-- dump date 20140618_203959 -- class Genbank::misc_feature -- table misc_feature_note -- id note 404589000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 404589000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 404589000003 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 404589000004 Walker A motif; other site 404589000005 ATP binding site [chemical binding]; other site 404589000006 Walker B motif; other site 404589000007 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 404589000008 arginine finger; other site 404589000009 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 404589000010 DnaA box-binding interface [nucleotide binding]; other site 404589000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 404589000012 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 404589000013 putative DNA binding surface [nucleotide binding]; other site 404589000014 dimer interface [polypeptide binding]; other site 404589000015 beta-clamp/clamp loader binding surface; other site 404589000016 beta-clamp/translesion DNA polymerase binding surface; other site 404589000017 recombination protein F; Reviewed; Region: recF; PRK00064 404589000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589000019 Walker A/P-loop; other site 404589000020 ATP binding site [chemical binding]; other site 404589000021 Q-loop/lid; other site 404589000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589000023 ABC transporter signature motif; other site 404589000024 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 404589000025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589000026 ATP binding site [chemical binding]; other site 404589000027 Mg2+ binding site [ion binding]; other site 404589000028 G-X-G motif; other site 404589000029 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 404589000030 anchoring element; other site 404589000031 dimer interface [polypeptide binding]; other site 404589000032 ATP binding site [chemical binding]; other site 404589000033 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 404589000034 active site 404589000035 putative metal-binding site [ion binding]; other site 404589000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 404589000037 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 404589000038 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 404589000039 dimer interface [polypeptide binding]; other site 404589000040 active site 404589000041 CoA binding pocket [chemical binding]; other site 404589000042 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cd11375 404589000043 active site 404589000044 Zn binding site [ion binding]; other site 404589000045 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589000046 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 404589000047 Cysteine-rich domain; Region: CCG; pfam02754 404589000048 Cysteine-rich domain; Region: CCG; pfam02754 404589000049 Thioredoxin; Region: Thioredoxin_5; pfam13743 404589000050 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 404589000051 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589000052 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 404589000053 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 404589000054 active site 404589000055 HIGH motif; other site 404589000056 nucleotide binding site [chemical binding]; other site 404589000057 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 404589000058 active site 404589000059 KMSKS motif; other site 404589000060 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 404589000061 tRNA binding surface [nucleotide binding]; other site 404589000062 anticodon binding site; other site 404589000063 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 404589000064 lipoprotein signal peptidase; Provisional; Region: PRK14773 404589000065 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 404589000066 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 404589000067 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589000068 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 404589000069 ligand binding site [chemical binding]; other site 404589000070 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 404589000071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 404589000072 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 404589000073 anti sigma factor interaction site; other site 404589000074 regulatory phosphorylation site [posttranslational modification]; other site 404589000075 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 404589000076 non-specific DNA binding site [nucleotide binding]; other site 404589000077 salt bridge; other site 404589000078 sequence-specific DNA binding site [nucleotide binding]; other site 404589000079 hypothetical protein; Provisional; Region: PRK07877 404589000080 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 404589000081 ATP binding site [chemical binding]; other site 404589000082 substrate interface [chemical binding]; other site 404589000083 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 404589000084 GAF domain; Region: GAF_3; pfam13492 404589000085 PAS fold; Region: PAS_4; pfam08448 404589000086 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 404589000087 putative active site [active] 404589000088 heme pocket [chemical binding]; other site 404589000089 PAS fold; Region: PAS_4; pfam08448 404589000090 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 404589000091 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589000092 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589000093 ATP binding site [chemical binding]; other site 404589000094 Mg2+ binding site [ion binding]; other site 404589000095 G-X-G motif; other site 404589000096 Response regulator receiver domain; Region: Response_reg; pfam00072 404589000097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589000098 active site 404589000099 phosphorylation site [posttranslational modification] 404589000100 intermolecular recognition site; other site 404589000101 dimerization interface [polypeptide binding]; other site 404589000102 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 404589000103 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589000104 active site 404589000105 catalytic tetrad [active] 404589000106 TLC ATP/ADP transporter; Region: TLC; cl03940 404589000107 TLC ATP/ADP transporter; Region: TLC; cl03940 404589000108 CHASE3 domain; Region: CHASE3; cl05000 404589000109 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589000110 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 404589000111 dimer interface [polypeptide binding]; other site 404589000112 phosphorylation site [posttranslational modification] 404589000113 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589000114 ATP binding site [chemical binding]; other site 404589000115 Mg2+ binding site [ion binding]; other site 404589000116 G-X-G motif; other site 404589000117 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 404589000118 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 404589000119 putative substrate translocation pore; other site 404589000120 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 404589000121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589000122 NAD(P) binding site [chemical binding]; other site 404589000123 active site 404589000124 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 404589000125 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 404589000126 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589000127 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 404589000128 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 404589000129 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 404589000130 Na binding site [ion binding]; other site 404589000131 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 404589000132 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589000133 acyl-activating enzyme (AAE) consensus motif; other site 404589000134 AMP binding site [chemical binding]; other site 404589000135 active site 404589000136 CoA binding site [chemical binding]; other site 404589000137 ACT domain-containing protein [General function prediction only]; Region: COG4747 404589000138 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 404589000139 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 404589000140 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 404589000141 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589000142 acyl-activating enzyme (AAE) consensus motif; other site 404589000143 AMP binding site [chemical binding]; other site 404589000144 active site 404589000145 CoA binding site [chemical binding]; other site 404589000146 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 404589000147 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 404589000148 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 404589000149 dimer interface [polypeptide binding]; other site 404589000150 PYR/PP interface [polypeptide binding]; other site 404589000151 TPP binding site [chemical binding]; other site 404589000152 substrate binding site [chemical binding]; other site 404589000153 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 404589000154 TPP-binding site; other site 404589000155 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 404589000156 butyrate kinase; Provisional; Region: PRK03011 404589000157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589000158 NAD(P) binding site [chemical binding]; other site 404589000159 active site 404589000160 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 404589000161 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 404589000162 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 404589000163 Ligand binding site [chemical binding]; other site 404589000164 Electron transfer flavoprotein domain; Region: ETF; pfam01012 404589000165 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 404589000166 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 404589000167 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 404589000168 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589000169 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 404589000170 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 404589000171 EamA-like transporter family; Region: EamA; pfam00892 404589000172 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 404589000173 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589000174 MltA specific insert domain; Region: MltA; smart00925 404589000175 3D domain; Region: 3D; pfam06725 404589000176 uracil transporter; Provisional; Region: PRK10720 404589000177 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 404589000178 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589000179 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 404589000180 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 404589000181 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 404589000182 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 404589000183 RNA binding surface [nucleotide binding]; other site 404589000184 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 404589000185 active site 404589000186 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 404589000187 Transglycosylase; Region: Transgly; pfam00912 404589000188 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 404589000189 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 404589000190 EVE domain; Region: EVE; pfam01878 404589000191 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 404589000192 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 404589000193 putative acyltransferase; Provisional; Region: PRK05790 404589000194 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 404589000195 dimer interface [polypeptide binding]; other site 404589000196 active site 404589000197 BRK domain; Region: BRK; cl02688 404589000198 Rhomboid family; Region: Rhomboid; cl11446 404589000199 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 404589000200 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 404589000201 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 404589000202 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 404589000203 active site 404589000204 catalytic triad [active] 404589000205 oxyanion hole [active] 404589000206 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 404589000207 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 404589000208 inhibitor-cofactor binding pocket; inhibition site 404589000209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589000210 catalytic residue [active] 404589000211 AAA domain; Region: AAA_26; pfam13500 404589000212 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 404589000213 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 404589000214 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 404589000215 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589000216 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 404589000217 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 404589000218 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 404589000219 active site 404589000220 pyrophosphate binding site [ion binding]; other site 404589000221 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 404589000222 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 404589000223 catalytic triad [active] 404589000224 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 404589000225 substrate binding site [chemical binding]; other site 404589000226 ATP binding site [chemical binding]; other site 404589000227 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 404589000228 replicative DNA helicase; Region: DnaB; TIGR00665 404589000229 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 404589000230 Walker A motif; other site 404589000231 ATP binding site [chemical binding]; other site 404589000232 Walker B motif; other site 404589000233 DNA binding loops [nucleotide binding] 404589000234 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 404589000235 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 404589000236 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 404589000237 MgtE intracellular N domain; Region: MgtE_N; smart00924 404589000238 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 404589000239 Divalent cation transporter; Region: MgtE; pfam01769 404589000240 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 404589000241 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 404589000242 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 404589000243 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 404589000244 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 404589000245 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 404589000246 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 404589000247 PAS domain; Region: PAS_9; pfam13426 404589000248 putative active site [active] 404589000249 heme pocket [chemical binding]; other site 404589000250 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 404589000251 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 404589000252 Walker A motif; other site 404589000253 ATP binding site [chemical binding]; other site 404589000254 Walker B motif; other site 404589000255 arginine finger; other site 404589000256 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589000257 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 404589000258 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 404589000259 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 404589000260 substrate binding pocket [chemical binding]; other site 404589000261 dimer interface [polypeptide binding]; other site 404589000262 inhibitor binding site; inhibition site 404589000263 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 404589000264 B12 binding site [chemical binding]; other site 404589000265 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 404589000266 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 404589000267 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 404589000268 FeS/SAM binding site; other site 404589000269 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 404589000270 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 404589000271 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 404589000272 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 404589000273 active site 404589000274 Methyltransferase domain; Region: Methyltransf_23; pfam13489 404589000275 Methyltransferase domain; Region: Methyltransf_12; pfam08242 404589000276 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 404589000277 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 404589000278 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 404589000279 FeS/SAM binding site; other site 404589000280 TRAM domain; Region: TRAM; cl01282 404589000281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 404589000282 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 404589000283 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 404589000284 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 404589000285 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 404589000286 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 404589000287 Part of AAA domain; Region: AAA_19; pfam13245 404589000288 Family description; Region: UvrD_C_2; pfam13538 404589000289 CotH protein; Region: CotH; pfam08757 404589000290 Lamin Tail Domain; Region: LTD; pfam00932 404589000291 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 404589000292 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 404589000293 active site 404589000294 purine riboside binding site [chemical binding]; other site 404589000295 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 404589000296 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 404589000297 ligand binding site; other site 404589000298 oligomer interface; other site 404589000299 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 404589000300 dimer interface [polypeptide binding]; other site 404589000301 N-terminal domain interface [polypeptide binding]; other site 404589000302 sulfate 1 binding site; other site 404589000303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589000304 active site 404589000305 phosphorylation site [posttranslational modification] 404589000306 intermolecular recognition site; other site 404589000307 dimerization interface [polypeptide binding]; other site 404589000308 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 404589000309 putative ligand binding site [chemical binding]; other site 404589000310 CHASE3 domain; Region: CHASE3; cl05000 404589000311 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589000312 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 404589000313 dimer interface [polypeptide binding]; other site 404589000314 phosphorylation site [posttranslational modification] 404589000315 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589000316 ATP binding site [chemical binding]; other site 404589000317 Mg2+ binding site [ion binding]; other site 404589000318 G-X-G motif; other site 404589000319 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 404589000320 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 404589000321 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 404589000322 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589000323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589000324 active site 404589000325 phosphorylation site [posttranslational modification] 404589000326 intermolecular recognition site; other site 404589000327 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 404589000328 Walker A motif; other site 404589000329 ATP binding site [chemical binding]; other site 404589000330 Walker B motif; other site 404589000331 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 404589000332 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 404589000333 dimer interface [polypeptide binding]; other site 404589000334 phosphorylation site [posttranslational modification] 404589000335 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589000336 ATP binding site [chemical binding]; other site 404589000337 Mg2+ binding site [ion binding]; other site 404589000338 G-X-G motif; other site 404589000339 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 404589000340 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589000341 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 404589000342 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 404589000343 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 404589000344 active site 404589000345 Zn binding site [ion binding]; other site 404589000346 rod shape-determining protein MreB; Provisional; Region: PRK13927 404589000347 MreB and similar proteins; Region: MreB_like; cd10225 404589000348 nucleotide binding site [chemical binding]; other site 404589000349 Mg binding site [ion binding]; other site 404589000350 putative protofilament interaction site [polypeptide binding]; other site 404589000351 RodZ interaction site [polypeptide binding]; other site 404589000352 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 404589000353 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589000354 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589000355 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 404589000356 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589000357 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589000358 active site 404589000359 ATP binding site [chemical binding]; other site 404589000360 substrate binding site [chemical binding]; other site 404589000361 activation loop (A-loop); other site 404589000362 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 404589000363 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 404589000364 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 404589000365 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 404589000366 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 404589000367 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 404589000368 putative active site [active] 404589000369 catalytic residue [active] 404589000370 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 404589000371 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 404589000372 5S rRNA interface [nucleotide binding]; other site 404589000373 CTC domain interface [polypeptide binding]; other site 404589000374 L16 interface [polypeptide binding]; other site 404589000375 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 404589000376 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 404589000377 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589000378 active site 404589000379 regulatory protein SpoVG; Reviewed; Region: PRK13259 404589000380 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 404589000381 Bacterial SH3 domain homologues; Region: SH3b; smart00287 404589000382 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 404589000383 Zn binding site [ion binding]; other site 404589000384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 404589000385 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 404589000386 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589000387 active site 404589000388 Predicted integral membrane metal-binding protein [General function prediction only]; Region: COG5415 404589000389 PilZ domain; Region: PilZ; pfam07238 404589000390 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 404589000391 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 404589000392 putative active site [active] 404589000393 catalytic site [active] 404589000394 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 404589000395 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589000396 phosphopeptide binding site; other site 404589000397 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589000398 metal binding site [ion binding]; metal-binding site 404589000399 active site 404589000400 I-site; other site 404589000401 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 404589000402 Major Facilitator Superfamily; Region: MFS_1; pfam07690 404589000403 putative substrate translocation pore; other site 404589000404 ADP-glucose phosphorylase; Region: PLN02643 404589000405 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 404589000406 nucleotide binding site/active site [active] 404589000407 HIT family signature motif; other site 404589000408 catalytic residue [active] 404589000409 glycogen synthase; Provisional; Region: glgA; PRK00654 404589000410 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 404589000411 ADP-binding pocket [chemical binding]; other site 404589000412 homodimer interface [polypeptide binding]; other site 404589000413 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 404589000414 TPR motif; other site 404589000415 binding surface 404589000416 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 404589000417 SIR2-like domain; Region: SIR2_2; pfam13289 404589000418 hydroxyglutarate oxidase; Provisional; Region: PRK11728 404589000419 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 404589000420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589000421 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589000422 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 404589000423 active site 404589000424 DNA polymerase IV; Validated; Region: PRK02406 404589000425 DNA binding site [nucleotide binding] 404589000426 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 404589000427 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589000428 active site 404589000429 metal binding site [ion binding]; metal-binding site 404589000430 Response regulator receiver domain; Region: Response_reg; pfam00072 404589000431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589000432 active site 404589000433 phosphorylation site [posttranslational modification] 404589000434 intermolecular recognition site; other site 404589000435 dimerization interface [polypeptide binding]; other site 404589000436 DHHA1 domain; Region: DHHA1; pfam02272 404589000437 HPr kinase/phosphorylase; Provisional; Region: PRK05428 404589000438 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 404589000439 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 404589000440 Hpr binding site; other site 404589000441 active site 404589000442 homohexamer subunit interaction site [polypeptide binding]; other site 404589000443 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 404589000444 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 404589000445 active pocket/dimerization site; other site 404589000446 active site 404589000447 phosphorylation site [posttranslational modification] 404589000448 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 404589000449 active site 404589000450 phosphorylation site [posttranslational modification] 404589000451 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 404589000452 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 404589000453 dimerization domain swap beta strand [polypeptide binding]; other site 404589000454 regulatory protein interface [polypeptide binding]; other site 404589000455 active site 404589000456 regulatory phosphorylation site [posttranslational modification]; other site 404589000457 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 404589000458 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 404589000459 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 404589000460 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 404589000461 S-adenosylmethionine synthetase; Validated; Region: PRK05250 404589000462 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 404589000463 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 404589000464 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 404589000465 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 404589000466 putative DNA binding site [nucleotide binding]; other site 404589000467 putative Zn2+ binding site [ion binding]; other site 404589000468 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 404589000469 S-adenosylmethionine binding site [chemical binding]; other site 404589000470 Adenosylhomocysteinase; Provisional; Region: PTZ00075 404589000471 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 404589000472 homotetramer interface [polypeptide binding]; other site 404589000473 ligand binding site [chemical binding]; other site 404589000474 catalytic site [active] 404589000475 NAD binding site [chemical binding]; other site 404589000476 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 404589000477 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 404589000478 putative active site [active] 404589000479 putative CoA binding site [chemical binding]; other site 404589000480 nudix motif; other site 404589000481 metal binding site [ion binding]; metal-binding site 404589000482 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 404589000483 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 404589000484 Substrate binding site; other site 404589000485 Cupin domain; Region: Cupin_2; cl17218 404589000486 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 404589000487 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 404589000488 active site 404589000489 substrate binding site [chemical binding]; other site 404589000490 metal binding site [ion binding]; metal-binding site 404589000491 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 404589000492 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 404589000493 nucleotide binding site [chemical binding]; other site 404589000494 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589000495 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 404589000496 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 404589000497 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 404589000498 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 404589000499 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 404589000500 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 404589000501 Domain of unknown function (DUF814); Region: DUF814; pfam05670 404589000502 SprT-like family; Region: SprT-like; pfam10263 404589000503 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589000504 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589000505 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589000506 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 404589000507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 404589000508 Family of unknown function (DUF490); Region: DUF490; pfam04357 404589000509 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 404589000510 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 404589000511 hypothetical protein; Provisional; Region: PRK07338 404589000512 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 404589000513 metal binding site [ion binding]; metal-binding site 404589000514 dimer interface [polypeptide binding]; other site 404589000515 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 404589000516 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 404589000517 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 404589000518 nucleotide binding site [chemical binding]; other site 404589000519 substrate binding site [chemical binding]; other site 404589000520 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 404589000521 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 404589000522 FeS/SAM binding site; other site 404589000523 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 404589000524 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 404589000525 FeS/SAM binding site; other site 404589000526 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 404589000527 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 404589000528 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 404589000529 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 404589000530 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 404589000531 Walker A/P-loop; other site 404589000532 ATP binding site [chemical binding]; other site 404589000533 Q-loop/lid; other site 404589000534 ABC transporter signature motif; other site 404589000535 Walker B; other site 404589000536 D-loop; other site 404589000537 H-loop/switch region; other site 404589000538 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 404589000539 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 404589000540 FtsX-like permease family; Region: FtsX; pfam02687 404589000541 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 404589000542 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 404589000543 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 404589000544 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 404589000545 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 404589000546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 404589000547 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 404589000548 G1 box; other site 404589000549 GTP/Mg2+ binding site [chemical binding]; other site 404589000550 G2 box; other site 404589000551 Switch I region; other site 404589000552 G3 box; other site 404589000553 Switch II region; other site 404589000554 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 404589000555 G5 box; other site 404589000556 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 404589000557 Sulfatase; Region: Sulfatase; cl17466 404589000558 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 404589000559 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 404589000560 S-adenosylmethionine binding site [chemical binding]; other site 404589000561 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 404589000562 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 404589000563 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 404589000564 D-tyrosyl-tRNA(Tyr) deacylase; Provisional; Region: PRK05273 404589000565 dimerization interface [polypeptide binding]; other site 404589000566 putative tRNAtyr binding site [nucleotide binding]; other site 404589000567 putative active site [active] 404589000568 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 404589000569 nucleotide binding site/active site [active] 404589000570 HIT family signature motif; other site 404589000571 catalytic residue [active] 404589000572 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 404589000573 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 404589000574 homotrimer interaction site [polypeptide binding]; other site 404589000575 active site 404589000576 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 404589000577 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 404589000578 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 404589000579 prephenate dehydrogenase; Validated; Region: PRK08507 404589000580 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 404589000581 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 404589000582 hinge; other site 404589000583 active site 404589000584 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 404589000585 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 404589000586 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 404589000587 NAD(P) binding site [chemical binding]; other site 404589000588 shikimate binding site; other site 404589000589 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 404589000590 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 404589000591 Tetramer interface [polypeptide binding]; other site 404589000592 active site 404589000593 FMN-binding site [chemical binding]; other site 404589000594 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 404589000595 shikimate kinase; Reviewed; Region: aroK; PRK00131 404589000596 ADP binding site [chemical binding]; other site 404589000597 magnesium binding site [ion binding]; other site 404589000598 putative shikimate binding site; other site 404589000599 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 404589000600 active site 404589000601 dimer interface [polypeptide binding]; other site 404589000602 metal binding