimer interface [polypeptide binding]; other site 355278009285 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 355278009286 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 355278009287 active site 355278009288 FMN binding site [chemical binding]; other site 355278009289 substrate binding site [chemical binding]; other site 355278009290 3Fe-4S cluster binding site [ion binding]; other site 355278009291 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 355278009292 domain interface; other site 355278009293 Repair protein; Region: Repair_PSII; pfam04536 355278009294 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 355278009295 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 355278009296 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 355278009297 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 355278009298 ADP binding site [chemical binding]; other site 355278009299 magnesium binding site [ion binding]; other site 355278009300 putative shikimate binding site; other site 355278009301 HDOD domain; Region: HDOD; pfam08668 355278009302 CheD chemotactic sensory transduction; Region: CheD; cl00810 355278009303 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 355278009304 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 355278009305 dimerization interface [polypeptide binding]; other site 355278009306 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278009307 PGAP1-like protein; Region: PGAP1; pfam07819 355278009308 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 355278009309 active site 355278009310 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 355278009311 active site 355278009312 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 355278009313 Interdomain contacts; other site 355278009314 Cytokine receptor motif; other site 355278009315 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 355278009316 Interdomain contacts; other site 355278009317 Cytokine receptor motif; other site 355278009318 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 355278009319 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 355278009320 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355278009321 PilZ domain; Region: PilZ; pfam07238 355278009322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 355278009323 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 355278009324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009325 active site 355278009326 phosphorylation site [posttranslational modification] 355278009327 intermolecular recognition site; other site 355278009328 dimerization interface [polypeptide binding]; other site 355278009329 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 355278009330 DNA binding residues [nucleotide binding] 355278009331 dimerization interface [polypeptide binding]; other site 355278009332 membrane ATPase/protein kinase; Provisional; Region: PRK09435 355278009333 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 355278009334 Walker A; other site 355278009335 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 355278009336 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 355278009337 active site 355278009338 substrate binding site [chemical binding]; other site 355278009339 coenzyme B12 binding site [chemical binding]; other site 355278009340 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 355278009341 B12 binding site [chemical binding]; other site 355278009342 cobalt ligand [ion binding]; other site 355278009343 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 355278009344 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 355278009345 heterodimer interface [polypeptide binding]; other site 355278009346 substrate interaction site [chemical binding]; other site 355278009347 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 355278009348 YhhN-like protein; Region: YhhN; pfam07947 355278009349 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 355278009350 diiron binding motif [ion binding]; other site 355278009351 EamA-like transporter family; Region: EamA; pfam00892 355278009352 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355278009353 EamA-like transporter family; Region: EamA; pfam00892 355278009354 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 355278009355 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278009356 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 355278009357 DNA binding residues [nucleotide binding] 355278009358 Domain of unknown function DUF302; Region: DUF302; cl01364 355278009359 spermidine synthase; Provisional; Region: PRK00811 355278009360 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 355278009361 S-adenosylmethionine binding site [chemical binding]; other site 355278009362 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 355278009363 active site 355278009364 dimer interface [polypeptide binding]; other site 355278009365 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 355278009366 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 355278009367 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 355278009368 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 355278009369 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 355278009370 S-adenosylmethionine binding site [chemical binding]; other site 355278009371 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 355278009372 putative hydrophobic ligand binding site [chemical binding]; other site 355278009373 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355278009374 activation loop (A-loop); other site 355278009375 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355278009376 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 355278009377 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 355278009378 active site 355278009379 Substrate binding site; other site 355278009380 Mg++ binding site; other site 355278009381 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355278009382 Ligand binding site; other site 355278009383 Putative Catalytic site; other site 355278009384 DXD motif; other site 355278009385 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355278009386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278009387 NAD(P) binding site [chemical binding]; other site 355278009388 