site [ion binding]; metal-binding site 404589000603 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 404589000604 Dehydroquinase class II; Region: DHquinase_II; pfam01220 404589000605 active site 404589000606 trimer interface [polypeptide binding]; other site 404589000607 dimer interface [polypeptide binding]; other site 404589000608 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 404589000609 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 404589000610 active site 404589000611 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 404589000612 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 404589000613 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 404589000614 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 404589000615 active site 404589000616 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 404589000617 CoA binding domain; Region: CoA_binding; cl17356 404589000618 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 404589000619 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 404589000620 HflX GTPase family; Region: HflX; cd01878 404589000621 G1 box; other site 404589000622 GTP/Mg2+ binding site [chemical binding]; other site 404589000623 Switch I region; other site 404589000624 G2 box; other site 404589000625 G3 box; other site 404589000626 Switch II region; other site 404589000627 G4 box; other site 404589000628 G5 box; other site 404589000629 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 404589000630 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 404589000631 active site 404589000632 motif I; other site 404589000633 motif II; other site 404589000634 benzoate transport; Region: 2A0115; TIGR00895 404589000635 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 404589000636 active site 404589000637 catalytic site [active] 404589000638 substrate binding site [chemical binding]; other site 404589000639 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 404589000640 gamma-glutamyl kinase; Provisional; Region: PRK05429 404589000641 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 404589000642 nucleotide binding site [chemical binding]; other site 404589000643 homotetrameric interface [polypeptide binding]; other site 404589000644 putative phosphate binding site [ion binding]; other site 404589000645 putative allosteric binding site; other site 404589000646 PUA domain; Region: PUA; pfam01472 404589000647 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 404589000648 putative catalytic cysteine [active] 404589000649 Oligomerisation domain; Region: Oligomerisation; pfam02410 404589000650 Geobacter sulfurreducens CxxxxCH...CXXCH domain; Region: GSu_C4xC__C2xCH; TIGR01904 404589000651 EamA-like transporter family; Region: EamA; pfam00892 404589000652 Protein of unknown function DUF86; Region: DUF86; cl01031 404589000653 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589000654 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589000655 active site 404589000656 ATP binding site [chemical binding]; other site 404589000657 substrate binding site [chemical binding]; other site 404589000658 activation loop (A-loop); other site 404589000659 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 404589000660 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 404589000661 dimer interface [polypeptide binding]; other site 404589000662 PYR/PP interface [polypeptide binding]; other site 404589000663 TPP binding site [chemical binding]; other site 404589000664 substrate binding site [chemical binding]; other site 404589000665 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 404589000666 Domain of unknown function; Region: EKR; smart00890 404589000667 4Fe-4S binding domain; Region: Fer4_6; pfam12837 404589000668 4Fe-4S binding domain; Region: Fer4; pfam00037 404589000669 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 404589000670 TPP-binding site [chemical binding]; other site 404589000671 dimer interface [polypeptide binding]; other site 404589000672 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589000673 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589000674 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 404589000675 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 404589000676 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 404589000677 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589000678 4Fe-4S binding domain; Region: Fer4_6; pfam12837 404589000679 4Fe-4S binding domain; Region: Fer4; pfam00037 404589000680 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 404589000681 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 404589000682 iron-sulfur cluster [ion binding]; other site 404589000683 [2Fe-2S] cluster binding site [ion binding]; other site 404589000684 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 404589000685 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 404589000686 interchain domain interface [polypeptide binding]; other site 404589000687 intrachain domain interface; other site 404589000688 heme bL binding site [chemical binding]; other site 404589000689 heme bH binding site [chemical binding]; other site 404589000690 Qo binding site; other site 404589000691 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 404589000692 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 404589000693 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 404589000694 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 404589000695 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 404589000696 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 404589000697 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 404589000698 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 404589000699 Walker A/P-loop; other site 404589000700 ATP binding site [chemical binding]; other site 404589000701 Q-loop/lid; other site 404589000702 ABC transporter signature motif; other site 404589000703 Walker B; other site 404589000704 D-loop; other site 404589000705 H-loop/switch region; other site 404589000706 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589000707 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589000708 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 404589000709 DNA binding residues [nucleotide binding] 404589000710 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 404589000711 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 404589000712 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 404589000713 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 404589000714 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 404589000715 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 404589000716 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 404589000717 PIN domain; Region: PIN; pfam01850 404589000718 putative active site [active] 404589000719 phosphoglyceromutase; Provisional; Region: PRK05434 404589000720 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 404589000721 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 404589000722 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 404589000723 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 404589000724 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 404589000725 TfoX N-terminal domain; Region: TfoX_N; pfam04993 404589000726 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 404589000727 OPT oligopeptide transporter protein; Region: OPT; cl14607 404589000728 putative oligopeptide transporter, OPT family; Region: TIGR00733 404589000729 Cupin domain; Region: Cupin_2; cl17218 404589000730 Response regulator receiver domain; Region: Response_reg; pfam00072 404589000731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589000732 active site 404589000733 phosphorylation site [posttranslational modification] 404589000734 intermolecular recognition site; other site 404589000735 dimerization interface [polypeptide binding]; other site 404589000736 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 404589000737 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 404589000738 RNA methyltransferase, RsmE family; Region: TIGR00046 404589000739 Double zinc ribbon; Region: DZR; pfam12773 404589000740 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 404589000741 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 404589000742 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 404589000743 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 404589000744 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 404589000745 DNA-binding site [nucleotide binding]; DNA binding site 404589000746 RNA-binding motif; other site 404589000747 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 404589000748 FMN binding site [chemical binding]; other site 404589000749 substrate binding site [chemical binding]; other site 404589000750 putative catalytic residue [active] 404589000751 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 404589000752 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589000753 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 404589000754 putative acyl-acceptor binding pocket; other site 404589000755 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 404589000756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589000757 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 404589000758 dimer interface [polypeptide binding]; other site 404589000759 phosphorylation site [posttranslational modification] 404589000760 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589000761 ATP binding site [chemical binding]; other site 404589000762 Mg2+ binding site [ion binding]; other site 404589000763 G-X-G motif; other site 404589000764 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 404589000765 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 404589000766 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 404589000767 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 404589000768 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 404589000769 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 404589000770 carboxyltransferase (CT) interaction site; other site 404589000771 biotinylation site [posttranslational modification]; other site 404589000772 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 404589000773 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 404589000774 HSP70 interaction site [polypeptide binding]; other site 404589000775 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 404589000776 binding surface 404589000777 TPR motif; other site 404589000778 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 404589000779 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 404589000780 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 404589000781 active site 404589000782 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 404589000783 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 404589000784 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 404589000785 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 404589000786 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589000787 elongation factor Ts; Reviewed; Region: tsf; PRK12332 404589000788 UBA/TS-N domain; Region: UBA; pfam00627 404589000789 Elongation factor TS; Region: EF_TS; pfam00889 404589000790 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 404589000791 rRNA interaction site [nucleotide binding]; other site 404589000792 S8 interaction site; other site 404589000793 putative laminin-1 binding site; other site 404589000794 Competence protein CoiA-like family; Region: CoiA; cl11541 404589000795 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 404589000796 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 404589000797 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 404589000798 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 404589000799 DNA binding site [nucleotide binding] 404589000800 catalytic residue [active] 404589000801 H2TH interface [polypeptide binding]; other site 404589000802 putative catalytic residues [active] 404589000803 turnover-facilitating residue; other site 404589000804 intercalation triad [nucleotide binding]; other site 404589000805 8OG recognition residue [nucleotide binding]; other site 404589000806 putative reading head residues; other site 404589000807 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 404589000808 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 404589000809 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 404589000810 RNA/DNA hybrid binding site [nucleotide binding]; other site 404589000811 active site 404589000812 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 404589000813 active site 404589000814 NTP binding site [chemical binding]; other site 404589000815 metal binding triad [ion binding]; metal-binding site 404589000816 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 404589000817 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 404589000818 putative nucleotide binding site [chemical binding]; other site 404589000819 uridine monophosphate binding site [chemical binding]; other site 404589000820 homohexameric interface [polypeptide binding]; other site 404589000821 ribosome recycling factor; Reviewed; Region: frr; PRK00083 404589000822 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 404589000823 hinge region; other site 404589000824 Dodecin; Region: Dodecin; pfam07311 404589000825 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 404589000826 NAD synthetase; Provisional; Region: PRK13981 404589000827 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 404589000828 multimer interface [polypeptide binding]; other site 404589000829 active site 404589000830 catalytic triad [active] 404589000831 protein interface 1 [polypeptide binding]; other site 404589000832 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 404589000833 homodimer interface [polypeptide binding]; other site 404589000834 NAD binding pocket [chemical binding]; other site 404589000835 ATP binding pocket [chemical binding]; other site 404589000836 Mg binding site [ion binding]; other site 404589000837 active-site loop [active] 404589000838 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 404589000839 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 404589000840 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589000841 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589000842 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 404589000843 DNA binding residues [nucleotide binding] 404589000844 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 404589000845 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 404589000846 TPP-binding site [chemical binding]; other site 404589000847 dimer interface [polypeptide binding]; other site 404589000848 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 404589000849 PYR/PP interface [polypeptide binding]; other site 404589000850 dimer interface [polypeptide binding]; other site 404589000851 TPP binding site [chemical binding]; other site 404589000852 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 404589000853 catalytic core [active] 404589000854 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 404589000855 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 404589000856 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 404589000857 active site 404589000858 catalytic site [active] 404589000859 4-alpha-glucanotransferase; Provisional; Region: PRK14508 404589000860 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 404589000861 active site 404589000862 HIGH motif; other site 404589000863 nucleotide binding site [chemical binding]; other site 404589000864 active site 404589000865 KMSKS motif; other site 404589000866 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 404589000867 dinuclear metal binding motif [ion binding]; other site 404589000868 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 404589000869 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 404589000870 catalytic Zn binding site [ion binding]; other site 404589000871 structural Zn binding site [ion binding]; other site 404589000872 NAD(P) binding site [chemical binding]; other site 404589000873 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 404589000874 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 404589000875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589000876 homodimer interface [polypeptide binding]; other site 404589000877 catalytic residue [active] 404589000878 Protein of unknown function, DUF606; Region: DUF606; pfam04657 404589000879 Arginase family; Region: Arginase; pfam00491 404589000880 active site 404589000881 metal binding site [ion binding]; metal-binding site 404589000882 multifunctional aminopeptidase A; Provisional; Region: PRK00913 404589000883 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 404589000884 interface (dimer of trimers) [polypeptide binding]; other site 404589000885 Substrate-binding/catalytic site; other site 404589000886 Zn-binding sites [ion binding]; other site 404589000887 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589000888 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589000889 active site 404589000890 ATP binding site [chemical binding]; other site 404589000891 substrate binding site [chemical binding]; other site 404589000892 activation loop (A-loop); other site 404589000893 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 404589000894 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589000895 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 404589000896 OPT oligopeptide transporter protein; Region: OPT; pfam03169 404589000897 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 404589000898 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 404589000899 Pectinacetylesterase; Region: PAE; pfam03283 404589000900 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 404589000901 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 404589000902 NAD(P) binding site [chemical binding]; other site 404589000903 Ferredoxin [Energy production and conversion]; Region: COG1146 404589000904 4Fe-4S binding domain; Region: Fer4_6; pfam12837 404589000905 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 404589000906 HSP70 interaction site [polypeptide binding]; other site 404589000907 Protein of unknown function (DUF938); Region: DUF938; pfam06080 404589000908 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 404589000909 active site 404589000910 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 404589000911 active site 2 [active] 404589000912 active site 1 [active] 404589000913 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589000914 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 404589000915 active site 404589000916 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 404589000917 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 404589000918 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 404589000919 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 404589000920 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589000921 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 404589000922 dimer interface [polypeptide binding]; other site 404589000923 metal binding site [ion binding]; metal-binding site 404589000924 substrate binding site [chemical binding]; other site 404589000925 OsmC-like protein; Region: OsmC; pfam02566 404589000926 argininosuccinate lyase; Provisional; Region: PRK00855 404589000927 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 404589000928 active sites [active] 404589000929 tetramer interface [polypeptide binding]; other site 404589000930 diaminopimelate decarboxylase; Region: lysA; TIGR01048 404589000931 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 404589000932 active site 404589000933 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 404589000934 substrate binding site [chemical binding]; other site 404589000935 catalytic residues [active] 404589000936 dimer interface [polypeptide binding]; other site 404589000937 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 404589000938 dihydrodipicolinate synthase; Region: dapA; TIGR00674 404589000939 dimer interface [polypeptide binding]; other site 404589000940 active site 404589000941 catalytic residue [active] 404589000942 dihydrodipicolinate reductase; Provisional; Region: PRK00048 404589000943 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 404589000944 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 404589000945 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 404589000946 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 404589000947 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 404589000948 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 404589000949 catalytic center binding site [active] 404589000950 ATP binding site [chemical binding]; other site 404589000951 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 404589000952 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 404589000953 putative C-terminal domain interface [polypeptide binding]; other site 404589000954 putative GSH binding site (G-site) [chemical binding]; other site 404589000955 putative dimer interface [polypeptide binding]; other site 404589000956 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 404589000957 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 404589000958 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 404589000959 intersubunit interface [polypeptide binding]; other site 404589000960 active site 404589000961 Zn2+ binding site [ion binding]; other site 404589000962 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 404589000963 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 404589000964 putative active site [active] 404589000965 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 404589000966 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 404589000967 active site 404589000968 intersubunit interactions; other site 404589000969 catalytic residue [active] 404589000970 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 404589000971 PGAP1-like protein; Region: PGAP1; pfam07819 404589000972 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 404589000973 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 404589000974 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 404589000975 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 404589000976 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 404589000977 substrate binding site [chemical binding]; other site 404589000978 active site 404589000979 catalytic residues [active] 404589000980 heterodimer interface [polypeptide binding]; other site 404589000981 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 404589000982 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 404589000983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589000984 catalytic residue [active] 404589000985 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 404589000986 active site 404589000987 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 404589000988 active site 404589000989 ribulose/triose binding site [chemical binding]; other site 404589000990 phosphate binding site [ion binding]; other site 404589000991 substrate (anthranilate) binding pocket [chemical binding]; other site 404589000992 product (indole) binding pocket [chemical binding]; other site 404589000993 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 404589000994 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 404589000995 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 404589000996 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 404589000997 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 404589000998 glutamine binding [chemical binding]; other site 404589000999 catalytic triad [active] 404589001000 anthranilate synthase component I; Provisional; Region: PRK13565 404589001001 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 404589001002 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 404589001003 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 404589001004 tetramerization interface [polypeptide binding]; other site 404589001005 active site 404589001006 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 404589001007 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 404589001008 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589001009 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 404589001010 Thioredoxin; Region: Thioredoxin_4; pfam13462 404589001011 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 404589001012 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 404589001013 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 404589001014 Thioredoxin; Region: Thioredoxin_4; pfam13462 404589001015 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 404589001016 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 404589001017 CPxP motif; other site 404589001018 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 404589001019 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 404589001020 Ligand Binding Site [chemical binding]; other site 404589001021 pyruvate phosphate dikinase; Provisional; Region: PRK09279 404589001022 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 404589001023 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 404589001024 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 404589001025 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 404589001026 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589001027 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 404589001028 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589001029 catalytic residues [active] 404589001030 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 404589001031 (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 404589001032 active site 404589001033 catalytic site [active] 404589001034 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 404589001035 active site 2 [active] 404589001036 active site 1 [active] 404589001037 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 404589001038 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 404589001039 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 404589001040 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 404589001041 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 404589001042 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 404589001043 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589001044 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589001045 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589001046 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 404589001047 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589001048 putative active site [active] 404589001049 putative metal binding site [ion binding]; other site 404589001050 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 404589001051 aromatic arch; other site 404589001052 DCoH dimer interaction site [polypeptide binding]; other site 404589001053 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 404589001054 DCoH tetramer interaction site [polypeptide binding]; other site 404589001055 substrate binding site [chemical binding]; other site 404589001056 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 404589001057 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 404589001058 active site residue [active] 404589001059 Major Facilitator Superfamily; Region: MFS_1; pfam07690 404589001060 POT family; Region: PTR2; cl17359 404589001061 POT family; Region: PTR2; cl17359 404589001062 Major Facilitator Superfamily; Region: MFS_1; pfam07690 404589001063 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 404589001064 POT family; Region: PTR2; cl17359 404589001065 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 404589001066 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 404589001067 ATP binding site [chemical binding]; other site 404589001068 putative Mg++ binding site [ion binding]; other site 404589001069 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 404589001070 nucleotide binding region [chemical binding]; other site 404589001071 ATP-binding site [chemical binding]; other site 404589001072 DEAD/H associated; Region: DEAD_assoc; pfam08494 404589001073 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 404589001074 active site 2 [active] 404589001075 active site 1 [active] 404589001076 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 404589001077 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589001078 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 404589001079 active site 404589001080 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 404589001081 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 404589001082 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 404589001083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589001084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589001085 metal binding site [ion binding]; metal-binding site 404589001086 active site 404589001087 I-site; other site 404589001088 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 404589001089 ligand binding site [chemical binding]; other site 404589001090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 404589001091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001092 active site 404589001093 phosphorylation site [posttranslational modification] 404589001094 intermolecular recognition site; other site 404589001095 dimerization interface [polypeptide binding]; other site 404589001096 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 404589001097 DNA binding site [nucleotide binding] 404589001098 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 404589001099 dimer interface [polypeptide binding]; other site 404589001100 phosphorylation site [posttranslational modification] 404589001101 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001102 ATP binding site [chemical binding]; other site 404589001103 Mg2+ binding site [ion binding]; other site 404589001104 G-X-G motif; other site 404589001105 PBP superfamily domain; Region: PBP_like_2; cl17296 404589001106 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 404589001107 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 404589001108 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 404589001109 dimer interface [polypeptide binding]; other site 404589001110 conserved gate region; other site 404589001111 putative PBP binding loops; other site 404589001112 ABC-ATPase subunit interface; other site 404589001113 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 404589001114 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 404589001115 ABC-ATPase subunit interface; other site 404589001116 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 404589001117 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 404589001118 Walker A/P-loop; other site 404589001119 ATP binding site [chemical binding]; other site 404589001120 Q-loop/lid; other site 404589001121 ABC transporter signature motif; other site 404589001122 Walker B; other site 404589001123 D-loop; other site 404589001124 H-loop/switch region; other site 404589001125 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 404589001126 PhoU domain; Region: PhoU; pfam01895 404589001127 PhoU domain; Region: PhoU; pfam01895 404589001128 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 404589001129 catalytic core [active] 404589001130 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 404589001131 active site 404589001132 NMT1-like family; Region: NMT1_2; pfam13379 404589001133 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 404589001134 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 404589001135 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 404589001136 dimer interface [polypeptide binding]; other site 404589001137 conserved gate region; other site 404589001138 putative PBP binding loops; other site 404589001139 ABC-ATPase subunit interface; other site 404589001140 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 404589001141 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 404589001142 Walker A/P-loop; other site 404589001143 ATP binding site [chemical binding]; other site 404589001144 Q-loop/lid; other site 404589001145 ABC transporter signature motif; other site 404589001146 Walker B; other site 404589001147 D-loop; other site 404589001148 H-loop/switch region; other site 404589001149 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 404589001150 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 404589001151 active site 404589001152 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 404589001153 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589001154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589001155 Walker A/P-loop; other site 404589001156 ATP binding site [chemical binding]; other site 404589001157 Q-loop/lid; other site 404589001158 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589001159 ABC transporter signature motif; other site 404589001160 Walker B; other site 404589001161 D-loop; other site 404589001162 ABC transporter; Region: ABC_tran_2; pfam12848 404589001163 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589001164 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 404589001165 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 404589001166 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 404589001167 active site 404589001168 catalytic site [active] 404589001169 Methyltransferase domain; Region: Methyltransf_32; pfam13679 404589001170 PAP2 superfamily C-terminal; Region: PAP2_C; pfam14360 404589001171 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 404589001172 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 404589001173 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 404589001174 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 404589001175 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589001176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001177 active site 404589001178 phosphorylation site [posttranslational modification] 404589001179 intermolecular recognition site; other site 404589001180 dimerization interface [polypeptide binding]; other site 404589001181 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cd09593 404589001182 ligand binding site [chemical binding]; other site 404589001183 active site 404589001184 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 404589001185 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 404589001186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001187 ATP binding site [chemical binding]; other site 404589001188 Mg2+ binding site [ion binding]; other site 404589001189 G-X-G motif; other site 404589001190 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 404589001191 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 404589001192 substrate binding site [chemical binding]; other site 404589001193 hexamer interface [polypeptide binding]; other site 404589001194 metal binding site [ion binding]; metal-binding site 404589001195 16S rRNA methyltransferase B; Provisional; Region: PRK14902 404589001196 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 404589001197 putative RNA binding site [nucleotide binding]; other site 404589001198 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 404589001199 S-adenosylmethionine binding site [chemical binding]; other site 404589001200 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 404589001201 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 404589001202 putative active site [active] 404589001203 substrate binding site [chemical binding]; other site 404589001204 putative cosubstrate binding site; other site 404589001205 catalytic site [active] 404589001206 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 404589001207 substrate binding site [chemical binding]; other site 404589001208 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589001209 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 404589001210 active site 404589001211 