active site 355278009389 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 355278009390 active site 355278009391 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 355278009392 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 355278009393 protein binding site [polypeptide binding]; other site 355278009394 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 355278009395 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 355278009396 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 355278009397 protein binding site [polypeptide binding]; other site 355278009398 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 355278009399 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355278009400 ATP binding site [chemical binding]; other site 355278009401 Mg2+ binding site [ion binding]; other site 355278009402 G-X-G motif; other site 355278009403 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355278009404 active site 355278009405 heat shock protein HtpX; Provisional; Region: PRK05457 355278009406 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 355278009407 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 355278009408 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 355278009409 NAD(P) binding site [chemical binding]; other site 355278009410 homodimer interface [polypeptide binding]; other site 355278009411 substrate binding site [chemical binding]; other site 355278009412 active site 355278009413 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 355278009414 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 355278009415 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 355278009416 ATP binding site [chemical binding]; other site 355278009417 putative Mg++ binding site [ion binding]; other site 355278009418 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 355278009419 nucleotide binding region [chemical binding]; other site 355278009420 ATP-binding site [chemical binding]; other site 355278009421 Helicase associated domain (HA2); Region: HA2; pfam04408 355278009422 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 355278009423 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278009424 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 355278009425 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 355278009426 DNA binding site [nucleotide binding] 355278009427 active site 355278009428 YhhN-like protein; Region: YhhN; cl01505 355278009429 Integrase core domain; Region: rve; pfam00665 355278009430 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 355278009431 dimerization interface [polypeptide binding]; other site 355278009432 FecR protein; Region: FecR; pfam04773 355278009433 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 355278009434 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355278009435 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 355278009436 DNA binding site [nucleotide binding] 355278009437 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 355278009438 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355278009439 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355278009440 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 355278009441 dimerization interface [polypeptide binding]; other site 355278009442 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355278009443 cyclase homology domain; Region: CHD; cd07302 355278009444 nucleotidyl binding site; other site 355278009445 metal binding site [ion binding]; metal-binding site 355278009446 dimer interface [polypeptide binding]; other site 355278009447 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 355278009448 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 355278009449 dimer interface [polypeptide binding]; other site 355278009450 decamer (pentamer of dimers) interface [polypeptide binding]; other site 355278009451 catalytic triad [active] 355278009452 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 355278009453 Protein of unknown function, DUF547; Region: DUF547; pfam04784 355278009454 Predicted esterase [General function prediction only]; Region: COG0400 355278009455 Serine hydrolase (FSH1); Region: FSH1; pfam03959 355278009456 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 355278009457 active site 355278009458 DNA polymerase IV; Validated; Region: PRK02406 355278009459 DNA binding site [nucleotide binding] 355278009460 Response regulator receiver domain; Region: Response_reg; pfam00072 355278009461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009462 active site 355278009463 phosphorylation site [posttranslational modification] 355278009464 intermolecular recognition site; other site 355278009465 dimerization interface [polypeptide binding]; other site 355278009466 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278009467 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 355278009468 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355278009469 putative active site [active] 355278009470 heme pocket [chemical binding]; other site 355278009471 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 355278009472 putative active site [active] 355278009473 heme pocket [chemical binding]; other site 355278009474 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 355278009475 dimer interface [polypeptide binding]; other site 355278009476 phosphorylation site [posttranslational modification] 355278009477 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009478 ATP binding site [chemical binding]; other site 355278009479 Mg2+ binding site [ion binding]; other site 355278009480 G-X-G motif; other site 355278009481 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 355278009482 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 355278009483 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 355278009484 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 355278009485 S-adenosylmethionine binding site [chemical binding]; other site 355278009486 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 355278009487 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 355278009488 AMP binding site [chemical binding]; other site 355278009489 active site 355278009490 acyl-activating enzyme (AAE) consensus motif; other site 355278009491 CoA binding site [chemical binding]; other site 355278009492 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 355278009493 photoactive yellow protein; Region: photo_yellow; TIGR02373 355278009494 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009495 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009496 dimer interface [polypeptide binding]; other site 355278009497 putative CheW interface [polypeptide binding]; other site 355278009498 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 355278009499 CoenzymeA binding site [chemical binding]; other site 355278009500 subunit interaction site [polypeptide binding]; other site 355278009501 PHB binding site; other site 355278009502 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 355278009503 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 355278009504 Sodium Bile acid symporter family; Region: SBF; pfam01758 355278009505 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 355278009506 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 355278009507 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355278009508 catalytic residue [active] 355278009509 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 355278009510 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 355278009511 active site 355278009512 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355278009513 dimer interface [polypeptide binding]; other site 355278009514 substrate binding site [chemical binding]; other site 355278009515 catalytic residues [active] 355278009516 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 355278009517 PGAP1-like protein; Region: PGAP1; pfam07819 355278009518 nitrilase; Region: PLN02798 355278009519 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 355278009520 putative active site [active] 355278009521 catalytic triad [active] 355278009522 dimer interface [polypeptide binding]; other site 355278009523 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 355278009524 homohexameric interface [polypeptide binding]; other site 355278009525 feedback inhibition sensing region; other site 355278009526 nucleotide binding site [chemical binding]; other site 355278009527 N-acetyl-L-glutamate binding site [chemical binding]; other site 355278009528 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278009529 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 355278009530 GAF domain; Region: GAF; pfam01590 355278009531 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355278009532 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278009533 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355278009534 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 355278009535 Outer membrane efflux protein; Region: OEP; pfam02321 355278009536 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 355278009537 6-phosphofructokinase; Region: PLN02884 355278009538 active site 355278009539 ADP/pyrophosphate binding site [chemical binding]; other site 355278009540 dimerization interface [polypeptide binding]; other site 355278009541 allosteric effector site; other site 355278009542 fructose-1,6-bisphosphate binding site; other site 355278009543 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 355278009544 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355278009545 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 355278009546 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 355278009547 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 355278009548 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 355278009549 substrate binding pocket [chemical binding]; other site 355278009550 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 355278009551 B12 binding site [chemical binding]; other site 355278009552 cobalt ligand [ion binding]; other site 355278009553 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 355278009554 Ferredoxin [Energy production and conversion]; Region: COG1146 355278009555 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 355278009556 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 355278009557 homotetramer interface [polypeptide binding]; other site 355278009558 ligand binding site [chemical binding]; other site 355278009559 catalytic site [active] 355278009560 NAD binding site [chemical binding]; other site 355278009561 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 355278009562 dimerization interface [polypeptide binding]; other site 355278009563 putative DNA binding site [nucleotide binding]; other site 355278009564 putative Zn2+ binding site [ion binding]; other site 355278009565 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355278009566 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 355278009567 S-adenosylmethionine binding site [chemical binding]; other site 355278009568 Cache domain; Region: Cache_1; pfam02743 355278009569 HAMP domain; Region: HAMP; pfam00672 355278009570 dimerization interface [polypeptide binding]; other site 355278009571 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009573 putative CheW interface [polypeptide binding]; other site 355278009574 dimer interface [polypeptide binding]; other site 355278009575 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 355278009576 EamA-like transporter family; Region: EamA; pfam00892 355278009577 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355278009578 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 355278009579 active site 355278009580 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 355278009581 dimerization interface [polypeptide binding]; other site 355278009582 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009583 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009584 dimer interface [polypeptide binding]; other site 355278009585 putative CheW interface [polypeptide binding]; other site 355278009586 Cache domain; Region: Cache_1; pfam02743 355278009587 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 355278009588 dimerization interface [polypeptide binding]; other site 355278009589 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009590 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009591 dimer interface [polypeptide binding]; other site 355278009592 putative CheW interface [polypeptide binding]; other