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 404589001212 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 404589001213 recombinase A; Provisional; Region: recA; PRK09354 404589001214 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 404589001215 hexamer interface [polypeptide binding]; other site 404589001216 Walker A motif; other site 404589001217 ATP binding site [chemical binding]; other site 404589001218 Walker B motif; other site 404589001219 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 404589001220 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 404589001221 30S subunit binding site; other site 404589001222 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 404589001223 DNA-binding site [nucleotide binding]; DNA binding site 404589001224 RNA-binding motif; other site 404589001225 hypothetical protein; Provisional; Region: PRK08609 404589001226 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 404589001227 active site 404589001228 primer binding site [nucleotide binding]; other site 404589001229 NTP binding site [chemical binding]; other site 404589001230 metal binding triad [ion binding]; metal-binding site 404589001231 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 404589001232 active site 404589001233 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 404589001234 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 404589001235 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 404589001236 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 404589001237 glutaminase active site [active] 404589001238 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 404589001239 dimer interface [polypeptide binding]; other site 404589001240 active site 404589001241 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 404589001242 dimer interface [polypeptide binding]; other site 404589001243 active site 404589001244 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 404589001245 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 404589001246 Substrate binding site; other site 404589001247 Mg++ binding site; other site 404589001248 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 404589001249 active site 404589001250 substrate binding site [chemical binding]; other site 404589001251 CoA binding site [chemical binding]; other site 404589001252 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 404589001253 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 404589001254 CheW-like domain; Region: CheW; pfam01584 404589001255 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 404589001256 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 404589001257 binding surface 404589001258 TPR motif; other site 404589001259 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001261 active site 404589001262 phosphorylation site [posttranslational modification] 404589001263 intermolecular recognition site; other site 404589001264 dimerization interface [polypeptide binding]; other site 404589001265 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 404589001266 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 404589001267 putative binding surface; other site 404589001268 active site 404589001269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001270 ATP binding site [chemical binding]; other site 404589001271 Mg2+ binding site [ion binding]; other site 404589001272 G-X-G motif; other site 404589001273 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 404589001274 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001275 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001276 active site 404589001277 phosphorylation site [posttranslational modification] 404589001278 intermolecular recognition site; other site 404589001279 dimerization interface [polypeptide binding]; other site 404589001280 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 404589001281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001282 active site 404589001283 phosphorylation site [posttranslational modification] 404589001284 intermolecular recognition site; other site 404589001285 dimerization interface [polypeptide binding]; other site 404589001286 CheB methylesterase; Region: CheB_methylest; pfam01339 404589001287 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 404589001288 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 404589001289 trimer interface [polypeptide binding]; other site 404589001290 dimer interface [polypeptide binding]; other site 404589001291 putative active site [active] 404589001292 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 404589001293 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589001294 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 404589001295 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 404589001296 S-adenosylmethionine binding site [chemical binding]; other site 404589001297 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 404589001298 Thioredoxin; Region: Thioredoxin_4; pfam13462 404589001299 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 404589001300 GcpE protein; Region: GcpE; pfam04551 404589001301 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 404589001302 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 404589001303 prolyl-tRNA synthetase; Provisional; Region: PRK09194 404589001304 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 404589001305 dimer interface [polypeptide binding]; other site 404589001306 motif 1; other site 404589001307 active site 404589001308 motif 2; other site 404589001309 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 404589001310 putative deacylase active site [active] 404589001311 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 404589001312 active site 404589001313 motif 3; other site 404589001314 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 404589001315 anticodon binding site; other site 404589001316 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589001317 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 404589001318 active site 404589001319 dimer interface [polypeptide binding]; other site 404589001320 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589001321 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 404589001322 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 404589001323 dimer interface [polypeptide binding]; other site 404589001324 decamer (pentamer of dimers) interface [polypeptide binding]; other site 404589001325 catalytic triad [active] 404589001326 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 404589001327 putative hydrophobic ligand binding site [chemical binding]; other site 404589001328 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 404589001329 dimerization interface [polypeptide binding]; other site 404589001330 putative DNA binding site [nucleotide binding]; other site 404589001331 putative Zn2+ binding site [ion binding]; other site 404589001332 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 404589001333 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 404589001334 homodimer interface [polypeptide binding]; other site 404589001335 active site 404589001336 TDP-binding site; other site 404589001337 acceptor substrate-binding pocket; other site 404589001338 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 404589001339 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 404589001340 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 404589001341 N-acetyl-D-glucosamine binding site [chemical binding]; other site 404589001342 catalytic residue [active] 404589001343 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 404589001344 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 404589001345 putative NAD(P) binding site [chemical binding]; other site 404589001346 RNA polymerase sigma factor; Provisional; Region: PRK11922 404589001347 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589001348 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 404589001349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 404589001350 Smr domain; Region: Smr; pfam01713 404589001351 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 404589001352 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 404589001353 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 404589001354 Walker A/P-loop; other site 404589001355 ATP binding site [chemical binding]; other site 404589001356 Q-loop/lid; other site 404589001357 ABC transporter signature motif; other site 404589001358 Walker B; other site 404589001359 D-loop; other site 404589001360 H-loop/switch region; other site 404589001361 FtsX-like permease family; Region: FtsX; pfam02687 404589001362 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 404589001363 FtsX-like permease family; Region: FtsX; pfam02687 404589001364 Domain of unknown function DUF302; Region: DUF302; pfam03625 404589001365 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 404589001366 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 404589001367 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 404589001368 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 404589001369 Malic enzyme, N-terminal domain; Region: malic; pfam00390 404589001370 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 404589001371 putative NAD(P) binding site [chemical binding]; other site 404589001372 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 404589001373 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 404589001374 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 404589001375 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 404589001376 putative DNA binding site [nucleotide binding]; other site 404589001377 catalytic residue [active] 404589001378 putative H2TH interface [polypeptide binding]; other site 404589001379 putative catalytic residues [active] 404589001380 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 404589001381 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 404589001382 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 404589001383 PAS domain; Region: PAS_9; pfam13426 404589001384 putative active site [active] 404589001385 heme pocket [chemical binding]; other site 404589001386 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 404589001387 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 404589001388 Walker A motif; other site 404589001389 ATP binding site [chemical binding]; other site 404589001390 Walker B motif; other site 404589001391 arginine finger; other site 404589001392 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589001393 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 404589001394 Amidase; Region: Amidase; pfam01425 404589001395 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 404589001396 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589001397 putative acyl-acceptor binding pocket; other site 404589001398 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 404589001399 RibD C-terminal domain; Region: RibD_C; cl17279 404589001400 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 404589001401 putative hydrophobic ligand binding site [chemical binding]; other site 404589001402 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 404589001403 putative DNA binding site [nucleotide binding]; other site 404589001404 putative Zn2+ binding site [ion binding]; other site 404589001405 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 404589001406 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 404589001407 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 404589001408 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 404589001409 dimerization interface [polypeptide binding]; other site 404589001410 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 404589001411 ATP binding site [chemical binding]; other site 404589001412 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 404589001413 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 404589001414 HupF/HypC family; Region: HupF_HypC; pfam01455 404589001415 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 404589001416 Acylphosphatase; Region: Acylphosphatase; pfam00708 404589001417 HypF finger; Region: zf-HYPF; pfam07503 404589001418 HypF finger; Region: zf-HYPF; pfam07503 404589001419 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 404589001420 HypF finger; Region: zf-HYPF; pfam07503 404589001421 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 404589001422 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 404589001423 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 404589001424 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 404589001425 nickel binding site [ion binding]; other site 404589001426 hydrogenase 2 large subunit; Provisional; Region: PRK10467 404589001427 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 404589001428 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 404589001429 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 404589001430 hydrogenase 2 small subunit; Provisional; Region: PRK10468 404589001431 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 404589001432 RmuC family; Region: RmuC; pfam02646 404589001433 Nudix hydrolase homolog; Region: PLN02791 404589001434 PAS domain S-box; Region: sensory_box; TIGR00229 404589001435 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 404589001436 putative active site [active] 404589001437 heme pocket [chemical binding]; other site 404589001438 PAS fold; Region: PAS_3; pfam08447 404589001439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589001440 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 404589001441 dimer interface [polypeptide binding]; other site 404589001442 phosphorylation site [posttranslational modification] 404589001443 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001444 ATP binding site [chemical binding]; other site 404589001445 Mg2+ binding site [ion binding]; other site 404589001446 G-X-G motif; other site 404589001447 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589001448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001449 active site 404589001450 phosphorylation site [posttranslational modification] 404589001451 intermolecular recognition site; other site 404589001452 dimerization interface [polypeptide binding]; other site 404589001453 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 404589001454 MgtC family; Region: MgtC; pfam02308 404589001455 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 404589001456 Predicted membrane protein [Function unknown]; Region: COG2119 404589001457 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 404589001458 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 404589001459 YwiC-like protein; Region: YwiC; pfam14256 404589001460 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 404589001461 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 404589001462 Spore Coat Protein U domain; Region: SCPU; pfam05229 404589001463 Spore Coat Protein U domain; Region: SCPU; pfam05229 404589001464 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001466 active site 404589001467 phosphorylation site [posttranslational modification] 404589001468 intermolecular recognition site; other site 404589001469 dimerization interface [polypeptide binding]; other site 404589001470 GAF domain; Region: GAF; pfam01590 404589001471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589001472 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 404589001473 dimer interface [polypeptide binding]; other site 404589001474 phosphorylation site [posttranslational modification] 404589001475 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001476 ATP binding site [chemical binding]; other site 404589001477 Mg2+ binding site [ion binding]; other site 404589001478 G-X-G motif; other site 404589001479 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001480 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001481 active site 404589001482 phosphorylation site [posttranslational modification] 404589001483 intermolecular recognition site; other site 404589001484 dimerization interface [polypeptide binding]; other site 404589001485 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 404589001486 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 404589001487 dimerization interface [polypeptide binding]; other site 404589001488 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 404589001489 dimerization interface [polypeptide binding]; other site 404589001490 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 404589001491 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 404589001492 dimerization interface [polypeptide binding]; other site 404589001493 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 404589001494 dimerization interface [polypeptide binding]; other site 404589001495 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 404589001496 dimerization interface [polypeptide binding]; other site 404589001497 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 404589001498 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 404589001499 dimerization interface [polypeptide binding]; other site 404589001500 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 404589001501 dimerization interface [polypeptide binding]; other site 404589001502 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 404589001503 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 404589001504 dimerization interface [polypeptide binding]; other site 404589001505 GAF domain; Region: GAF_2; pfam13185 404589001506 GAF domain; Region: GAF; pfam01590 404589001507 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 404589001508 dimer interface [polypeptide binding]; other site 404589001509 phosphorylation site [posttranslational modification] 404589001510 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001511 ATP binding site [chemical binding]; other site 404589001512 Mg2+ binding site [ion binding]; other site 404589001513 G-X-G motif; other site 404589001514 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001516 active site 404589001517 phosphorylation site [posttranslational modification] 404589001518 intermolecular recognition site; other site 404589001519 dimerization interface [polypeptide binding]; other site 404589001520 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 404589001521 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 404589001522 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 404589001523 active site 404589001524 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 404589001525 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 404589001526 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589001527 ligand binding site [chemical binding]; other site 404589001528 Hemerythrin; Region: Hemerythrin; cd12107 404589001529 Fe binding site [ion binding]; other site 404589001530 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 404589001531 active site 404589001532 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 404589001533 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589001534 active site 404589001535 catalytic tetrad [active] 404589001536 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 404589001537 active site 404589001538 Zn binding site [ion binding]; other site 404589001539 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 404589001540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 404589001541 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 404589001542 Peptidase family M48; Region: Peptidase_M48; cl12018 404589001543 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 404589001544 TPR motif; other site 404589001545 TPR repeat; Region: TPR_11; pfam13414 404589001546 binding surface 404589001547 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 404589001548 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 404589001549 Major Facilitator Superfamily; Region: MFS_1; pfam07690 404589001550 putative substrate translocation pore; other site 404589001551 Predicted membrane protein [Function unknown]; Region: COG2259 404589001552 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 404589001553 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 404589001554 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 404589001555 NAD binding site [chemical binding]; other site 404589001556 catalytic Zn binding site [ion binding]; other site 404589001557 structural Zn binding site [ion binding]; other site 404589001558 Cupin domain; Region: Cupin_2; cl17218 404589001559 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 404589001560 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 404589001561 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 404589001562 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 404589001563 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; cd01635 404589001564 Major Facilitator Superfamily; Region: MFS_1; pfam07690 404589001565 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 404589001566 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 404589001567 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 404589001568 Protein export membrane protein; Region: SecD_SecF; cl14618 404589001569 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 404589001570 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 404589001571 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 404589001572 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589001573 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589001574 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589001575 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 404589001576 CHAD domain; Region: CHAD; pfam05235 404589001577 Inorganic pyrophosphatase; Region: Pyrophosphatase; pfam00719 404589001578 dimer interface [polypeptide binding]; other site 404589001579 substrate binding site [chemical binding]; other site 404589001580 metal binding sites [ion binding]; metal-binding site 404589001581 polyphosphate kinase; Provisional; Region: PRK05443 404589001582 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 404589001583 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 404589001584 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 404589001585 putative domain interface [polypeptide binding]; other site 404589001586 putative active site [active] 404589001587 catalytic site [active] 404589001588 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 404589001589 putative domain interface [polypeptide binding]; other site 404589001590 putative active site [active] 404589001591 catalytic site [active] 404589001592 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 404589001593 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 404589001594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589001595 Zn2+ binding site [ion binding]; other site 404589001596 Mg2+ binding site [ion binding]; other site 404589001597 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 404589001598 Predicted membrane protein [Function unknown]; Region: COG2259 404589001599 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 404589001600 dimerization interface [polypeptide binding]; other site 404589001601 putative DNA binding site [nucleotide binding]; other site 404589001602 putative Zn2+ binding site [ion binding]; other site 404589001603 DoxX-like family; Region: DoxX_2; pfam13564 404589001604 YCII-related domain; Region: YCII; cl00999 404589001605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 404589001606 CHRD domain; Region: CHRD; cl06473 404589001607 CHRD domain; Region: CHRD; pfam07452 404589001608 CHRD domain; Region: CHRD; pfam07452 404589001609 CHRD domain; Region: CHRD; cl06473 404589001610 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 404589001611 iron-sulfur cluster [ion binding]; other site 404589001612 [2Fe-2S] cluster binding site [ion binding]; other site 404589001613 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 404589001614 iron-sulfur cluster [ion binding]; other site 404589001615 [2Fe-2S] cluster binding site [ion binding]; other site 404589001616 YceI-like domain; Region: YceI; pfam04264 404589001617 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589001618 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589001619 Homeodomain-like domain; Region: HTH_23; pfam13384 404589001620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589001621 dimer interface [polypeptide binding]; other site 404589001622 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 404589001623 putative CheW interface [polypeptide binding]; other site 404589001624 Predicted transcriptional regulators [Transcription]; Region: COG1510 404589001625 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 404589001626 putative DNA binding site [nucleotide binding]; other site 404589001627 putative Zn2+ binding site [ion binding]; other site 404589001628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589001629 NADH(P)-binding; Region: NAD_binding_10; pfam13460 404589001630 NAD(P) binding site [chemical binding]; other site 404589001631 active site 404589001632 YhhN-like protein; Region: YhhN; pfam07947 404589001633 short chain dehydrogenase; Provisional; Region: PRK08303 404589001634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589001635 NAD(P) binding site [chemical binding]; other site 404589001636 active site 404589001637 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 404589001638 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 404589001639 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 404589001640 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 404589001641 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 404589001642 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 404589001643 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 404589001644 catalytic core [active] 404589001645 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 404589001646 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 404589001647 putative active site [active] 404589001648 Bacterial transcriptional activator domain; Region: BTAD; smart01043 404589001649 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589001650 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589001651 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 404589001652 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 404589001653 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 404589001654 ATP binding site [chemical binding]; other site 404589001655 Walker B motif; other site 404589001656 arginine finger; other site 404589001657 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 404589001658 dimerization interface [polypeptide binding]; other site 404589001659 putative DNA binding site [nucleotide binding]; other site 404589001660 putative Zn2+ binding site [ion binding]; other site 404589001661 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 404589001662 putative hydrophobic ligand binding site [chemical binding]; other site 404589001663 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 404589001664 putative hydrophobic ligand binding site [chemical binding]; other site 404589001665 Fic family protein [Function unknown]; Region: COG3177 404589001666 Fic/DOC family; Region: Fic; pfam02661 404589001667 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 404589001668 DEAD-like helicases superfamily; Region: DEXDc; smart00487 404589001669 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 404589001670 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 404589001671 nucleotide binding region [chemical binding]; other site 404589001672 ATP-binding site [chemical binding]; other site 404589001673 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 404589001674 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 404589001675 metal binding site [ion binding]; metal-binding site 404589001676 putative dimer interface [polypeptide binding]; other site 404589001677 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 404589001678 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 404589001679 active site 404589001680 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 404589001681 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 404589001682 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 404589001683 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001685 active site 404589001686 phosphorylation site [posttranslational modification] 404589001687 intermolecular recognition site; other site 404589001688 dimerization interface [polypeptide binding]; other site 404589001689 GAF domain; Region: GAF_3; pfam13492 404589001690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589001691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589001692 metal binding site [ion binding]; metal-binding site 404589001693 I-site; other site 404589001694 active site 404589001695 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001697 active site 404589001698 phosphorylation site [posttranslational modification] 404589001699 intermolecular recognition site; other site 404589001700 dimerization interface [polypeptide binding]; other site 404589001701 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589001702 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 404589001703 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 404589001704 Hemerythrin; Region: Hemerythrin; cd12107 404589001705 Fe binding site [ion binding]; other site 404589001706 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 404589001707 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 404589001708 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 404589001709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589001710 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 404589001711 dimerization interface [polypeptide binding]; other site 404589001712 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 404589001713 dimer interface [polypeptide binding]; other site 404589001714 phosphorylation site [posttranslational modification] 404589001715 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001716 ATP binding site [chemical binding]; other site 404589001717 Mg2+ binding site [ion binding]; other site 404589001718 G-X-G motif; other site 404589001719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 404589001720 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 404589001721 WYL domain; Region: WYL; pfam13280 404589001722 Predicted transcriptional regulator [Transcription]; Region: COG2378 404589001723 WYL domain; Region: WYL; pfam13280 404589001724 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001726 active site 404589001727 phosphorylation site [posttranslational modification] 404589001728 intermolecular recognition site; other site 404589001729 dimerization interface [polypeptide binding]; other site 404589001730 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 404589001731 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 404589001732 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 404589001733 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589001734 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 404589001735 Clp amino terminal domain; Region: Clp_N; pfam02861 404589001736 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 404589001737 Walker A motif; other site 404589001738 ATP binding site [chemical binding]; other site 404589001739 Walker B motif; other site 404589001740 arginine finger; other site 404589001741 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 404589001742 Walker A motif; other site 404589001743 ATP binding site [chemical binding]; other site 404589001744 Walker B motif; other site 404589001745 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 404589001746 Arginine repressor [Transcription]; Region: ArgR; COG1438 404589001747 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 404589001748 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 404589001749 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 404589001750 heterotetramer interface [polypeptide binding]; other site 404589001751 active site pocket [active] 404589001752 cleavage site 404589001753 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 404589001754 homohexameric interface [polypeptide binding]; other site 404589001755 feedback inhibition sensing region; other site 404589001756 nucleotide binding site [chemical binding]; other site 404589001757 N-acetyl-L-glutamate binding site [chemical binding]; other site 404589001758 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 404589001759 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 404589001760 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 404589001761 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 404589001762 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589001763 DsbD alpha interface [polypeptide binding]; other site 404589001764 catalytic residues [active] 404589001765 cysteine desulfurase; Provisional; Region: PRK14012 404589001766 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 404589001767 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589001768 catalytic residue [active] 404589001769 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 404589001770 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 404589001771 trimerization site [polypeptide binding]; other site 404589001772 active site 404589001773 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 404589001774 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 404589001775 HSP70 interaction site [polypeptide binding]; other site 404589001776 chaperone protein HscA; Provisional; Region: hscA; PRK05183 404589001777 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 404589001778 nucleotide binding site [chemical binding]; other site 404589001779 putative NEF/HSP70 interaction site [polypeptide binding]; other site 404589001780 SBD interface [polypeptide binding]; other site 404589001781 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 404589001782 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 404589001783 catalytic loop [active] 404589001784 iron binding site [ion binding]; other site 404589001785 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 404589001786 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 404589001787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001788 active site 404589001789 phosphorylation site [posttranslational modification] 404589001790 intermolecular recognition site; other site 404589001791 dimerization interface [polypeptide binding]; other site 404589001792 CheB methylesterase; Region: CheB_methylest; pfam01339 404589001793 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 404589001794 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 404589001795 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 404589001796 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 404589001797 putative CheA interaction surface; other site 404589001798 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 404589001799 putative binding surface; other site 404589001800 active site 404589001801 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 404589001802 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 404589001803 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001804 ATP binding site [chemical binding]; other site 404589001805 Mg2+ binding site [ion binding]; other site 404589001806 G-X-G motif; other site 404589001807 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 404589001808 CheD chemotactic sensory transduction; Region: CheD; cl00810 404589001809 GAF domain; Region: GAF_3; pfam13492 404589001810 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589001811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001812 active site 404589001813 phosphorylation site [posttranslational modification] 404589001814 intermolecular recognition site; other site 404589001815 dimerization interface [polypeptide binding]; other site 404589001816 