site 355278009593 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 355278009594 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 355278009595 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 355278009596 protein binding site [polypeptide binding]; other site 355278009597 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 355278009598 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 355278009599 oligomer interface [polypeptide binding]; other site 355278009600 metal binding site [ion binding]; metal-binding site 355278009601 metal binding site [ion binding]; metal-binding site 355278009602 putative Cl binding site [ion binding]; other site 355278009603 aspartate ring; other site 355278009604 basic sphincter; other site 355278009605 hydrophobic gate; other site 355278009606 periplasmic entrance; other site 355278009607 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355278009608 classical (c) SDRs; Region: SDR_c; cd05233 355278009609 NAD(P) binding site [chemical binding]; other site 355278009610 active site 355278009611 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355278009612 classical (c) SDRs; Region: SDR_c; cd05233 355278009613 NAD(P) binding site [chemical binding]; other site 355278009614 active site 355278009615 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 355278009616 intersubunit interface [polypeptide binding]; other site 355278009617 active site 355278009618 Zn2+ binding site [ion binding]; other site 355278009619 elongation factor P; Validated; Region: PRK00529 355278009620 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 355278009621 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 355278009622 RNA binding site [nucleotide binding]; other site 355278009623 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 355278009624 RNA binding site [nucleotide binding]; other site 355278009625 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 355278009626 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 355278009627 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 355278009628 metal binding triad [ion binding]; metal-binding site 355278009629 methionine sulfoxide reductase B; Provisional; Region: PRK00222 355278009630 SelR domain; Region: SelR; pfam01641 355278009631 GAF domain; Region: GAF; pfam01590 355278009632 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355278009633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278009634 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 355278009635 dimer interface [polypeptide binding]; other site 355278009636 phosphorylation site [posttranslational modification] 355278009637 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009638 ATP binding site [chemical binding]; other site 355278009639 Mg2+ binding site [ion binding]; other site 355278009640 G-X-G motif; other site 355278009641 Response regulator receiver domain; Region: Response_reg; pfam00072 355278009642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009643 active site 355278009644 phosphorylation site [posttranslational modification] 355278009645 intermolecular recognition site; other site 355278009646 dimerization interface [polypeptide binding]; other site 355278009647 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 355278009648 DEAD-like helicases superfamily; Region: DEXDc; smart00487 355278009649 ATP binding site [chemical binding]; other site 355278009650 Mg++ binding site [ion binding]; other site 355278009651 motif III; other site 355278009652 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 355278009653 nucleotide binding region [chemical binding]; other site 355278009654 ATP-binding site [chemical binding]; other site 355278009655 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 355278009656 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 355278009657 S-adenosylmethionine binding site [chemical binding]; other site 355278009658 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 355278009659 short chain dehydrogenase; Provisional; Region: PRK06181 355278009660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355278009661 NAD(P) binding site [chemical binding]; other site 355278009662 active site 355278009663 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355278009664 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 355278009665 putative NAD(P) binding site [chemical binding]; other site 355278009666 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 355278009667 putative active site [active] 355278009668 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 355278009669 Bacterial SH3 domain homologues; Region: SH3b; smart00287 355278009670 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355278009671 active site 355278009672 nucleophile elbow; other site 355278009673 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355278009674 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 355278009675 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278009676 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355278009677 Peptidase family M23; Region: Peptidase_M23; pfam01551 355278009678 Bacterial SH3 domain; Region: SH3_3; pfam08239 355278009679 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 355278009680 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 355278009681 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 355278009682 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 355278009683 motif 1; other site 355278009684 dimer interface [polypeptide binding]; other site 355278009685 active site 355278009686 motif 2; other site 355278009687 motif 3; other site 355278009688 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 355278009689 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355278009690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009691 active site 355278009692 phosphorylation site [posttranslational modification] 355278009693 intermolecular recognition site; other site 355278009694 dimerization interface [polypeptide binding]; other site 355278009695 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 355278009696 DNA binding site [nucleotide binding] 355278009697 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 355278009698 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 355278009699 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 355278009700 dimerization interface [polypeptide binding]; other site 355278009701 putative DNA binding site [nucleotide binding]; other site 355278009702 putative Zn2+ binding site [ion binding]; other site 355278009703 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355278009704 hydrophobic ligand binding site; other site 355278009705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 355278009706 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 355278009707 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 355278009708 DoxX-like family; Region: DoxX_2; pfam13564 355278009709 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 355278009710 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 355278009711 Methyltransferase domain; Region: Methyltransf_23; pfam13489 355278009712 S-adenosylmethionine binding site [chemical binding]; other site 355278009713 aconitate hydratase; Validated; Region: PRK07229 355278009714 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 355278009715 substrate binding site [chemical binding]; other site 355278009716 ligand binding site [chemical binding]; other site 355278009717 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 355278009718 substrate binding site [chemical binding]; other site 355278009719 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 355278009720 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 355278009721 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 355278009722 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 355278009723 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355278009724 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 355278009725 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278009726 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 355278009727 homodimer interface [polypeptide binding]; other site 355278009728 metal binding site [ion binding]; metal-binding site 355278009729 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 355278009730 Kelch domain; Region: Kelch; smart00612 355278009731 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 355278009732 Kelch motif; Region: Kelch_6; pfam13964 355278009733 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009734 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 355278009735 Kelch domain; Region: Kelch; smart00612 355278009736 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 355278009737 Galactose oxidase, central domain; Region: Kelch_3; cl02701 355278009738 Caspase domain; Region: Peptidase_C14; pfam00656 355278009739 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355278009740 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355278009741 dimer interface [polypeptide binding]; other site 355278009742 putative CheW interface [polypeptide binding]; other site 355278009743 Pirin; Region: Pirin; pfam02678 355278009744 Pirin-related protein [General function prediction only]; Region: COG1741 355278009745 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 355278009746 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 355278009747 Active site serine [active] 355278009748 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 355278009749 active site clefts [active] 355278009750 zinc binding site [ion binding]; other site 355278009751 dimer interface [polypeptide binding]; other site 355278009752 Domain of unknown function (DUF897); Region: DUF897; cl01312 355278009753 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 355278009754 Surface antigen; Region: Bac_surface_Ag; pfam01103 355278009755 pyruvate kinase; Provisional; Region: PRK05826 355278009756 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 355278009757 domain interfaces; other site 355278009758 active site 355278009759 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 355278009760 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 355278009761 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 355278009762 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 355278009763 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 355278009764 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 355278009765 P-loop; other site 355278009766 Magnesium ion binding site [ion binding]; other site 355278009767 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 355278009768 Magnesium ion binding site [ion binding]; other site 355278009769 ParB-like nuclease domain; Region: ParB; smart00470 355278009770 Helix-turn-helix domain; Region: HTH_36; pfam13730 355278009771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278009772 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278009773 WHG domain; Region: WHG; pfam13305 355278009774 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 355278009775 CoenzymeA binding site [chemical binding]; other site 355278009776 subunit interaction site [polypeptide binding]; other site 355278009777 PHB binding site; other site 355278009778 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278009779 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278009780 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 355278009781 Uncharacterized conserved protein [Function unknown]; Region: COG3422 355278009782 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355278009783 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355278009784 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 355278009785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355278009786 Histidine kinase; Region: HisKA_2; pfam07568 355278009787 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009788 ATP binding site [chemical binding]; other site 355278009789 Mg2+ binding site [ion binding]; other site 355278009790 G-X-G motif; other site 355278009791 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 355278009792 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 355278009793 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 355278009794 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 355278009795 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 355278009796 Walker A/P-loop; other site 355278009797 ATP binding site [chemical binding]; other site 355278009798 