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589001817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001818 active site 404589001819 phosphorylation site [posttranslational modification] 404589001820 intermolecular recognition site; other site 404589001821 CheW-like domain; Region: CheW; pfam01584 404589001822 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 404589001823 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589001824 dimer interface [polypeptide binding]; other site 404589001825 putative CheW interface [polypeptide binding]; other site 404589001826 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 404589001827 putative binding surface; other site 404589001828 active site 404589001829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001830 ATP binding site [chemical binding]; other site 404589001831 Mg2+ binding site [ion binding]; other site 404589001832 G-X-G motif; other site 404589001833 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 404589001834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001835 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001836 active site 404589001837 phosphorylation site [posttranslational modification] 404589001838 intermolecular recognition site; other site 404589001839 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 404589001840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001841 active site 404589001842 phosphorylation site [posttranslational modification] 404589001843 intermolecular recognition site; other site 404589001844 dimerization interface [polypeptide binding]; other site 404589001845 CheB methylesterase; Region: CheB_methylest; pfam01339 404589001846 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 404589001847 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 404589001848 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 404589001849 TPR motif; other site 404589001850 binding surface 404589001851 TPR repeat; Region: TPR_11; pfam13414 404589001852 Response regulator receiver domain; Region: Response_reg; pfam00072 404589001853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001854 active site 404589001855 phosphorylation site [posttranslational modification] 404589001856 intermolecular recognition site; other site 404589001857 dimerization interface [polypeptide binding]; other site 404589001858 hypothetical protein; Validated; Region: PRK00110 404589001859 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 404589001860 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 404589001861 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 404589001862 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 404589001863 purine nucleoside phosphorylase; Provisional; Region: PRK08202 404589001864 PilZ domain; Region: PilZ; cl01260 404589001865 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 404589001866 active site 404589001867 catalytic motif [active] 404589001868 Zn binding site [ion binding]; other site 404589001869 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 404589001870 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 404589001871 active site 404589001872 Riboflavin kinase; Region: Flavokinase; pfam01687 404589001873 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 404589001874 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 404589001875 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 404589001876 Walker A motif; other site 404589001877 ATP binding site [chemical binding]; other site 404589001878 Walker B motif; other site 404589001879 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 404589001880 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 404589001881 Walker A motif; other site 404589001882 ATP binding site [chemical binding]; other site 404589001883 Walker B motif; other site 404589001884 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 404589001885 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 404589001886 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 404589001887 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 404589001888 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 404589001889 putative active site [active] 404589001890 heme pocket [chemical binding]; other site 404589001891 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 404589001892 dimer interface [polypeptide binding]; other site 404589001893 phosphorylation site [posttranslational modification] 404589001894 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001895 ATP binding site [chemical binding]; other site 404589001896 G-X-G motif; other site 404589001897 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589001898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001899 active site 404589001900 phosphorylation site [posttranslational modification] 404589001901 intermolecular recognition site; other site 404589001902 dimerization interface [polypeptide binding]; other site 404589001903 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 404589001904 Walker A motif; other site 404589001905 ATP binding site [chemical binding]; other site 404589001906 Walker B motif; other site 404589001907 arginine finger; other site 404589001908 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589001909 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 404589001910 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 404589001911 TPR repeat; Region: TPR_11; pfam13414 404589001912 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 404589001913 binding surface 404589001914 TPR motif; other site 404589001915 TPR repeat; Region: TPR_11; pfam13414 404589001916 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 404589001917 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 404589001918 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 404589001919 Walker A/P-loop; other site 404589001920 ATP binding site [chemical binding]; other site 404589001921 Q-loop/lid; other site 404589001922 ABC transporter signature motif; other site 404589001923 Walker B; other site 404589001924 D-loop; other site 404589001925 H-loop/switch region; other site 404589001926 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 404589001927 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 404589001928 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 404589001929 dimer interface [polypeptide binding]; other site 404589001930 phosphorylation site [posttranslational modification] 404589001931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589001932 ATP binding site [chemical binding]; other site 404589001933 G-X-G motif; other site 404589001934 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589001935 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589001936 active site 404589001937 phosphorylation site [posttranslational modification] 404589001938 intermolecular recognition site; other site 404589001939 dimerization interface [polypeptide binding]; other site 404589001940 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 404589001941 Walker A motif; other site 404589001942 ATP binding site [chemical binding]; other site 404589001943 Walker B motif; other site 404589001944 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589001945 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 404589001946 non-specific DNA binding site [nucleotide binding]; other site 404589001947 salt bridge; other site 404589001948 sequence-specific DNA binding site [nucleotide binding]; other site 404589001949 Competence protein A; Region: Competence_A; pfam11104 404589001950 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589001951 nucleotide binding site [chemical binding]; other site 404589001952 Cell division protein FtsA; Region: FtsA; pfam14450 404589001953 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 404589001954 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 404589001955 Pilus assembly protein, PilO; Region: PilO; cl01234 404589001956 Pilus assembly protein, PilP; Region: PilP; pfam04351 404589001957 AMIN domain; Region: AMIN; pfam11741 404589001958 AMIN domain; Region: AMIN; pfam11741 404589001959 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 404589001960 Secretin and TonB N terminus short domain; Region: STN; smart00965 404589001961 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 404589001962 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 404589001963 elongation factor P; Validated; Region: PRK00529 404589001964 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 404589001965 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 404589001966 RNA binding site [nucleotide binding]; other site 404589001967 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 404589001968 RNA binding site [nucleotide binding]; other site 404589001969 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 404589001970 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 404589001971 carboxyltransferase (CT) interaction site; other site 404589001972 biotinylation site [posttranslational modification]; other site 404589001973 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 404589001974 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 404589001975 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589001976 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 404589001977 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 404589001978 binding surface 404589001979 TPR motif; other site 404589001980 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 404589001981 binding surface 404589001982 TPR motif; other site 404589001983 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 404589001984 Tetratricopeptide repeat; Region: TPR_12; pfam13424 404589001985 binding surface 404589001986 TPR motif; other site 404589001987 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 404589001988 Family of unknown function (DUF490); Region: DUF490; pfam04357 404589001989 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589001990 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589001991 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589001992 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 404589001993 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 404589001994 exopolyphosphatase; Region: exo_poly_only; TIGR03706 404589001995 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 404589001996 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 404589001997 TolB amino-terminal domain; Region: TolB_N; pfam04052 404589001998 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589001999 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589002000 TolA protein; Region: tolA_full; TIGR02794 404589002001 TonB C terminal; Region: TonB_2; pfam13103 404589002002 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 404589002003 TolR protein; Region: tolR; TIGR02801 404589002004 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 404589002005 glutamate racemase; Provisional; Region: PRK00865 404589002006 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 404589002007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589002008 Walker A/P-loop; other site 404589002009 ATP binding site [chemical binding]; other site 404589002010 Q-loop/lid; other site 404589002011 ABC transporter signature motif; other site 404589002012 Walker B; other site 404589002013 D-loop; other site 404589002014 H-loop/switch region; other site 404589002015 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 404589002016 Peptidase family M23; Region: Peptidase_M23; pfam01551 404589002017 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 404589002018 C-terminal peptidase (prc); Region: prc; TIGR00225 404589002019 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 404589002020 protein binding site [polypeptide binding]; other site 404589002021 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 404589002022 Catalytic dyad [active] 404589002023 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 404589002024 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 404589002025 DXD motif; other site 404589002026 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 404589002027 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 404589002028 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 404589002029 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 404589002030 active site 404589002031 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 404589002032 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 404589002033 active site 404589002034 motif I; other site 404589002035 motif II; other site 404589002036 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 404589002037 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 404589002038 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 404589002039 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 404589002040 P loop; other site 404589002041 GTP binding site [chemical binding]; other site 404589002042 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 404589002043 AAA domain; Region: AAA_23; pfam13476 404589002044 Walker A/P-loop; other site 404589002045 ATP binding site [chemical binding]; other site 404589002046 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 404589002047 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 404589002048 ABC transporter signature motif; other site 404589002049 Walker B; other site 404589002050 D-loop; other site 404589002051 H-loop/switch region; other site 404589002052 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 404589002053 Competence protein A; Region: Competence_A; pfam11104 404589002054 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 404589002055 type II secretion system protein J; Region: gspJ; TIGR01711 404589002056 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 404589002057 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 404589002058 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 404589002059 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 404589002060 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 404589002061 type II secretion system protein F; Region: GspF; TIGR02120 404589002062 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 404589002063 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 404589002064 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 404589002065 type II secretion system protein E; Region: type_II_gspE; TIGR02533 404589002066 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 404589002067 Walker A motif; other site 404589002068 ATP binding site [chemical binding]; other site 404589002069 Walker B motif; other site 404589002070 type II secretion system protein D; Region: type_II_gspD; TIGR02517 404589002071 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 404589002072 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 404589002073 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 404589002074 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 404589002075 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 404589002076 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589002077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002078 active site 404589002079 phosphorylation site [posttranslational modification] 404589002080 intermolecular recognition site; other site 404589002081 dimerization interface [polypeptide binding]; other site 404589002082 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 404589002083 Walker A motif; other site 404589002084 ATP binding site [chemical binding]; other site 404589002085 Walker B motif; other site 404589002086 arginine finger; other site 404589002087 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589002088 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 404589002089 transcription termination factor Rho; Provisional; Region: rho; PRK09376 404589002090 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 404589002091 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 404589002092 RNA binding site [nucleotide binding]; other site 404589002093 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 404589002094 multimer interface [polypeptide binding]; other site 404589002095 Walker A motif; other site 404589002096 ATP binding site [chemical binding]; other site 404589002097 Walker B motif; other site 404589002098 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 404589002099 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 404589002100 nucleotide binding pocket [chemical binding]; other site 404589002101 K-X-D-G motif; other site 404589002102 catalytic site [active] 404589002103 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 404589002104 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 404589002105 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 404589002106 Dimer interface [polypeptide binding]; other site 404589002107 BRCT sequence motif; other site 404589002108 acylphosphatase; Provisional; Region: PRK14441 404589002109 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 404589002110 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 404589002111 FeS/SAM binding site; other site 404589002112 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 404589002113 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 404589002114 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 404589002115 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 404589002116 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 404589002117 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 404589002118 Transcriptional regulator; Region: Rrf2; cl17282 404589002119 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 404589002120 IHF dimer interface [polypeptide binding]; other site 404589002121 IHF - DNA interface [nucleotide binding]; other site 404589002122 FHIPEP family; Region: FHIPEP; pfam00771 404589002123 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 404589002124 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 404589002125 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 404589002126 type III secretion system protein YscR; Provisional; Region: PRK12797 404589002127 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 404589002128 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 404589002129 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 404589002130 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 404589002131 dinuclear metal binding motif [ion binding]; other site 404589002132 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 404589002133 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 404589002134 histidinol dehydrogenase; Region: hisD; TIGR00069 404589002135 NAD binding site [chemical binding]; other site 404589002136 dimerization interface [polypeptide binding]; other site 404589002137 product binding site; other site 404589002138 substrate binding site [chemical binding]; other site 404589002139 zinc binding site [ion binding]; other site 404589002140 catalytic residues [active] 404589002141 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 404589002142 putative active site pocket [active] 404589002143 4-fold oligomerization interface [polypeptide binding]; other site 404589002144 metal binding residues [ion binding]; metal-binding site 404589002145 3-fold/trimer interface [polypeptide binding]; other site 404589002146 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 404589002147 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 404589002148 putative active site [active] 404589002149 oxyanion strand; other site 404589002150 catalytic triad [active] 404589002151 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 404589002152 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 404589002153 catalytic residues [active] 404589002154 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 404589002155 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 404589002156 substrate binding site [chemical binding]; other site 404589002157 glutamase interaction surface [polypeptide binding]; other site 404589002158 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 404589002159 Yqey-like protein; Region: YqeY; pfam09424 404589002160 DNA primase, catalytic core; Region: dnaG; TIGR01391 404589002161 CHC2 zinc finger; Region: zf-CHC2; pfam01807 404589002162 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 404589002163 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 404589002164 active site 404589002165 metal binding site [ion binding]; metal-binding site 404589002166 interdomain interaction site; other site 404589002167 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 404589002168 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 404589002169 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 404589002170 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 404589002171 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589002172 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 404589002173 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 404589002174 DNA binding residues [nucleotide binding] 404589002175 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 404589002176 Putative zinc ribbon domain; Region: DUF164; pfam02591 404589002177 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 404589002178 RNA/DNA hybrid binding site [nucleotide binding]; other site 404589002179 active site 404589002180 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 404589002181 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 404589002182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589002183 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 404589002184 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 404589002185 active site 404589002186 catalytic residues [active] 404589002187 metal binding site [ion binding]; metal-binding site 404589002188 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 404589002189 chaperone protein DnaJ; Provisional; Region: PRK14285 404589002190 primosome assembly protein PriA; Validated; Region: PRK05580 404589002191 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 404589002192 ATP binding site [chemical binding]; other site 404589002193 putative Mg++ binding site [ion binding]; other site 404589002194 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 404589002195 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 404589002196 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 404589002197 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 404589002198 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 404589002199 recombination factor protein RarA; Reviewed; Region: PRK13342 404589002200 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 404589002201 Walker A motif; other site 404589002202 ATP binding site [chemical binding]; other site 404589002203 Walker B motif; other site 404589002204 arginine finger; other site 404589002205 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 404589002206 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 404589002207 ATP-NAD kinase; Region: NAD_kinase; pfam01513 404589002208 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 404589002209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589002210 Walker A/P-loop; other site 404589002211 ATP binding site [chemical binding]; other site 404589002212 Q-loop/lid; other site 404589002213 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 404589002214 ABC transporter signature motif; other site 404589002215 Walker B; other site 404589002216 D-loop; other site 404589002217 H-loop/switch region; other site 404589002218 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 404589002219 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 404589002220 Peptidase family M23; Region: Peptidase_M23; pfam01551 404589002221 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 404589002222 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 404589002223 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 404589002224 nucleotide binding region [chemical binding]; other site 404589002225 SEC-C motif; Region: SEC-C; pfam02810 404589002226 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589002227 FOG: CBS domain [General function prediction only]; Region: COG0517 404589002228 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 404589002229 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 404589002230 minor groove reading motif; other site 404589002231 helix-hairpin-helix signature motif; other site 404589002232 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 404589002233 AsnC family; Region: AsnC_trans_reg; pfam01037 404589002234 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 404589002235 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 404589002236 FAD binding pocket [chemical binding]; other site 404589002237 conserved FAD binding motif [chemical binding]; other site 404589002238 phosphate binding motif [ion binding]; other site 404589002239 beta-alpha-beta structure motif; other site 404589002240 NAD binding pocket [chemical binding]; other site 404589002241 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 404589002242 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 404589002243 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589002244 active site 404589002245 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 404589002246 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 404589002247 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 404589002248 Peptidase family M23; Region: Peptidase_M23; pfam01551 404589002249 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 404589002250 MarR family; Region: MarR; pfam01047 404589002251 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589002252 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 404589002253 dimer interface [polypeptide binding]; other site 404589002254 phosphorylation site [posttranslational modification] 404589002255 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002256 ATP binding site [chemical binding]; other site 404589002257 Mg2+ binding site [ion binding]; other site 404589002258 G-X-G motif; other site 404589002259 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 404589002260 putative deacylase active site [active] 404589002261 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 404589002262 FeS/SAM binding site; other site 404589002263 4Fe-4S binding domain; Region: Fer4_5; pfam12801 404589002264 4Fe-4S binding domain; Region: Fer4_5; pfam12801 404589002265 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 404589002266 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 404589002267 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 404589002268 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 404589002269 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 404589002270 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 404589002271 Histidine kinase-like ATPases; This family includes several ATP-binding 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 404589002272 ATP binding site [chemical binding]; other site 404589002273 Mg2+ binding site [ion binding]; other site 404589002274 G-X-G motif; other site 404589002275 stage II sporulation protein E; Region: spore_II_E; TIGR02865 404589002276 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 404589002277 ATP binding site [chemical binding]; other site 404589002278 Mg2+ binding site [ion binding]; other site 404589002279 G-X-G motif; other site 404589002280 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 404589002281 dimer interface [polypeptide binding]; other site 404589002282 phosphorylation site [posttranslational modification] 404589002283 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002284 ATP binding site [chemical binding]; other site 404589002285 Mg2+ binding site [ion binding]; other site 404589002286 G-X-G motif; other site 404589002287 Response regulator receiver domain; Region: Response_reg; pfam00072 404589002288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002289 active site 404589002290 phosphorylation site [posttranslational modification] 404589002291 intermolecular recognition site; other site 404589002292 dimerization interface [polypeptide binding]; other site 404589002293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002294 phosphorylation site [posttranslational modification] 404589002295 intermolecular recognition site; other site 404589002296 Response regulator receiver domain; Region: Response_reg; pfam00072 404589002297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002298 active site 404589002299 phosphorylation site [posttranslational modification] 404589002300 intermolecular recognition site; other site 404589002301 dimerization interface [polypeptide binding]; other site 404589002302 PAS domain; Region: PAS_9; pfam13426 404589002303 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 404589002304 dimer interface [polypeptide binding]; other site 404589002305 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589002306 phosphorylation site [posttranslational modification] 404589002307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002308 ATP binding site [chemical binding]; other site 404589002309 Mg2+ binding site [ion binding]; other site 404589002310 G-X-G motif; other site 404589002311 Predicted permeases [General function prediction only]; Region: RarD; COG2962 404589002312 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 404589002313 Ligand Binding Site [chemical binding]; other site 404589002314 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 404589002315 putative hydrophobic ligand binding site [chemical binding]; other site 404589002316 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 404589002317 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 404589002318 putative active site [active] 404589002319 putative FMN binding site [chemical binding]; other site 404589002320 putative substrate binding site [chemical binding]; other site 404589002321 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 404589002322 Rubrerythrin [Energy production and conversion]; Region: COG1592 404589002323 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 404589002324 binuclear metal center [ion binding]; other site 404589002325 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 404589002326 Cysteine-rich domain; Region: CCG; pfam02754 404589002327 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 404589002328 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 404589002329 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 404589002330 active site 404589002331 catalytic site [active] 404589002332 substrate binding site [chemical binding]; other site 404589002333 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 404589002334 intracellular protease, PfpI family; Region: PfpI; TIGR01382 404589002335 proposed catalytic triad [active] 404589002336 conserved cys residue [active] 404589002337 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 404589002338 active site 404589002339 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 404589002340 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 404589002341 ligand binding site [chemical binding]; other site 404589002342 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 404589002343 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589002344 metal binding triad; other site 404589002345 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 404589002346 active site 404589002347 Phosphotransferase enzyme family; Region: APH; pfam01636 404589002348 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 404589002349 active site 404589002350 ATP binding site [chemical binding]; other site 404589002351 substrate binding site [chemical binding]; other site 404589002352 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 404589002353 DnaJ domain; Region: DnaJ; pfam00226 404589002354 Response regulator receiver domain; Region: Response_reg; pfam00072 404589002355 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002356 active site 404589002357 phosphorylation site [posttranslational modification] 404589002358 intermolecular recognition site; other site 404589002359 dimerization interface [polypeptide binding]; other site 404589002360 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 404589002361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589002362 NAD(P) binding site [chemical binding]; other site 404589002363 active site 404589002364 Domain of unknown function DUF21; Region: DUF21; pfam01595 404589002365 FOG: CBS domain [General function prediction only]; Region: COG0517 404589002366 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 404589002367 Transporter associated domain; Region: CorC_HlyC; smart01091 404589002368 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 404589002369 dimer interface [polypeptide binding]; other site 404589002370 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 404589002371 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 404589002372 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 404589002373 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 404589002374 TPP-binding site [chemical binding]; other site 404589002375 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 404589002376 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 404589002377 E3 interaction surface; other site 404589002378 lipoyl attachment site [posttranslational modification]; other site 404589002379 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 404589002380 e3 binding domain; Region: E3_binding; pfam02817 404589002381 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 404589002382 Protein of unknown function DUF72; Region: DUF72; pfam01904 404589002383 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 404589002384 active site 404589002385 DNA binding site [nucleotide binding] 404589002386 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 404589002387 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 404589002388 DNA binding site [nucleotide binding] 404589002389 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 404589002390 nucleotide binding site [chemical binding]; other site 404589002391 nucleotide binding region [chemical binding]; other site 404589002392 helicase superfamily c-terminal domain; Region: HELICc; smart00490 404589002393 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 404589002394 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 404589002395 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 404589002396 dimerization interface [polypeptide binding]; other site 404589002397 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589002398 dimer interface [polypeptide binding]; other site 404589002399 putative CheW interface [polypeptide binding]; other site 404589002400 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 404589002401 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 404589002402 Walker A motif; other site 404589002403 ATP binding site [chemical binding]; other site 404589002404 Walker B motif; other site 404589002405 arginine finger; other site 404589002406 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 404589002407 Walker A motif; other site 404589002408 ATP binding site [chemical binding]; other site 404589002409 Walker B motif; other site 404589002410 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 404589002411 Uncharacterized conserved protein [Function unknown]; Region: COG2127 404589002412 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 404589002413 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 404589002414 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589002415 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 404589002416 DNA binding residues [nucleotide binding] 404589002417 Putative zinc-finger; Region: zf-HC2; pfam13490 404589002418 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 404589002419 heme-binding residues [chemical binding]; other site 404589002420 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 404589002421 molybdopterin cofactor binding site; other site 404589002422 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 404589002423 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 404589002424 4Fe-4S binding domain; Region: Fer4_2; pfam12797 404589002425 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 404589002426 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 404589002427 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 404589002428 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 404589002429 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 404589002430 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 404589002431 Cu(I) binding site [ion binding]; other site 404589002432 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 404589002433 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 404589002434 Cytochrome c; Region: Cytochrom_C; pfam00034 404589002435 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 404589002436 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 404589002437 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 404589002438 Subunit I/III interface [polypeptide binding]; other site 404589002439 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 404589002440 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589002441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002442 active site 404589002443 phosphorylation site [posttranslational modification] 404589002444 intermolecular recognition site; other site 404589002445 dimerization interface [polypeptide binding]; other site 404589002446 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 404589002447 Walker A motif; other site 404589002448 ATP binding site [chemical binding]; other site 404589002449 Walker B motif; other site 404589002450 arginine finger; other site 404589002451 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589002452 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 404589002453 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 404589002454 active site 404589002455 dimer interface [polypeptide binding]; other site 404589002456 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 404589002457 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 404589002458 active site 404589002459 FMN binding site [chemical binding]; other site 404589002460 substrate binding site [chemical binding]; other site 404589002461 3Fe-4S cluster binding site [ion binding]; other site 404589002462 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 404589002463 domain interface; other site 404589002464 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 404589002465 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589002466 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 404589002467 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 404589002468 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 404589002469 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 404589002470 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 404589002471 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 404589002472 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 404589002473 FeS/SAM binding site; other site 404589002474 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 404589002475 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 404589002476 4Fe-4S binding domain; Region: Fer4; pfam00037 404589002477 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 404589002478 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 404589002479 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 404589002480 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 404589002481 molybdopterin cofactor binding site; other site 404589002482 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 404589002483 AAA ATPase domain; Region: AAA_16; pfam13191 404589002484 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 404589002485 Walker A motif; other site 404589002486 ATP binding site [chemical binding]; other site 404589002487 Family description; Region: UvrD_C_2; pfam13538 404589002488 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 404589002489 dimer interface [polypeptide binding]; other site 404589002490 catalytic triad [active] 404589002491 peroxidatic and resolving cysteines [active] 404589002492 Cupin domain; Region: Cupin_2; cl17218 404589002493 Cupin domain; Region: Cupin_2; cl17218 404589002494 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 404589002495 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 404589002496 Cna protein B-type domain; Region: Cna_B_2; pfam13715 404589002497 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 404589002498 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 404589002499 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 404589002500 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 404589002501 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 404589002502 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 404589002503 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589002504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589002505 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 404589002506 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 404589002507 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589002508 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589002509 ABC transporter; Region: ABC_tran_2; pfam12848 404589002510 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589002511 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589002512 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 404589002513 dimer interface [polypeptide binding]; other site 404589002514 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 404589002515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002516 active site 404589002517 phosphorylation site [posttranslational modification] 404589002518 intermolecular recognition site; other site 404589002519 dimerization interface [polypeptide binding]; other site 404589002520 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 404589002521 DNA binding site [nucleotide binding] 404589002522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589002523 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 404589002524 dimerization interface [polypeptide binding]; other site 404589002525 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 404589002526 dimer interface [polypeptide binding]; other site 404589002527 phosphorylation site [posttranslational modification] 404589002528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002529 ATP binding site [chemical binding]; other site 404589002530 G-X-G motif; other site 404589002531 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 404589002532 CGNR zinc finger; Region: zf-CGNR; pfam11706 404589002533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589002534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589002535 short chain dehydrogenase; Provisional; Region: PRK08263 404589002536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589002537 NAD(P) binding site [chemical binding]; other site 404589002538 active site 404589002539 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 404589002540 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 404589002541 Glutamate binding site [chemical binding]; other site 404589002542 NAD binding site [chemical binding]; other site 404589002543 catalytic residues [active] 404589002544 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589002545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002546 active site 404589002547 phosphorylation site [posttranslational modification] 404589002548 intermolecular recognition site; other site 404589002549 dimerization interface [polypeptide binding]; other site 404589002550 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 404589002551 Walker A motif; other site 404589002552 ATP binding site [chemical binding]; other site 404589002553 Walker B motif; other site 404589002554 arginine finger; other site 404589002555 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589002556 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589002557 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 404589002558 dimer interface [polypeptide binding]; other site 404589002559 phosphorylation site [posttranslational modification] 404589002560 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002561 ATP binding site [chemical binding]; other site 404589002562 Mg2+ binding site [ion binding]; other site 404589002563 G-X-G motif; other site 404589002564 Outer membrane efflux protein; Region: OEP; pfam02321 404589002565 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 404589002566 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589002567 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 404589002568 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 404589002569 Walker A/P-loop; other site 404589002570 ATP binding site [chemical binding]; other site 404589002571 Q-loop/lid; other site 404589002572 ABC transporter signature motif; other site 404589002573 Walker B; other site 404589002574 D-loop; other site 404589002575 H-loop/switch region; other site 404589002576 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 404589002577 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 404589002578 Walker A/P-loop; other site 404589002579 ATP binding site [chemical binding]; other site 404589002580 Q-loop/lid; other site 404589002581 ABC transporter signature motif; other site 404589002582 Walker B; other site 404589002583 D-loop; other site 404589002584 H-loop/switch region; other site 404589002585 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 404589002586 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 404589002587 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 404589002588 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 404589002589 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 404589002590 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 404589002591 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 404589002592 Walker A/P-loop; other site 404589002593 ATP binding site [chemical binding]; other site 404589002594 Q-loop/lid; other site 404589002595 ABC transporter signature motif; other site 404589002596 Walker B; other site 404589002597 D-loop; other site 404589002598 H-loop/switch region; other site 404589002599 ABC-2 type transporter; Region: ABC2_membrane; cl17235 404589002600 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 404589002601 DEAD-like helicases superfamily; Region: DEXDc; smart00487 404589002602 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 404589002603 ATP binding site [chemical binding]; other site 404589002604 putative Mg++ binding site [ion binding]; other site 404589002605 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 404589002606 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 404589002607 nucleotide binding region [chemical binding]; other site 404589002608 ATP-binding site [chemical binding]; other site 404589002609 HRDC domain; Region: HRDC; pfam00570 404589002610 YaeQ protein; Region: YaeQ; cl01913 404589002611 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 404589002612 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 404589002613 dimerization interface [polypeptide binding]; other site 404589002614 putative DNA binding site [nucleotide binding]; other site 404589002615 putative Zn2+ binding site [ion binding]; other site 404589002616 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 404589002617 putative ABC transporter; Region: ycf24; CHL00085 404589002618 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 404589002619 FeS assembly ATPase SufC; Region: sufC; TIGR01978 404589002620 Walker A/P-loop; other site 404589002621 ATP binding site [chemical binding]; other site 404589002622 Q-loop/lid; other site 404589002623 ABC transporter signature motif; other site 404589002624 Walker B; other site 404589002625 D-loop; other site 404589002626 H-loop/switch region; other site 404589002627 FeS assembly protein SufD; Region: sufD; TIGR01981 404589002628 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 404589002629 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 404589002630 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 404589002631 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589002632 catalytic residue [active] 404589002633 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 404589002634 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 404589002635 trimerization site [polypeptide binding]; other site 404589002636 active site 404589002637 Domain of unknown function DUF59; Region: DUF59; cl00941 404589002638 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589002639 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 404589002640 phosphopeptide binding site; other site 404589002641 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 404589002642 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589002643 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589002644 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589002645 Cna protein B-type domain; Region: Cna_B_2; pfam13715 404589002646 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 404589002647 protein binding site [polypeptide binding]; other site 404589002648 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589002649 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 404589002650 protein binding site [polypeptide binding]; other site 404589002651 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 404589002652 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589002653 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 404589002654 protein binding site [polypeptide binding]; other site 404589002655 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589002656 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 404589002657 DNA binding residues [nucleotide binding] 404589002658 dimerization interface [polypeptide binding]; other site 404589002659 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 404589002660 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 404589002661 putative rRNA binding site [nucleotide binding]; other site 404589002662 TfuA-like protein; Region: TfuA; pfam07812 404589002663 YcaO-like family; Region: YcaO; pfam02624 404589002664 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 404589002665 hypothetical protein; Provisional; Region: PRK07907 404589002666 active site 404589002667 metal binding site [ion binding]; metal-binding site 404589002668 dimer interface [polypeptide binding]; other site 404589002669 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 404589002670 homodimer interface [polypeptide binding]; other site 404589002671 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 404589002672 active site pocket [active] 404589002673 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 404589002674 active site 404589002675 DNA binding site [nucleotide binding] 404589002676 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 404589002677 Repair protein; Region: Repair_PSII; pfam04536 404589002678 Repair protein; Region: Repair_PSII; cl01535 404589002679 potassium/proton antiporter; Reviewed; Region: PRK05326 404589002680 TrkA-C domain; Region: TrkA_C; pfam02080 404589002681 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 404589002682 FeS/SAM binding site; other site 404589002683 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 404589002684 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 404589002685 non-specific DNA binding site [nucleotide binding]; other site 404589002686 salt bridge; other site 404589002687 sequence-specific DNA binding site [nucleotide binding]; other site 404589002688 Cupin domain; Region: Cupin_2; pfam07883 404589002689 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 404589002690 Response regulator receiver domain; Region: Response_reg; pfam00072 404589002691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002692 active site 404589002693 phosphorylation site [posttranslational modification] 404589002694 intermolecular recognition site; other site 404589002695 dimerization interface [polypeptide binding]; other site 404589002696 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 404589002697 binding surface 404589002698 TPR motif; other site 404589002699 TPR repeat; Region: TPR_11; pfam13414 404589002700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 404589002701 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 404589002702 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 404589002703 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589002704 ligand binding site [chemical binding]; other site 404589002705 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 404589002706 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 404589002707 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 404589002708 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 404589002709 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 404589002710 putative DNA binding site [nucleotide binding]; other site 404589002711 putative homodimer interface [polypeptide binding]; other site 404589002712 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 404589002713 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 404589002714 active site 404589002715 DNA binding site [nucleotide binding] 404589002716 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 404589002717 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 404589002718 DNA binding site [nucleotide binding] 404589002719 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 404589002720 nucleotide binding site [chemical binding]; other site 404589002721 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 404589002722 Mechanosensitive ion channel; Region: MS_channel; pfam00924 404589002723 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 404589002724 TPR motif; other site 404589002725 TPR repeat; Region: TPR_11; pfam13414 404589002726 binding surface 404589002727 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 404589002728 TPR motif; other site 404589002729 binding surface 404589002730 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 404589002731 binding surface 404589002732 TPR motif; other site 404589002733 TPR repeat; Region: TPR_11; pfam13414 404589002734 Protein of unknown function (DUF420); Region: DUF420; pfam04238 404589002735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589002736 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 404589002737 Walker A/P-loop; other site 404589002738 ATP binding site [chemical binding]; other site 404589002739 Q-loop/lid; other site 404589002740 ABC transporter signature motif; other site 404589002741 Walker B; other site 404589002742 D-loop; other site 404589002743 H-loop/switch region; other site 404589002744 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 404589002745 ABC-2 type transporter; Region: ABC2_membrane; cl17235 404589002746 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 404589002747 UbiA prenyltransferase family; Region: UbiA; pfam01040 404589002748 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 404589002749 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 404589002750 TIGR02300 family protein; Region: FYDLN_acid 404589002751 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 404589002752 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 404589002753 Ligand Binding Site [chemical binding]; other site 404589002754 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 404589002755 intersubunit interface [polypeptide binding]; other site 404589002756 active site 404589002757 catalytic residue [active] 404589002758 phosphopentomutase; Provisional; Region: PRK05362 404589002759 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 404589002760 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 404589002761 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589002762 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 404589002763 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 404589002764 Cytochrome c552; Region: Cytochrom_C552; pfam02335 404589002765 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 404589002766 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 404589002767 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 404589002768 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 404589002769 metal binding site [ion binding]; metal-binding site 404589002770 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 404589002771 dimerization interface [polypeptide binding]; other site 404589002772 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 404589002773 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 404589002774 Myb/SANT-like DNA-binding domain; Region: Myb_DNA-bind_3; pfam12776 404589002775 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 404589002776 Cytochrome c552; Region: Cytochrom_C552; pfam02335 404589002777 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589002778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002779 active site 404589002780 phosphorylation site [posttranslational modification] 404589002781 intermolecular recognition site; other site 404589002782 dimerization interface [polypeptide binding]; other site 404589002783 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 404589002784 Walker A motif; other site 404589002785 ATP binding site [chemical binding]; other site 404589002786 Walker B motif; other site 404589002787 arginine finger; other site 404589002788 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589002789 PAS domain; Region: PAS_10; pfam13596 404589002790 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 404589002791 putative active site [active] 404589002792 heme pocket [chemical binding]; other site 404589002793 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 404589002794 dimer interface [polypeptide binding]; other site 404589002795 phosphorylation site [posttranslational modification] 404589002796 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002797 ATP binding site [chemical binding]; other site 404589002798 Mg2+ binding site [ion binding]; other site 404589002799 G-X-G motif; other site 404589002800 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 404589002801 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 404589002802 homodimer interface [polypeptide binding]; other site 404589002803 substrate-cofactor binding pocket; other site 404589002804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589002805 catalytic residue [active] 404589002806 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 404589002807 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589002808 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 404589002809 acyl-activating enzyme (AAE) consensus motif; other site 404589002810 putative AMP binding site [chemical binding]; other site 404589002811 putative active site [active] 404589002812 putative CoA binding site [chemical binding]; other site 404589002813 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 404589002814 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 404589002815 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 404589002816 P loop; other site 404589002817 Nucleotide binding site [chemical binding]; other site 404589002818 DTAP/Switch II; other site 404589002819 Switch I; other site 404589002820 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 404589002821 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 404589002822 DTAP/Switch II; other site 404589002823 Switch I; other site 404589002824 methyl-accepting protein IV; Provisional; Region: PRK09793 404589002825 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 404589002826 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 404589002827 P-loop; other site 404589002828 Magnesium ion binding site [ion binding]; other site 404589002829 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 404589002830 Magnesium ion binding site [ion binding]; other site 404589002831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 404589002832 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 404589002833 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 404589002834 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 404589002835 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 404589002836 active site 404589002837 catalytic site [active] 404589002838 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 404589002839 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 404589002840 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 404589002841 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 404589002842 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 404589002843 tetramer interface [polypeptide binding]; other site 404589002844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589002845 catalytic residue [active] 404589002846 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 404589002847 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 404589002848 catalytic residues [active] 404589002849 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 404589002850 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 404589002851 hypothetical protein; Reviewed; Region: PRK09588 404589002852 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 404589002853 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 404589002854 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 404589002855 cation binding site [ion binding]; other site 404589002856 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 404589002857 potassium uptake protein; Region: kup; TIGR00794 404589002858 Transmembrane secretion effector; Region: MFS_3; pfam05977 404589002859 H+ Antiporter protein; Region: 2A0121; TIGR00900 404589002860 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 404589002861 putative substrate translocation pore; other site 404589002862 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 404589002863 active site 404589002864 putative DNA-binding cleft [nucleotide binding]; other site 404589002865 dimer interface [polypeptide binding]; other site 404589002866 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 404589002867 RuvA N terminal domain; Region: RuvA_N; pfam01330 404589002868 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 404589002869 active site 404589002870 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 404589002871 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 404589002872 Walker A motif; other site 404589002873 ATP binding site [chemical binding]; other site 404589002874 Walker B motif; other site 404589002875 arginine finger; other site 404589002876 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 404589002877 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589002878 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 404589002879 active site 404589002880 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 404589002881 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 404589002882 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 404589002883 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 404589002884 putative hydrophobic ligand binding site [chemical binding]; other site 404589002885 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 404589002886 MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: MtLigD_Pol_like; cd04863 404589002887 nucleotide binding site [chemical binding]; other site 404589002888 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 404589002889 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 404589002890 putative DNA binding site [nucleotide binding]; other site 404589002891 putative homodimer interface [polypeptide binding]; other site 404589002892 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 404589002893 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 404589002894 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 404589002895 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 404589002896 hypothetical protein; Provisional; Region: PRK10621 404589002897 Response regulator receiver domain; Region: Response_reg; pfam00072 404589002898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002899 active site 404589002900 phosphorylation site [posttranslational modification] 404589002901 intermolecular recognition site; other site 404589002902 dimerization interface [polypeptide binding]; other site 404589002903 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 404589002904 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589002905 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 404589002906 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 404589002907 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 404589002908 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 404589002909 motif II; other site 404589002910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589002911 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 404589002912 dimer interface [polypeptide binding]; other site 404589002913 phosphorylation site [posttranslational modification] 404589002914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002915 ATP binding site [chemical binding]; other site 404589002916 Mg2+ binding site [ion binding]; other site 404589002917 G-X-G motif; other site 404589002918 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589002919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002920 active site 404589002921 phosphorylation site [posttranslational modification] 404589002922 intermolecular recognition site; other site 404589002923 dimerization interface [polypeptide binding]; other site 404589002924 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 404589002925 Walker A motif; other site 404589002926 ATP binding site [chemical binding]; other site 404589002927 Walker B motif; other site 404589002928 arginine finger; other site 404589002929 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589002930 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 404589002931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589002932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589002933 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 404589002934 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 404589002935 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589002936 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589002937 multidrug efflux protein; Reviewed; Region: PRK09579 404589002938 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 404589002939 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 404589002940 DNA-binding site [nucleotide binding]; DNA binding site 404589002941 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 404589002942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589002943 homodimer interface [polypeptide binding]; other site 404589002944 catalytic residue [active] 404589002945 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 404589002946 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 404589002947 dimer interface [polypeptide binding]; other site 404589002948 phosphorylation site [posttranslational modification] 404589002949 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 404589002950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002951 ATP binding site [chemical binding]; other site 404589002952 Mg2+ binding site [ion binding]; other site 404589002953 G-X-G motif; other site 404589002954 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 404589002955 Sulfatase; Region: Sulfatase; pfam00884 404589002956 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 404589002957 Ligand Binding Site [chemical binding]; other site 404589002958 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 404589002959 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 404589002960 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 404589002961 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 404589002962 putative substrate translocation pore; other site 404589002963 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 404589002964 S-adenosylmethionine binding site [chemical binding]; other site 404589002965 PAS fold; Region: PAS_4; pfam08448 404589002966 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 404589002967 putative active site [active] 404589002968 heme pocket [chemical binding]; other site 404589002969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589002970 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 404589002971 dimer interface [polypeptide binding]; other site 404589002972 phosphorylation site [posttranslational modification] 404589002973 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002974 ATP binding site [chemical binding]; other site 404589002975 Mg2+ binding site [ion binding]; other site 404589002976 G-X-G motif; other site 404589002977 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 404589002978 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589002979 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 404589002980 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 404589002981 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 404589002982 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 404589002983 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 404589002984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589002985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589002986 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 404589002987 PAS domain; Region: PAS_8; pfam13188 404589002988 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 404589002989 dimer interface [polypeptide binding]; other site 404589002990 phosphorylation site [posttranslational modification] 404589002991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589002992 ATP binding site [chemical binding]; other site 404589002993 Mg2+ binding site [ion binding]; other site 404589002994 G-X-G motif; other site 404589002995 Response regulator receiver domain; Region: Response_reg; pfam00072 404589002996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589002997 active site 404589002998 phosphorylation site [posttranslational modification] 404589002999 intermolecular recognition site; other site 404589003000 dimerization interface [polypeptide binding]; other site 404589003001 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 404589003002 TrkA-N domain; Region: TrkA_N; pfam02254 404589003003 TrkA-N domain; Region: TrkA_N; pfam02254 404589003004 TrkA-C domain; Region: TrkA_C; pfam02080 404589003005 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 404589003006 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 404589003007 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 404589003008 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 404589003009 Walker A/P-loop; other site 404589003010 ATP binding site [chemical binding]; other site 404589003011 Q-loop/lid; other site 404589003012 ABC transporter signature motif; other site 404589003013 Walker B; other site 404589003014 D-loop; other site 404589003015 H-loop/switch region; other site 404589003016 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 404589003017 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 404589003018 FtsX-like permease family; Region: FtsX; pfam02687 404589003019 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589003020 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 404589003021 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589003022 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589003023 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589003024 Soluble P-type ATPase [General function prediction only]; Region: COG4087 404589003025 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 404589003026 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 404589003027 putative