Q-loop/lid; other site 355278009799 ABC transporter signature motif; other site 355278009800 Walker B; other site 355278009801 D-loop; other site 355278009802 H-loop/switch region; other site 355278009803 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 355278009804 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 355278009805 ABC-ATPase subunit interface; other site 355278009806 dimer interface [polypeptide binding]; other site 355278009807 putative PBP binding regions; other site 355278009808 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 355278009809 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 355278009810 putative hemin binding site; other site 355278009811 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 355278009812 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 355278009813 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 355278009814 N-terminal plug; other site 355278009815 ligand-binding site [chemical binding]; other site 355278009816 AAA domain; Region: AAA_30; pfam13604 355278009817 AAA domain; Region: AAA_11; pfam13086 355278009818 Family description; Region: UvrD_C_2; pfam13538 355278009819 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 355278009820 Family description; Region: UvrD_C_2; pfam13538 355278009821 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 355278009822 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 355278009823 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 355278009824 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 355278009825 Helix-turn-helix domain; Region: HTH_18; pfam12833 355278009826 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 355278009827 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 355278009828 Integrase core domain; Region: rve; pfam00665 355278009829 outer membrane protein, LA_2444/LA_4059 family; Region: OMP_LA_2444; TIGR04327 355278009830 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 355278009831 Predicted helicase [General function prediction only]; Region: COG4889 355278009832 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 355278009833 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 355278009834 ATP binding site [chemical binding]; other site 355278009835 putative Mg++ binding site [ion binding]; other site 355278009836 helicase superfamily c-terminal domain; Region: HELICc; smart00490 355278009837 ATP-binding site [chemical binding]; other site 355278009838 Methyltransferase domain; Region: Methyltransf_26; pfam13659 355278009839 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 355278009840 HEAT repeats; Region: HEAT_2; pfam13646 355278009841 Pregnancy-associated plasma protein-A; Region: Peptidase_M43; cl17409 355278009842 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 355278009843 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355278009844 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 355278009845 Walker A/P-loop; other site 355278009846 ATP binding site [chemical binding]; other site 355278009847 Q-loop/lid; other site 355278009848 ABC transporter signature motif; other site 355278009849 Walker B; other site 355278009850 D-loop; other site 355278009851 H-loop/switch region; other site 355278009852 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 355278009853 FtsX-like permease family; Region: FtsX; pfam02687 355278009854 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355278009855 FtsX-like permease family; Region: FtsX; pfam02687 355278009856 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 355278009857 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 355278009858 HlyD family secretion protein; Region: HlyD_3; pfam13437 355278009859 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 355278009860 PAS domain S-box; Region: sensory_box; TIGR00229 355278009861 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 355278009862 putative active site [active] 355278009863 heme pocket [chemical binding]; other site 355278009864 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355278009865 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 355278009866 dimer interface [polypeptide binding]; other site 355278009867 phosphorylation site [posttranslational modification] 355278009868 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355278009869 ATP binding site [chemical binding]; other site 355278009870 Mg2+ binding site [ion binding]; other site 355278009871 G-X-G motif; other site 355278009872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355278009873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 355278009874 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 355278009875 RibD C-terminal domain; Region: RibD_C; cl17279 355278009876 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 355278009877 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355278009878 putative active site [active] 355278009879 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355278009880 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 355278009881 serine/threonine protein kinase; Provisional; Region: PRK11768 355278009882 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 355278009883 Response regulator receiver domain; Region: Response_reg; pfam00072 355278009884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355278009885 active site 355278009886 phosphorylation site [posttranslational modification] 355278009887 intermolecular recognition site; other site 355278009888 dimerization interface [polypeptide binding]; other site 355278009889 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 355278009890 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355278009891 metal binding site [ion binding]; metal-binding site 355278009892 active site 355278009893 I-site; other site 355278009894 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 355278009895 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 355278009896 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 355278009897 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 355278009898 Ligand binding site; other site 355278009899 DXD motif; other site 355278009900 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355278009901 Helix-turn-helix domain; Region: HTH_36; pfam13730