NAD(P) binding site [chemical binding]; other site 404589003028 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 404589003029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589003030 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589003031 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 404589003032 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 404589003033 FAD binding pocket [chemical binding]; other site 404589003034 FAD binding motif [chemical binding]; other site 404589003035 phosphate binding motif [ion binding]; other site 404589003036 beta-alpha-beta structure motif; other site 404589003037 NAD binding pocket [chemical binding]; other site 404589003038 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 404589003039 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 404589003040 Moco binding site; other site 404589003041 metal coordination site [ion binding]; other site 404589003042 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 404589003043 Epoxide hydrolase N terminus; Region: EHN; pfam06441 404589003044 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589003045 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589003046 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 404589003047 PAS domain; Region: PAS_9; pfam13426 404589003048 putative active site [active] 404589003049 heme pocket [chemical binding]; other site 404589003050 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 404589003051 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 404589003052 Walker A motif; other site 404589003053 ATP binding site [chemical binding]; other site 404589003054 Walker B motif; other site 404589003055 arginine finger; other site 404589003056 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589003057 Uncharacterized conserved protein [Function unknown]; Region: COG5649 404589003058 Uncharacterized conserved protein [Function unknown]; Region: COG5649 404589003059 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 404589003060 putative hydrophobic ligand binding site [chemical binding]; other site 404589003061 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 404589003062 dimerization interface [polypeptide binding]; other site 404589003063 putative DNA binding site [nucleotide binding]; other site 404589003064 putative Zn2+ binding site [ion binding]; other site 404589003065 SnoaL-like domain; Region: SnoaL_2; pfam12680 404589003066 Helix-turn-helix domain; Region: HTH_17; pfam12728 404589003067 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 404589003068 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 404589003069 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 404589003070 Protein of unknown function (DUF2398); Region: DUF2398; pfam09661 404589003071 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 404589003072 Protein of unknown function N-terminus (DUF3323); Region: DUF3323; pfam11796 404589003073 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 404589003074 Transposase, Mutator family; Region: Transposase_mut; pfam00872 404589003075 MULE transposase domain; Region: MULE; pfam10551 404589003076 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 404589003077 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 404589003078 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 404589003079 active site 404589003080 DNA binding site [nucleotide binding] 404589003081 Int/Topo IB signature motif; other site 404589003082 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 404589003083 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 404589003084 Walker A motif; other site 404589003085 ATP binding site [chemical binding]; other site 404589003086 Walker B motif; other site 404589003087 arginine finger; other site 404589003088 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 404589003089 Mrr N-terminal domain; Region: Mrr_N; pfam14338 404589003090 Restriction endonuclease; Region: Mrr_cat; pfam04471 404589003091 Abortive infection C-terminus; Region: Abi_C; pfam14355 404589003092 Isochorismatase family; Region: Isochorismatase; pfam00857 404589003093 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 404589003094 catalytic triad [active] 404589003095 dimer interface [polypeptide binding]; other site 404589003096 conserved cis-peptide bond; other site 404589003097 hypothetical protein; Provisional; Region: PRK05858 404589003098 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 404589003099 PYR/PP interface [polypeptide binding]; other site 404589003100 dimer interface [polypeptide binding]; other site 404589003101 TPP binding site [chemical binding]; other site 404589003102 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 404589003103 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 404589003104 TPP-binding site; other site 404589003105 dimer interface [polypeptide binding]; other site 404589003106 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 404589003107 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 404589003108 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 404589003109 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 404589003110 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 404589003111 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 404589003112 active site 404589003113 HIGH motif; other site 404589003114 dimer interface [polypeptide binding]; other site 404589003115 KMSKS motif; other site 404589003116 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 404589003117 RNA binding surface [nucleotide binding]; other site 404589003118 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 404589003119 putative active site [active] 404589003120 metal binding site [ion binding]; metal-binding site 404589003121 homodimer binding site [polypeptide binding]; other site 404589003122 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 404589003123 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589003124 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589003125 active site 404589003126 ATP binding site [chemical binding]; other site 404589003127 substrate binding site [chemical binding]; other site 404589003128 activation loop (A-loop); other site 404589003129 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 404589003130 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 404589003131 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589003132 catalytic residue [active] 404589003133 DHH family; Region: DHH; pfam01368 404589003134 endonuclease IV; Provisional; Region: PRK01060 404589003135 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 404589003136 AP (apurinic/apyrimidinic) site pocket; other site 404589003137 DNA interaction; other site 404589003138 Metal-binding active site; metal-binding site 404589003139 Fic/DOC family; Region: Fic; pfam02661 404589003140 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 404589003141 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 404589003142 homodimer interface [polypeptide binding]; other site 404589003143 substrate-cofactor binding pocket; other site 404589003144 catalytic residue [active] 404589003145 Patatin-like phospholipase; Region: Patatin; pfam01734 404589003146 nucleophile elbow; other site 404589003147 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589003148 metal binding triad; other site 404589003149 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 404589003150 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589003151 metal binding triad; other site 404589003152 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 404589003153 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589003154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589003155 active site 404589003156 phosphorylation site [posttranslational modification] 404589003157 intermolecular recognition site; other site 404589003158 dimerization interface [polypeptide binding]; other site 404589003159 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 404589003160 Walker A motif; other site 404589003161 ATP binding site [chemical binding]; other site 404589003162 Walker B motif; other site 404589003163 arginine finger; other site 404589003164 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589003165 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 404589003166 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 404589003167 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 404589003168 active site 404589003169 catalytic site [active] 404589003170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589003171 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 404589003172 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 404589003173 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 404589003174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589003175 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 404589003176 DNA binding residues [nucleotide binding] 404589003177 malonic semialdehyde reductase; Provisional; Region: PRK10538 404589003178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589003179 NAD(P) binding site [chemical binding]; other site 404589003180 active site 404589003181 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 404589003182 dimer interface [polypeptide binding]; other site 404589003183 phosphorylation site [posttranslational modification] 404589003184 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589003185 ATP binding site [chemical binding]; other site 404589003186 Mg2+ binding site [ion binding]; other site 404589003187 G-X-G motif; other site 404589003188 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589003189 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589003190 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589003191 active site 404589003192 ATP binding site [chemical binding]; other site 404589003193 substrate binding site [chemical binding]; other site 404589003194 activation loop (A-loop); other site 404589003195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 404589003196 Uncharacterized conserved protein [Function unknown]; Region: COG1543 404589003197 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 404589003198 active site 404589003199 substrate binding site [chemical binding]; other site 404589003200 catalytic site [active] 404589003201 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 404589003202 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 404589003203 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 404589003204 dimer interface [polypeptide binding]; other site 404589003205 putative anticodon binding site; other site 404589003206 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 404589003207 motif 1; other site 404589003208 active site 404589003209 motif 2; other site 404589003210 motif 3; other site 404589003211 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 404589003212 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 404589003213 FtsX-like permease family; Region: FtsX; pfam02687 404589003214 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 404589003215 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 404589003216 Walker A/P-loop; other site 404589003217 ATP binding site [chemical binding]; other site 404589003218 Q-loop/lid; other site 404589003219 ABC transporter signature motif; other site 404589003220 Walker B; other site 404589003221 D-loop; other site 404589003222 H-loop/switch region; other site 404589003223 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 404589003224 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589003225 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589003226 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589003227 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 404589003228 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589003229 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 404589003230 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 404589003231 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 404589003232 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 404589003233 trimer interface [polypeptide binding]; other site 404589003234 active site 404589003235 UDP-GlcNAc binding site [chemical binding]; other site 404589003236 lipid binding site [chemical binding]; lipid-binding site 404589003237 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 404589003238 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 404589003239 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 404589003240 active site 404589003241 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 404589003242 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 404589003243 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 404589003244 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 404589003245 substrate binding site [chemical binding]; other site 404589003246 active site 404589003247 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 404589003248 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 404589003249 FeS/SAM binding site; other site 404589003250 HemN C-terminal domain; Region: HemN_C; pfam06969 404589003251 Ferrochelatase; Region: Ferrochelatase; pfam00762 404589003252 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 404589003253 C-terminal domain interface [polypeptide binding]; other site 404589003254 active site 404589003255 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 404589003256 active site 404589003257 N-terminal domain interface [polypeptide binding]; other site 404589003258 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 404589003259 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 404589003260 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 404589003261 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 404589003262 generic binding surface II; other site 404589003263 generic binding surface I; other site 404589003264 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 404589003265 Response regulator receiver domain; Region: Response_reg; pfam00072 404589003266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589003267 active site 404589003268 phosphorylation site [posttranslational modification] 404589003269 intermolecular recognition site; other site 404589003270 dimerization interface [polypeptide binding]; other site 404589003271 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 404589003272 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 404589003273 substrate binding pocket [chemical binding]; other site 404589003274 chain length determination region; other site 404589003275 substrate-Mg2+ binding site; other site 404589003276 catalytic residues [active] 404589003277 aspartate-rich region 1; other site 404589003278 active site lid residues [active] 404589003279 aspartate-rich region 2; other site 404589003280 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 404589003281 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 404589003282 TPP-binding site; other site 404589003283 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 404589003284 PYR/PP interface [polypeptide binding]; other site 404589003285 dimer interface [polypeptide binding]; other site 404589003286 TPP binding site [chemical binding]; other site 404589003287 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 404589003288 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 404589003289 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 404589003290 RNA binding surface [nucleotide binding]; other site 404589003291 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 404589003292 ribosome maturation protein RimP; Reviewed; Region: PRK00092 404589003293 Sm and related proteins; Region: Sm_like; cl00259 404589003294 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 404589003295 putative oligomer interface [polypeptide binding]; other site 404589003296 putative RNA binding site [nucleotide binding]; other site 404589003297 NusA N-terminal domain; Region: NusA_N; pfam08529 404589003298 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 404589003299 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 404589003300 RNA binding site [nucleotide binding]; other site 404589003301 homodimer interface [polypeptide binding]; other site 404589003302 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 404589003303 G-X-X-G motif; other site 404589003304 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 404589003305 G-X-X-G motif; other site 404589003306 Protein of unknown function (DUF448); Region: DUF448; pfam04296 404589003307 putative RNA binding cleft [nucleotide binding]; other site 404589003308 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 404589003309 translation initiation factor IF-2; Region: IF-2; TIGR00487 404589003310 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 404589003311 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 404589003312 G1 box; other site 404589003313 putative GEF interaction site [polypeptide binding]; other site 404589003314 GTP/Mg2+ binding site [chemical binding]; other site 404589003315 Switch I region; other site 404589003316 G2 box; other site 404589003317 G3 box; other site 404589003318 Switch II region; other site 404589003319 G4 box; other site 404589003320 G5 box; other site 404589003321 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 404589003322 Translation-initiation factor 2; Region: IF-2; pfam11987 404589003323 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 404589003324 Protein of unknown function (DUF503); Region: DUF503; pfam04456 404589003325 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 404589003326 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 404589003327 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 404589003328 RNA binding site [nucleotide binding]; other site 404589003329 active site 404589003330 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 404589003331 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 404589003332 16S/18S rRNA binding site [nucleotide binding]; other site 404589003333 S13e-L30e interaction site [polypeptide binding]; other site 404589003334 25S rRNA binding site [nucleotide binding]; other site 404589003335 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 404589003336 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 404589003337 RNase E interface [polypeptide binding]; other site 404589003338 trimer interface [polypeptide binding]; other site 404589003339 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 404589003340 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 404589003341 RNase E interface [polypeptide binding]; other site 404589003342 trimer interface [polypeptide binding]; other site 404589003343 active site 404589003344 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 404589003345 putative nucleic acid binding region [nucleotide binding]; other site 404589003346 G-X-X-G motif; other site 404589003347 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 404589003348 RNA binding site [nucleotide binding]; other site 404589003349 domain interface; other site 404589003350 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 404589003351 trimer interface [polypeptide binding]; other site 404589003352 active site 404589003353 adenylosuccinate lyase; Provisional; Region: PRK07492 404589003354 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 404589003355 tetramer interface [polypeptide binding]; other site 404589003356 active site 404589003357 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 404589003358 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 404589003359 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 404589003360 ATP binding site [chemical binding]; other site 404589003361 active site 404589003362 substrate binding site [chemical binding]; other site 404589003363 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 404589003364 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 404589003365 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 404589003366 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589003367 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 404589003368 phosphoglycolate phosphatase; Provisional; Region: PRK13222 404589003369 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 404589003370 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 404589003371 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589003372 ligand binding site [chemical binding]; other site 404589003373 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 404589003374 dimerization interface [polypeptide binding]; other site 404589003375 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 404589003376 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589003377 Zn2+ binding site [ion binding]; other site 404589003378 Mg2+ binding site [ion binding]; other site 404589003379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589003380 active site 404589003381 phosphorylation site [posttranslational modification] 404589003382 intermolecular recognition site; other site 404589003383 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 404589003384 MoaE interaction surface [polypeptide binding]; other site 404589003385 MoeB interaction surface [polypeptide binding]; other site 404589003386 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 404589003387 MoaE homodimer interface [polypeptide binding]; other site 404589003388 MoaD interaction [polypeptide binding]; other site 404589003389 active site residues [active] 404589003390 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 404589003391 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 404589003392 active site 404589003393 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 404589003394 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 404589003395 putative substrate binding region [chemical binding]; other site 404589003396 AMMECR1; Region: AMMECR1; pfam01871 404589003397 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; cd02883 404589003398 nudix motif; other site 404589003399 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_cladeD; cd03379 404589003400 active site clefts [active] 404589003401 zinc binding site [ion binding]; other site 404589003402 dimer interface [polypeptide binding]; other site 404589003403 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 404589003404 PLD-like domain; Region: PLDc_2; pfam13091 404589003405 putative active site [active] 404589003406 catalytic site [active] 404589003407 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 404589003408 PLD-like domain; Region: PLDc_2; pfam13091 404589003409 putative active site [active] 404589003410 catalytic site [active] 404589003411 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 404589003412 active site 404589003413 oligoendopeptidase F; Region: pepF; TIGR00181 404589003414 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 404589003415 active site 404589003416 Zn binding site [ion binding]; other site 404589003417 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 404589003418 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 404589003419 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 404589003420 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 404589003421 EamA-like transporter family; Region: EamA; pfam00892 404589003422 EamA-like transporter family; Region: EamA; pfam00892 404589003423 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 404589003424 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 404589003425 putative ligand binding site [chemical binding]; other site 404589003426 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 404589003427 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 404589003428 TM-ABC transporter signature motif; other site 404589003429 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 404589003430 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 404589003431 TM-ABC transporter signature motif; other site 404589003432 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 404589003433 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 404589003434 Walker A/P-loop; other site 404589003435 ATP binding site [chemical binding]; other site 404589003436 Q-loop/lid; other site 404589003437 ABC transporter signature motif; other site 404589003438 Walker B; other site 404589003439 D-loop; other site 404589003440 H-loop/switch region; other site 404589003441 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 404589003442 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 404589003443 Walker A/P-loop; other site 404589003444 ATP binding site [chemical binding]; other site 404589003445 Q-loop/lid; other site 404589003446 ABC transporter signature motif; other site 404589003447 Walker B; other site 404589003448 D-loop; other site 404589003449 H-loop/switch region; other site 404589003450 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 404589003451 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589003452 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589003453 active site 404589003454 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 404589003455 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 404589003456 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 404589003457 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 404589003458 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589003459 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589003460 active site 404589003461 ATP binding site [chemical binding]; other site 404589003462 substrate binding site [chemical binding]; other site 404589003463 activation loop (A-loop); other site 404589003464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589003465 Response regulator receiver domain; Region: Response_reg; pfam00072 404589003466 active site 404589003467 phosphorylation site [posttranslational modification] 404589003468 intermolecular recognition site; other site 404589003469 dimerization interface [polypeptide binding]; other site 404589003470 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 404589003471 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589003472 Zn2+ binding site [ion binding]; other site 404589003473 Mg2+ binding site [ion binding]; other site 404589003474 transcription termination factor Rho; Provisional; Region: PRK12608 404589003475 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 404589003476 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 404589003477 Walker A motif; other site 404589003478 ATP binding site [chemical binding]; other site 404589003479 Walker B motif; other site 404589003480 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 404589003481 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 404589003482 oligomer interface [polypeptide binding]; other site 404589003483 tandem repeat interface [polypeptide binding]; other site 404589003484 active site residues [active] 404589003485 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 404589003486 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 404589003487 tandem repeat interface [polypeptide binding]; other site 404589003488 oligomer interface [polypeptide binding]; other site 404589003489 active site residues [active] 404589003490 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 404589003491 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 404589003492 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589003493 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 404589003494 phosphopeptide binding site; other site 404589003495 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 404589003496 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 404589003497 NAD(P) binding site [chemical binding]; other site 404589003498 catalytic residues [active] 404589003499 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 404589003500 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589003501 putative active site [active] 404589003502 putative metal binding site [ion binding]; other site 404589003503 Uncharacterized conserved protein [Function unknown]; Region: COG3342 404589003504 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 404589003505 Putative peptidoglycan binding domain; Region: PG_binding_2; pfam08823 404589003506 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 404589003507 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 404589003508 non-specific DNA binding site [nucleotide binding]; other site 404589003509 salt bridge; other site 404589003510 sequence-specific DNA binding site [nucleotide binding]; other site 404589003511 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 404589003512 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 404589003513 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 404589003514 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589003515 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 404589003516 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 404589003517 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 404589003518 G1 box; other site 404589003519 GTP/Mg2+ binding site [chemical binding]; other site 404589003520 G2 box; other site 404589003521 Switch I region; other site 404589003522 G3 box; other site 404589003523 Switch II region; other site 404589003524 G4 box; other site 404589003525 G5 box; other site 404589003526 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 404589003527 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 404589003528 motif II; other site 404589003529 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 404589003530 heterotetramer interface [polypeptide binding]; other site 404589003531 active site pocket [active] 404589003532 cleavage site 404589003533 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589003534 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 404589003535 S-adenosylmethionine binding site [chemical binding]; other site 404589003536 Methyltransferase domain; Region: Methyltransf_23; pfam13489 404589003537 Methyltransferase domain; Region: Methyltransf_11; pfam08241 404589003538 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 404589003539 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 404589003540 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 404589003541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589003542 NAD(P) binding site [chemical binding]; other site 404589003543 active site 404589003544 Male sterility protein; Region: NAD_binding_4; pfam07993 404589003545 NAD(P) binding site [chemical binding]; other site 404589003546 active site 404589003547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589003548 active site 404589003549 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 404589003550 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 404589003551 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 404589003552 acyl-activating enzyme (AAE) consensus motif; other site 404589003553 putative AMP binding site [chemical binding]; other site 404589003554 putative active site [active] 404589003555 putative CoA binding site [chemical binding]; other site 404589003556 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589003557 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 404589003558 putative acyl-acceptor binding pocket; other site 404589003559 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 404589003560 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 404589003561 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 404589003562 motif II; other site 404589003563 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589003564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589003565 NAD(P) binding site [chemical binding]; other site 404589003566 active site 404589003567 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 404589003568 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 404589003569 putative [4Fe-4S] binding site [ion binding]; other site 404589003570 putative molybdopterin cofactor binding site [chemical binding]; other site 404589003571 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 404589003572 putative molybdopterin cofactor binding site; other site 404589003573 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 404589003574 Low-spin heme binding site [chemical binding]; other site 404589003575 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 404589003576 D-pathway; other site 404589003577 Putative water exit pathway; other site 404589003578 Binuclear center (active site) [active] 404589003579 K-pathway; other site 404589003580 Putative proton exit pathway; other site 404589003581 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 404589003582 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 404589003583 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 404589003584 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 404589003585 4Fe-4S binding domain; Region: Fer4_5; pfam12801 404589003586 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 404589003587 4Fe-4S binding domain; Region: Fer4_6; pfam12837 404589003588 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 404589003589 FixH; Region: FixH; pfam05751 404589003590 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 404589003591 Family description; Region: DsbD_2; pfam13386 404589003592 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 404589003593 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 404589003594 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 404589003595 metal-binding site [ion binding] 404589003596 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 404589003597 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 404589003598 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 404589003599 motif II; other site 404589003600 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 404589003601 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 404589003602 putative catalytic site [active] 404589003603 putative metal binding site [ion binding]; other site 404589003604 putative phosphate binding site [ion binding]; other site 404589003605 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 404589003606 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 404589003607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589003608 NAD(P) binding site [chemical binding]; other site 404589003609 active site 404589003610 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 404589003611 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 404589003612 putative glycosyl transferase; Provisional; Region: PRK10307 404589003613 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 404589003614 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589003615 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 404589003616 Coenzyme A binding pocket [chemical binding]; other site 404589003617 Methyltransferase domain; Region: Methyltransf_24; pfam13578 404589003618 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 404589003619 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 404589003620 Right handed beta helix region; Region: Beta_helix; pfam13229 404589003621 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 404589003622 metal-binding site 404589003623 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 404589003624 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 404589003625 active site 404589003626 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 404589003627 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 404589003628 active site 404589003629 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 404589003630 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589003631 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 404589003632 Bacterial sugar transferase; Region: Bac_transf; pfam02397 404589003633 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 404589003634 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 404589003635 inhibitor-cofactor binding pocket; inhibition site 404589003636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589003637 catalytic residue [active] 404589003638 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 404589003639 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 404589003640 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 404589003641 active site 404589003642 dimer interface [polypeptide binding]; other site 404589003643 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 404589003644 Ligand Binding Site [chemical binding]; other site 404589003645 Molecular Tunnel; other site 404589003646 NAD synthetase; Reviewed; Region: nadE; PRK00876 404589003647 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 404589003648 homodimer interface [polypeptide binding]; other site 404589003649 NAD binding pocket [chemical binding]; other site 404589003650 ATP binding pocket [chemical binding]; other site 404589003651 Mg binding site [ion binding]; other site 404589003652 active-site loop [active] 404589003653 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 404589003654 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589003655 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 404589003656 acyl-activating enzyme (AAE) consensus motif; other site 404589003657 putative AMP binding site [chemical binding]; other site 404589003658 putative active site [active] 404589003659 putative CoA binding site [chemical binding]; other site 404589003660 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 404589003661 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 404589003662 NAD(P) binding site [chemical binding]; other site 404589003663 homodimer interface [polypeptide binding]; other site 404589003664 substrate binding site [chemical binding]; other site 404589003665 active site 404589003666 tyrosine kinase; Provisional; Region: PRK11519 404589003667 Chain length determinant protein; Region: Wzz; cl15801 404589003668 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 404589003669 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 404589003670 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 404589003671 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 404589003672 substrate binding site [chemical binding]; other site 404589003673 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 404589003674 substrate binding site [chemical binding]; other site 404589003675 ligand binding site [chemical binding]; other site 404589003676 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 404589003677 dinuclear metal binding motif [ion binding]; other site 404589003678 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 404589003679 dinuclear metal binding motif [ion binding]; other site 404589003680 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 404589003681 aspartate ammonia-lyase; Provisional; Region: PRK13353 404589003682 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 404589003683 active sites [active] 404589003684 tetramer interface [polypeptide binding]; other site 404589003685 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 404589003686 intracellular protease, PfpI family; Region: PfpI; TIGR01382 404589003687 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 404589003688 conserved cys residue [active] 404589003689 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional; Region: PRK14703 404589003690 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 404589003691 active site 404589003692 HIGH motif; other site 404589003693 nucleotide binding site [chemical binding]; other site 404589003694 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 404589003695 KMSKS motif; other site 404589003696 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 404589003697 GatB domain; Region: GatB_Yqey; smart00845 404589003698 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 404589003699 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 404589003700 active site 404589003701 HIGH motif; other site 404589003702 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 404589003703 active site 404589003704 KMSKS motif; other site 404589003705 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 404589003706 active site 404589003707 RibD C-terminal domain; Region: RibD_C; cl17279 404589003708 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 404589003709 putative ligand binding pocket/active site [active] 404589003710 putative metal binding site [ion binding]; other site 404589003711 CAAX protease self-immunity; Region: Abi; pfam02517 404589003712 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 404589003713 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589003714 Zn2+ binding site [ion binding]; other site 404589003715 Mg2+ binding site [ion binding]; other site 404589003716 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 404589003717 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 404589003718 putative active site [active] 404589003719 putative dimer interface [polypeptide binding]; other site 404589003720 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589003721 nucleotide binding site [chemical binding]; other site 404589003722 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 404589003723 HSP70 interaction site [polypeptide binding]; other site 404589003724 agmatinase; Region: agmatinase; TIGR01230 404589003725 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 404589003726 putative active site [active] 404589003727 Mn binding site [ion binding]; other site 404589003728 deoxyhypusine synthase-like protein; Provisional; Region: PRK00770 404589003729 deoxyhypusine synthase; Region: dhys; TIGR00321 404589003730 Predicted transcriptional regulator [Transcription]; Region: COG1959 404589003731 Transcriptional regulator; Region: Rrf2; pfam02082 404589003732 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 404589003733 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 404589003734 active site 404589003735 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 404589003736 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 404589003737 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589003738 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 404589003739 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589003740 NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NuoL; COG1009 404589003741 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 404589003742 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589003743 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589003744 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 404589003745 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 404589003746 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 404589003747 4Fe-4S binding domain; Region: Fer4; pfam00037 404589003748 4Fe-4S binding domain; Region: Fer4; pfam00037 404589003749 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 404589003750 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 404589003751 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 404589003752 NADH dehydrogenase subunit D; Validated; Region: PRK06075 404589003753 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 404589003754 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 404589003755 NADH dehydrogenase subunit B; Provisional; Region: PRK14818 404589003756 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 404589003757 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 404589003758 NADH dehydrogenase subunit B; Provisional; Region: PRK14817 404589003759 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 404589003760 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 404589003761 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 404589003762 NADH dehydrogenase subunit D; Validated; Region: PRK06075 404589003763 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 404589003764 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 404589003765 catalytic loop [active] 404589003766 iron binding site [ion binding]; other site 404589003767 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 404589003768 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 404589003769 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 404589003770 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 404589003771 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 404589003772 4Fe-4S binding domain; Region: Fer4; pfam00037 404589003773 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 404589003774 muropeptide transporter; Validated; Region: ampG; cl17669 404589003775 muropeptide transporter; Reviewed; Region: ampG; PRK11902 404589003776 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589003777 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 404589003778 active site 404589003779 hypothetical protein; Provisional; Region: PRK08609 404589003780 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 404589003781 active site 404589003782 primer binding site [nucleotide binding]; other site 404589003783 NTP binding site [chemical binding]; other site 404589003784 metal binding triad [ion binding]; metal-binding site 404589003785 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 404589003786 active site 404589003787 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 404589003788 MPT binding site; other site 404589003789 trimer interface [polypeptide binding]; other site 404589003790 Response regulator receiver domain; Region: Response_reg; pfam00072 404589003791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589003792 active site 404589003793 phosphorylation site [posttranslational modification] 404589003794 intermolecular recognition site; other site 404589003795 dimerization interface [polypeptide binding]; other site 404589003796 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 404589003797 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 404589003798 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 404589003799 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 404589003800 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 404589003801 Domain of unknown function DUF77; Region: DUF77; pfam01910 404589003802 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 404589003803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589003804 Zn2+ binding site [ion binding]; other site 404589003805 Mg2+ binding site [ion binding]; other site 404589003806 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 404589003807 synthetase active site [active] 404589003808 NTP binding site [chemical binding]; other site 404589003809 metal binding site [ion binding]; metal-binding site 404589003810 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 404589003811 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 404589003812 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 404589003813 homotrimer interaction site [polypeptide binding]; other site 404589003814 putative active site [active] 404589003815 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 404589003816 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 404589003817 FeS/SAM binding site; other site 404589003818 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 404589003819 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 404589003820 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 404589003821 FeS/SAM binding site; other site 404589003822 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 404589003823 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 404589003824 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 404589003825 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 404589003826 Stage II sporulation protein; Region: SpoIID; pfam08486 404589003827 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 404589003828 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 404589003829 PilZ domain; Region: PilZ; cl01260 404589003830 PilZ domain; Region: PilZ; cl01260 404589003831 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 404589003832 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 404589003833 Preprotein translocase subunit; Region: YajC; pfam02699 404589003834 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 404589003835 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 404589003836 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 404589003837 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 404589003838 Protein export membrane protein; Region: SecD_SecF; pfam02355 404589003839 Membrane transport protein; Region: Mem_trans; cl09117 404589003840 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 404589003841 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 404589003842 DHH family; Region: DHH; pfam01368 404589003843 DHHA1 domain; Region: DHHA1; pfam02272 404589003844 YHS domain; Region: YHS; pfam04945 404589003845 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 404589003846 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 404589003847 dimer interface [polypeptide binding]; other site 404589003848 anticodon binding site; other site 404589003849 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 404589003850 homodimer interface [polypeptide binding]; other site 404589003851 motif 1; other site 404589003852 active site 404589003853 motif 2; other site 404589003854 GAD domain; Region: GAD; pfam02938 404589003855 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 404589003856 active site 404589003857 motif 3; other site 404589003858 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 404589003859 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 404589003860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589003861 Coenzyme A binding pocket [chemical binding]; other site 404589003862 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589003863 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 404589003864 active site 404589003865 methionine sulfoxide reductase A; Provisional; Region: PRK00058 404589003866 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 404589003867 hydroxyglutarate oxidase; Provisional; Region: PRK11728 404589003868 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 404589003869 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 404589003870 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 404589003871 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 404589003872 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 404589003873 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 404589003874 ATP binding site [chemical binding]; other site 404589003875 putative Mg++ binding site [ion binding]; other site 404589003876 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 404589003877 nucleotide binding region [chemical binding]; other site 404589003878 ATP-binding site [chemical binding]; other site 404589003879 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 404589003880 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 404589003881 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 404589003882 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 404589003883 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 404589003884 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 404589003885 Peptidase S46; Region: Peptidase_S46; pfam10459 404589003886 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589003887 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 404589003888 thiS-thiF/thiG interaction site; other site 404589003889 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 404589003890 ThiS interaction site; other site 404589003891 putative active site [active] 404589003892 tetramer interface [polypeptide binding]; other site 404589003893 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 404589003894 active site 404589003895 thiamine phosphate binding site [chemical binding]; other site 404589003896 pyrophosphate binding site [ion binding]; other site 404589003897 Winged helix-turn helix; Region: HTH_29; pfam13551 404589003898 Homeodomain-like domain; Region: HTH_23; pfam13384 404589003899 Homeodomain-like domain; Region: HTH_32; pfam13565 404589003900 DDE superfamily endonuclease; Region: DDE_3; pfam13358 404589003901 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 404589003902 S-adenosylmethionine binding site [chemical binding]; other site 404589003903 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 404589003904 active site residue [active] 404589003905 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 404589003906 active site 404589003907 Hemerythrin-like domain; Region: Hr-like; cd12108 404589003908 Fe binding site [ion binding]; other site 404589003909 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 404589003910 Family description; Region: UvrD_C_2; pfam13538 404589003911 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 404589003912 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 404589003913 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 404589003914 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 404589003915 putative active site; other site 404589003916 catalytic residue [active] 404589003917 Protein of unknown function (DUF507); Region: DUF507; pfam04368 404589003918 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 404589003919 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 404589003920 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 404589003921 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 404589003922 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 404589003923 catalytic residue [active] 404589003924 Maf-like protein; Region: Maf; pfam02545 404589003925 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 404589003926 active site 404589003927 dimer interface [polypeptide binding]; other site 404589003928 SurA N-terminal domain; Region: SurA_N_3; cl07813 404589003929 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 404589003930 rod shape-determining protein MreC; Provisional; Region: PRK13922 404589003931 rod shape-determining protein MreC; Region: MreC; pfam04085 404589003932 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 404589003933 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 404589003934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 404589003935 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 404589003936 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 404589003937 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589003938 catalytic residues [active] 404589003939 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 404589003940 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 404589003941 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 404589003942 tRNA; other site 404589003943 putative tRNA binding site [nucleotide binding]; other site 404589003944 putative NADP binding site [chemical binding]; other site 404589003945 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 404589003946 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 404589003947 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 404589003948 domain interfaces; other site 404589003949 active site 404589003950 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 404589003951 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 404589003952 active site 404589003953 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 404589003954 Uncharacterized conserved protein [Function unknown]; Region: COG0585 404589003955 Pseudouridine synthase, a subgroup of the TruD family; Region: PSTD1; cd02577 404589003956 active site 404589003957 putative peptidase; Provisional; Region: PRK14575 404589003958 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 404589003959 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 404589003960 active site 404589003961 PHP-associated; Region: PHP_C; pfam13263 404589003962 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 404589003963 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 404589003964 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 404589003965 active site 404589003966 effector binding site; other site 404589003967 dimer interface [polypeptide binding]; other site 404589003968 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 404589003969 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589003970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589003971 active site 404589003972 phosphorylation site [posttranslational modification] 404589003973 intermolecular recognition site; other site 404589003974 dimerization interface [polypeptide binding]; other site 404589003975 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 404589003976 DNA binding residues [nucleotide binding] 404589003977 dimerization interface [polypeptide binding]; other site 404589003978 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 404589003979 pyrroline-5-carboxylate reductase; Region: PLN02688 404589003980 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 404589003981 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 404589003982 hydroxyglutarate oxidase; Provisional; Region: PRK11728 404589003983 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 404589003984 catalytic loop [active] 404589003985 iron binding site [ion binding]; other site 404589003986 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 404589003987 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 404589003988 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 404589003989 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 404589003990 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589003991 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589003992 active site 404589003993 ATP binding site [chemical binding]; other site 404589003994 substrate binding site [chemical binding]; other site 404589003995 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589003996 substrate binding site [chemical binding]; other site 404589003997 activation loop (A-loop); other site 404589003998 activation loop (A-loop); other site 404589003999 PEGA domain; Region: PEGA; pfam08308 404589004000 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 404589004001 DNA binding residues [nucleotide binding] 404589004002 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 404589004003 DNA binding residues [nucleotide binding] 404589004004 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 404589004005 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 404589004006 purine monophosphate binding site [chemical binding]; other site 404589004007 dimer interface [polypeptide binding]; other site 404589004008 putative catalytic residues [active] 404589004009 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 404589004010 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 404589004011 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 404589004012 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 404589004013 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 404589004014 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 404589004015 AIR carboxylase; Region: AIRC; pfam00731 404589004016 Predicted permeases [General function prediction only]; Region: COG0795 404589004017 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 404589004018 Predicted permeases [General function prediction only]; Region: COG0795 404589004019 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 404589004020 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 404589004021 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 404589004022 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 404589004023 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 404589004024 Walker A/P-loop; other site 404589004025 ATP binding site [chemical binding]; other site 404589004026 Q-loop/lid; other site 404589004027 ABC transporter signature motif; other site 404589004028 Walker B; other site 404589004029 D-loop; other site 404589004030 H-loop/switch region; other site 404589004031 Methyltransferase domain; Region: Methyltransf_11; pfam08241 404589004032 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 404589004033 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 404589004034 active site 404589004035 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 404589004036 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589004037 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589004038 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 404589004039 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 404589004040 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 404589004041 active site 404589004042 homodimer interface [polypeptide binding]; other site 404589004043 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 404589004044 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 404589004045 DXD motif; other site 404589004046 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 404589004047 Bacterial sugar transferase; Region: Bac_transf; pfam02397 404589004048 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 404589004049 Uncharacterized conserved protein [Function unknown]; Region: COG4198 404589004050 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 404589004051 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 404589004052 dimer interface [polypeptide binding]; other site 404589004053 active site 404589004054 Schiff base residues; other site 404589004055 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 404589004056 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589004057 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 404589004058 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 404589004059 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589004060 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 404589004061 homodimer interface [polypeptide binding]; other site 404589004062 homotetramer interface [polypeptide binding]; other site 404589004063 active site pocket [active] 404589004064 cleavage site 404589004065 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 404589004066 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 404589004067 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 404589004068 putative ADP-binding pocket [chemical binding]; other site 404589004069 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589004070 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 404589004071 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 404589004072 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 404589004073 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589004074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589004075 NAD(P) binding site [chemical binding]; other site 404589004076 active site 404589004077 tyrosine decarboxylase; Region: PLN02880 404589004078 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 404589004079 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589004080 catalytic residue [active] 404589004081 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 404589004082 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589004083 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 404589004084 active site 404589004085 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 404589004086 Protein kinase domain; Region: Pkinase; pfam00069 404589004087 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589004088 active site 404589004089 ATP binding site [chemical binding]; other site 404589004090 substrate binding site [chemical binding]; other site 404589004091 activation loop (A-loop); other site 404589004092 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 404589004093 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 404589004094 TPR motif; other site 404589004095 binding surface 404589004096 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589004097 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589004098 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 404589004099 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 404589004100 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 404589004101 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 404589004102 Cysteine-rich domain; Region: CCG; pfam02754 404589004103 Cysteine-rich domain; Region: CCG; pfam02754 404589004104 L-lactate permease; Region: Lactate_perm; cl00701 404589004105 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 404589004106 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 404589004107 FAD binding domain; Region: FAD_binding_4; pfam01565 404589004108 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 404589004109 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 404589004110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004111 active site 404589004112 phosphorylation site [posttranslational modification] 404589004113 intermolecular recognition site; other site 404589004114 dimerization interface [polypeptide binding]; other site 404589004115 LytTr DNA-binding domain; Region: LytTR; smart00850 404589004116 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 404589004117 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 404589004118 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589004119 Histidine kinase; Region: His_kinase; pfam06580 404589004120 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589004121 ATP binding site [chemical binding]; other site 404589004122 Mg2+ binding site [ion binding]; other site 404589004123 G-X-G motif; other site 404589004124 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 404589004125 oxidative damage protection protein; Provisional; Region: PRK05408 404589004126 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 404589004127 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 404589004128 non-specific DNA binding site [nucleotide binding]; other site 404589004129 salt bridge; other site 404589004130 sequence-specific DNA binding site [nucleotide binding]; other site 404589004131 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 404589004132 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 404589004133 dimer interface [polypeptide binding]; other site 404589004134 putative functional site; other site 404589004135 putative MPT binding site; other site 404589004136 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 404589004137 ribonuclease R; Region: RNase_R; TIGR02063 404589004138 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 404589004139 RNB domain; Region: RNB; pfam00773 404589004140 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 404589004141 RNA binding site [nucleotide binding]; other site 404589004142 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 404589004143 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589004144 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 404589004145 active site 404589004146 FOG: CBS domain [General function prediction only]; Region: COG0517 404589004147 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 404589004148 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 404589004149 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 404589004150 Walker A/P-loop; other site 404589004151 ATP binding site [chemical binding]; other site 404589004152 Q-loop/lid; other site 404589004153 ABC transporter signature motif; other site 404589004154 Walker B; other site 404589004155 D-loop; other site 404589004156 H-loop/switch region; other site 404589004157 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 404589004158 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 404589004159 Walker A/P-loop; other site 404589004160 ATP binding site [chemical binding]; other site 404589004161 Q-loop/lid; other site 404589004162 ABC transporter signature motif; other site 404589004163 Walker B; other site 404589004164 D-loop; other site 404589004165 H-loop/switch region; other site 404589004166 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 404589004167 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 404589004168 TM-ABC transporter signature motif; other site 404589004169 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 404589004170 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 404589004171 TM-ABC transporter signature motif; other site 404589004172 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 404589004173 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 404589004174 MutS domain III; Region: MutS_III; pfam05192 404589004175 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589004176 NACHT domain; Region: NACHT; pfam05729 404589004177 Walker A/P-loop; other site 404589004178 ATP binding site [chemical binding]; other site 404589004179 Q-loop/lid; other site 404589004180 ABC transporter signature motif; other site 404589004181 Walker B; other site 404589004182 D-loop; other site 404589004183 H-loop/switch region; other site 404589004184 Smr domain; Region: Smr; pfam01713 404589004185 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 404589004186 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589004187 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 404589004188 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 404589004189 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 404589004190 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 404589004191 active site 404589004192 (T/H)XGH motif; other site 404589004193 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; cl17557 404589004194 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 404589004195 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589004196 Walker A motif; other site 404589004197 ATP binding site [chemical binding]; other site 404589004198 Walker B motif; other site 404589004199 arginine finger; other site 404589004200 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 404589004201 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 404589004202 Walker A motif; other site 404589004203 ATP binding site [chemical binding]; other site 404589004204 Walker B motif; other site 404589004205 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 404589004206 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 404589004207 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 404589004208 nucleophile elbow; other site 404589004209 Cupin domain; Region: Cupin_2; cl17218 404589004210 Methyltransferase domain; Region: Methyltransf_12; pfam08242 404589004211 TPR repeat; Region: TPR_11; pfam13414 404589004212 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 404589004213 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 404589004214 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 404589004215 ring oligomerisation interface [polypeptide binding]; other site 404589004216 ATP/Mg binding site [chemical binding]; other site 404589004217 stacking interactions; other site 404589004218 hinge regions; other site 404589004219 Domain of unknown function (DUF305); Region: DUF305; pfam03713 404589004220 Response regulator receiver domain; Region: Response_reg; pfam00072 404589004221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004222 active site 404589004223 phosphorylation site [posttranslational modification] 404589004224 intermolecular recognition site; other site 404589004225 dimerization interface [polypeptide binding]; other site 404589004226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589004227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589004228 metal binding site [ion binding]; metal-binding site 404589004229 active site 404589004230 I-site; other site 404589004231 CheW-like domain; Region: CheW; pfam01584 404589004232 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 404589004233 Response regulator receiver domain; Region: Response_reg; pfam00072 404589004234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004235 active site 404589004236 phosphorylation site [posttranslational modification] 404589004237 intermolecular recognition site; other site 404589004238 dimerization interface [polypeptide binding]; other site 404589004239 valyl-tRNA synthetase; Provisional; Region: valS; PRK14900 404589004240 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 404589004241 HIGH motif; other site 404589004242 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 404589004243 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 404589004244 active site 404589004245 KMSKS motif; other site 404589004246 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 404589004247 tRNA binding surface [nucleotide binding]; other site 404589004248 anticodon binding site; other site 404589004249 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 404589004250 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 404589004251 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 404589004252 dimerization interface [polypeptide binding]; other site 404589004253 active site 404589004254 Biotin operon repressor [Transcription]; Region: BirA; COG1654 404589004255 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 404589004256 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 404589004257 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 404589004258 pantothenate kinase; Reviewed; Region: PRK13321 404589004259 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 404589004260 MviN-like protein; Region: MVIN; pfam03023 404589004261 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 404589004262 STAS domain; Region: STAS_2; pfam13466 404589004263 Response regulator receiver domain; Region: Response_reg; pfam00072 404589004264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004265 active site 404589004266 phosphorylation site [posttranslational modification] 404589004267 intermolecular recognition site; other site 404589004268 dimerization interface [polypeptide binding]; other site 404589004269 Putative zinc-finger; Region: zf-HC2; pfam13490 404589004270 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 404589004271 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589004272 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 404589004273 DNA binding residues [nucleotide binding] 404589004274 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 404589004275 FeS/SAM binding site; other site 404589004276 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 404589004277 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 404589004278 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 404589004279 putative RNA binding site [nucleotide binding]; other site 404589004280 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 404589004281 S-adenosylmethionine binding site [chemical binding]; other site 404589004282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589004283 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 404589004284 dimer interface [polypeptide binding]; other site 404589004285 phosphorylation site [posttranslational modification] 404589004286 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589004287 ATP binding site [chemical binding]; other site 404589004288 Mg2+ binding site [ion binding]; other site 404589004289 G-X-G motif; other site 404589004290 Response regulator receiver domain; Region: Response_reg; pfam00072 404589004291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004292 active site 404589004293 phosphorylation site [posttranslational modification] 404589004294 intermolecular recognition site; other site 404589004295 dimerization interface [polypeptide binding]; other site 404589004296 CAAX protease self-immunity; Region: Abi; pfam02517 404589004297 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 404589004298 Flavoprotein; Region: Flavoprotein; pfam02441 404589004299 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 404589004300 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 404589004301 Na binding site [ion binding]; other site 404589004302 GAF domain; Region: GAF; cl17456 404589004303 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 404589004304 dimer interface [polypeptide binding]; other site 404589004305 phosphorylation site [posttranslational modification] 404589004306 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 404589004307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589004308 ATP binding site [chemical binding]; other site 404589004309 Mg2+ binding site [ion binding]; other site 404589004310 G-X-G motif; other site 404589004311 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 404589004312 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 404589004313 Fe-S cluster binding site [ion binding]; other site 404589004314 active site 404589004315 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 404589004316 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 404589004317 active site residues [active] 404589004318 dimer interface [polypeptide binding]; other site 404589004319 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 404589004320 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 404589004321 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 404589004322 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 404589004323 active site 404589004324 dimer interface [polypeptide binding]; other site 404589004325 catalytic nucleophile [active] 404589004326 putative acyltransferase; Provisional; Region: PRK05790 404589004327 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 404589004328 dimer interface [polypeptide binding]; other site 404589004329 active site 404589004330 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 404589004331 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 404589004332 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 404589004333 Myxococcus xanthus paralogous domain TIGR02266; Region: gmx_TIGR02266 404589004334 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 404589004335 TRAM domain; Region: TRAM; cl01282 404589004336 AMP-binding enzyme; Region: AMP-binding; pfam00501 404589004337 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589004338 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589004339 acyl-activating enzyme (AAE) consensus motif; other site 404589004340 AMP binding site [chemical binding]; other site 404589004341 active site 404589004342 CoA binding site [chemical binding]; other site 404589004343 Peptidase family M48; Region: Peptidase_M48; cl12018 404589004344 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 404589004345 metal ion-dependent adhesion site (MIDAS); other site 404589004346 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589004347 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 404589004348 active site 404589004349 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 404589004350 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 404589004351 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 404589004352 FeS/SAM binding site; other site 404589004353 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 404589004354 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 404589004355 trimer interface [polypeptide binding]; other site 404589004356 putative metal binding site [ion binding]; other site 404589004357 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589004358 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 404589004359 ligand binding site [chemical binding]; other site 404589004360 flexible hinge region; other site 404589004361 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 404589004362 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 404589004363 PilZ domain; Region: PilZ; cl01260 404589004364 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589004365 nucleotide binding site [chemical binding]; other site 404589004366 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 404589004367 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 404589004368 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 404589004369 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 404589004370 active site 404589004371 GMP synthase; Reviewed; Region: guaA; PRK00074 404589004372 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 404589004373 AMP/PPi binding site [chemical binding]; other site 404589004374 candidate oxyanion hole; other site 404589004375 catalytic triad [active] 404589004376 potential glutamine specificity residues [chemical binding]; other site 404589004377 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 404589004378 ATP Binding subdomain [chemical binding]; other site 404589004379 Ligand Binding sites [chemical binding]; other site 404589004380 Dimerization subdomain; other site 404589004381 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 404589004382 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 404589004383 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 404589004384 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 404589004385 acyl-activating enzyme (AAE) consensus motif; other site 404589004386 putative AMP binding site [chemical binding]; other site 404589004387 putative active site [active] 404589004388 putative CoA binding site [chemical binding]; other site 404589004389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004390 active site 404589004391 phosphorylation site [posttranslational modification] 404589004392 intermolecular recognition site; other site 404589004393 dimerization interface [polypeptide binding]; other site 404589004394 SCP-2 sterol transfer family; Region: SCP2; pfam02036 404589004395 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 404589004396 CoA-transferase family III; Region: CoA_transf_3; pfam02515 404589004397 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 404589004398 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 404589004399 intersubunit interface [polypeptide binding]; other site 404589004400 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 404589004401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589004402 Walker A/P-loop; other site 404589004403 ATP binding site [chemical binding]; other site 404589004404 Q-loop/lid; other site 404589004405 ABC transporter signature motif; other site 404589004406 Walker B; other site 404589004407 D-loop; other site 404589004408 H-loop/switch region; other site 404589004409 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 404589004410 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 404589004411 putative PBP binding regions; other site 404589004412 ABC-ATPase subunit interface; other site 404589004413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589004414 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 404589004415 dimer interface [polypeptide binding]; other site 404589004416 phosphorylation site [posttranslational modification] 404589004417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589004418 ATP binding site [chemical binding]; other site 404589004419 Mg2+ binding site [ion binding]; other site 404589004420 G-X-G motif; other site 404589004421 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 404589004422 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589004423 Recombinase; Region: Recombinase; pfam07508 404589004424 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 404589004425 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 404589004426 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 404589004427 non-specific DNA binding site [nucleotide binding]; other site 404589004428 salt bridge; other site 404589004429 sequence-specific DNA binding site [nucleotide binding]; other site 404589004430 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 404589004431 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 404589004432 Domain of unknown function (DUF378); Region: DUF378; pfam04070 404589004433 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 404589004434 Protein kinase domain; Region: Pkinase; pfam00069 404589004435 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589004436 active site 404589004437 ATP binding site [chemical binding]; other site 404589004438 substrate binding site [chemical binding]; other site 404589004439 activation loop (A-loop); other site 404589004440 Predicted integral membrane protein [Function unknown]; Region: COG5616 404589004441 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 404589004442 TPR repeat; Region: TPR_11; pfam13414 404589004443 binding surface 404589004444 TPR motif; other site 404589004445 Uncharacterized conserved protein [Function unknown]; Region: COG3791 404589004446 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589004447 RNA polymerase sigma factor; Provisional; Region: PRK12520 404589004448 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589004449 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 404589004450 DNA binding residues [nucleotide binding] 404589004451 Putative zinc-finger; Region: zf-HC2; pfam13490 404589004452 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 404589004453 hypothetical protein; Provisional; Region: PRK05409 404589004454 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 404589004455 active site residue [active] 404589004456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589004457 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 404589004458 Coenzyme A binding pocket [chemical binding]; other site 404589004459 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 404589004460 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 404589004461 ATP binding site [chemical binding]; other site 404589004462 Walker B motif; other site 404589004463 arginine finger; other site 404589004464 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 404589004465 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589004466 active site 404589004467 catalytic tetrad [active] 404589004468 RNA polymerase sigma factor; Provisional; Region: PRK11924 404589004469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589004470 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 404589004471 DNA binding residues [nucleotide binding] 404589004472 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 404589004473 nucleotide binding site [chemical binding]; other site 404589004474 putative NEF/HSP70 interaction site [polypeptide binding]; other site 404589004475 SBD interface [polypeptide binding]; other site 404589004476 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 404589004477 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589004478 ligand binding site [chemical binding]; other site 404589004479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589004480 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 404589004481 Walker A/P-loop; other site 404589004482 ATP binding site [chemical binding]; other site 404589004483 Q-loop/lid; other site 404589004484 ABC transporter signature motif; other site 404589004485 Walker B; other site 404589004486 D-loop; other site 404589004487 H-loop/switch region; other site 404589004488 TOBE domain; Region: TOBE; cl01440 404589004489 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 404589004490 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 404589004491 putative PBP binding loops; other site 404589004492 dimer interface [polypeptide binding]; other site 404589004493 ABC-ATPase subunit interface; other site 404589004494 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 404589004495 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 404589004496 Helix-turn-helix domain; Region: HTH_17; pfam12728 404589004497 PBP superfamily domain; Region: PBP_like; pfam12727 404589004498 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 404589004499 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589004500 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 404589004501 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 404589004502 DsrE/DsrF-like family; Region: DrsE; pfam02635 404589004503 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 404589004504 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589004505 catalytic residues [active] 404589004506 short chain dehydrogenase; Provisional; Region: PRK06197 404589004507 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 404589004508 putative NAD(P) binding site [chemical binding]; other site 404589004509 active site 404589004510 MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: MtLigD_Pol_like; cd04863 404589004511 nucleotide binding site [chemical binding]; other site 404589004512 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 404589004513 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 404589004514 active site 404589004515 DNA binding site [nucleotide binding] 404589004516 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 404589004517 DNA binding site [nucleotide binding] 404589004518 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 404589004519 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 404589004520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589004521 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 404589004522 tetramer interface [polypeptide binding]; other site 404589004523 active site 404589004524 Mg2+/Mn2+ binding site [ion binding]; other site 404589004525 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 404589004526 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 404589004527 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 404589004528 malate dehydrogenase; Reviewed; Region: PRK06223 404589004529 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 404589004530 NAD(P) binding site [chemical binding]; other site 404589004531 dimer interface [polypeptide binding]; other site 404589004532 tetramer (dimer of dimers) interface [polypeptide binding]; other site 404589004533 substrate binding site [chemical binding]; other site 404589004534 Acetokinase family; Region: Acetate_kinase; cl17229 404589004535 propionate/acetate kinase; Provisional; Region: PRK12379 404589004536 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 404589004537 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 404589004538 catalytic site [active] 404589004539 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_11; cd04624 404589004540 FOG: CBS domain [General function prediction only]; Region: COG0517 404589004541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 404589004542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589004543 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 404589004544 putative dimerization interface [polypeptide binding]; other site 404589004545 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 404589004546 Carbon starvation protein CstA; Region: CstA; pfam02554 404589004547 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 404589004548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589004549 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 404589004550 dimer interface [polypeptide binding]; other site 404589004551 phosphorylation site [posttranslational modification] 404589004552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589004553 ATP binding site [chemical binding]; other site 404589004554 Mg2+ binding site [ion binding]; other site 404589004555 G-X-G motif; other site 404589004556 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589004557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004558 active site 404589004559 phosphorylation site [posttranslational modification] 404589004560 intermolecular recognition site; other site 404589004561 dimerization interface [polypeptide binding]; other site 404589004562 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 404589004563 putative substrate translocation pore; other site 404589004564 Cupin; Region: Cupin_6; pfam12852 404589004565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589004566 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 404589004567 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589004568 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 404589004569 S-adenosylmethionine binding site [chemical binding]; other site 404589004570 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 404589004571 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 404589004572 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 404589004573 Multicopper oxidase; Region: Cu-oxidase; pfam00394 404589004574 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 404589004575 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589004576 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004577 active site 404589004578 phosphorylation site [posttranslational modification] 404589004579 intermolecular recognition site; other site 404589004580 dimerization interface [polypeptide binding]; other site 404589004581 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 404589004582 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 404589004583 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 404589004584 FAD binding domain; Region: FAD_binding_4; pfam01565 404589004585 Berberine and berberine like; Region: BBE; pfam08031 404589004586 Hemerythrin-like domain; Region: Hr-like; cd12108 404589004587 Fe binding site [ion binding]; other site 404589004588 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 404589004589 S-adenosylmethionine binding site [chemical binding]; other site 404589004590 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589004591 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589004592 hypothetical protein; Provisional; Region: PRK12378 404589004593 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 404589004594 S-adenosylmethionine binding site [chemical binding]; other site 404589004595 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 404589004596 FOG: CBS domain [General function prediction only]; Region: COG0517 404589004597 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 404589004598 FOG: CBS domain [General function prediction only]; Region: COG0517 404589004599 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 404589004600 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 404589004601 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 404589004602 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 404589004603 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 404589004604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589004605 Walker A/P-loop; other site 404589004606 ATP binding site [chemical binding]; other site 404589004607 Q-loop/lid; other site 404589004608 ABC transporter signature motif; other site 404589004609 Walker B; other site 404589004610 D-loop; other site 404589004611 H-loop/switch region; other site 404589004612 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 404589004613 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 404589004614 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 404589004615 NAD binding site [chemical binding]; other site 404589004616 catalytic Zn binding site [ion binding]; other site 404589004617 structural Zn binding site [ion binding]; other site 404589004618 Alpha-L-arabinofuranosidase B (ABFB); Region: AbfB; pfam05270 404589004619 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 404589004620 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 404589004621 N-acetyl-D-glucosamine binding site [chemical binding]; other site 404589004622 catalytic residue [active] 404589004623 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589004624 active site 404589004625 metal binding site [ion binding]; metal-binding site 404589004626 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 404589004627 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 404589004628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589004629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589004630 active site 404589004631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589004632 NnrS protein; Region: NnrS; cl01258 404589004633 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 404589004634 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 404589004635 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 404589004636 substrate-cofactor binding pocket; other site 404589004637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589004638 homodimer interface [polypeptide binding]; other site 404589004639 catalytic residue [active] 404589004640 Domain of unknown function (DUF309); Region: DUF309; pfam03745 404589004641 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 404589004642 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589004643 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589004644 ABC transporter; Region: ABC_tran_2; pfam12848 404589004645 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589004646 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589004647 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 404589004648 active site 404589004649 HipA-like N-terminal domain; Region: HipA_N; pfam07805 404589004650 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 404589004651 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 404589004652 classical (c) SDRs; Region: SDR_c; cd05233 404589004653 NAD(P) binding site [chemical binding]; other site 404589004654 active site 404589004655 Cupin domain; Region: Cupin_2; pfam07883 404589004656 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 404589004657 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 404589004658 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 404589004659 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589004660 Walker A/P-loop; other site 404589004661 ATP binding site [chemical binding]; other site 404589004662 Q-loop/lid; other site 404589004663 ABC transporter signature motif; other site 404589004664 Walker B; other site 404589004665 D-loop; other site 404589004666 H-loop/switch region; other site 404589004667 TOBE-like domain; Region: TOBE_3; pfam12857 404589004668 sulfate transport protein; Provisional; Region: cysT; CHL00187 404589004669 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 404589004670 dimer interface [polypeptide binding]; other site 404589004671 conserved gate region; other site 404589004672 putative PBP binding loops; other site 404589004673 ABC-ATPase subunit interface; other site 404589004674 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 404589004675 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 404589004676 dimer interface [polypeptide binding]; other site 404589004677 conserved gate region; other site 404589004678 putative PBP binding loops; other site 404589004679 ABC-ATPase subunit interface; other site 404589004680 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 404589004681 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 404589004682 Active Sites [active] 404589004683 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 404589004684 ligand-binding site [chemical binding]; other site 404589004685 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 404589004686 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 404589004687 CysD dimerization site [polypeptide binding]; other site 404589004688 G1 box; other site 404589004689 putative GEF interaction site [polypeptide binding]; other site 404589004690 GTP/Mg2+ binding site [chemical binding]; other site 404589004691 Switch I region; other site 404589004692 G2 box; other site 404589004693 G3 box; other site 404589004694 Switch II region; other site 404589004695 G4 box; other site 404589004696 G5 box; other site 404589004697 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 404589004698 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 404589004699 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 404589004700 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 404589004701 Active Sites [active] 404589004702 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 404589004703 hydrophobic ligand binding site; other site 404589004704 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589004705 active site 404589004706 metal binding site [ion binding]; metal-binding site 404589004707 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589004708 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 404589004709 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 404589004710 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589004711 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589004712 acyl-activating enzyme (AAE) consensus motif; other site 404589004713 AMP binding site [chemical binding]; other site 404589004714 active site 404589004715 CoA binding site [chemical binding]; other site 404589004716 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 404589004717 active site 404589004718 oxyanion hole [active] 404589004719 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 404589004720 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; cl17321 404589004721 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 404589004722 putative dimer interface [polypeptide binding]; other site 404589004723 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589004724 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 404589004725 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 404589004726 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 404589004727 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589004728 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589004729 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 404589004730 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 404589004731 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 404589004732 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 404589004733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589004734 Walker A/P-loop; other site 404589004735 ATP binding site [chemical binding]; other site 404589004736 Q-loop/lid; other site 404589004737 ABC transporter signature motif; other site 404589004738 Walker B; other site 404589004739 D-loop; other site 404589004740 H-loop/switch region; other site 404589004741 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 404589004742 putative PBP binding loops; other site 404589004743 dimer interface [polypeptide binding]; other site 404589004744 ABC-ATPase subunit interface; other site 404589004745 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 404589004746 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 404589004747 dimer interface [polypeptide binding]; other site 404589004748 conserved gate region; other site 404589004749 putative PBP binding loops; other site 404589004750 ABC-ATPase subunit interface; other site 404589004751 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 404589004752 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 404589004753 tetrameric interface [polypeptide binding]; other site 404589004754 NAD binding site [chemical binding]; other site 404589004755 catalytic residues [active] 404589004756 Predicted flavoprotein [General function prediction only]; Region: COG0431 404589004757 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 404589004758 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 404589004759 ThiF family; Region: ThiF; pfam00899 404589004760 ATP binding site [chemical binding]; other site 404589004761 substrate interface [chemical binding]; other site 404589004762 Uncharacterized conserved protein [Function unknown]; Region: COG2461 404589004763 Family of unknown function (DUF438); Region: DUF438; pfam04282 404589004764 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 404589004765 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 404589004766 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 404589004767 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589004768 dimer interface [polypeptide binding]; other site 404589004769 phosphorylation site [posttranslational modification] 404589004770 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589004771 ATP binding site [chemical binding]; other site 404589004772 Mg2+ binding site [ion binding]; other site 404589004773 G-X-G motif; other site 404589004774 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589004775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589004776 phosphorylation site [posttranslational modification] 404589004777 intermolecular recognition site; other site 404589004778 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 404589004779 active site 404589004780 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 404589004781 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 404589004782 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 404589004783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589004784 NAD(P) binding site [chemical binding]; other site 404589004785 active site 404589004786 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 404589004787 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 404589004788 TM-ABC transporter signature motif; other site 404589004789 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 404589004790 TM-ABC transporter signature motif; other site 404589004791 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 404589004792 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 404589004793 putative ligand binding site [chemical binding]; other site 404589004794 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 404589004795 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 404589004796 Walker A/P-loop; other site 404589004797 ATP binding site [chemical binding]; other site 404589004798 Q-loop/lid; other site 404589004799 ABC transporter signature motif; other site 404589004800 Walker B; other site 404589004801 D-loop; other site 404589004802 H-loop/switch region; other site 404589004803 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 404589004804 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 404589004805 Walker A/P-loop; other site 404589004806 ATP binding site [chemical binding]; other site 404589004807 Q-loop/lid; other site 404589004808 ABC transporter signature motif; other site 404589004809 Walker B; other site 404589004810 D-loop; other site 404589004811 H-loop/switch region; other site 404589004812 beta propeller repeat, Methanosarcina surface protein type; Region: beta_prop_Msarc; TIGR04275 404589004813 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 404589004814 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589004815 active site 404589004816 catalytic tetrad [active] 404589004817 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589004818 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589004819 active site 404589004820 metal binding site [ion binding]; metal-binding site 404589004821 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 404589004822 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 404589004823 Hemerythrin-like domain; Region: Hr-like; cd12108 404589004824 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 404589004825 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 404589004826 Hemerythrin-like domain; Region: Hr-like; cd12108 404589004827 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589004828 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 404589004829 Walker A motif; other site 404589004830 ATP binding site [chemical binding]; other site 404589004831 Walker B motif; other site 404589004832 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589004833 Putative exonuclease, RdgC; Region: RdgC; cl01122 404589004834 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589004835 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 404589004836 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589004837 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 404589004838 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 404589004839 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 404589004840 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589004841 Walker A/P-loop; other site 404589004842 ATP binding site [chemical binding]; other site 404589004843 Q-loop/lid; other site 404589004844 ABC transporter signature motif; other site 404589004845 Walker B; other site 404589004846 D-loop; other site 404589004847 H-loop/switch region; other site 404589004848 TOBE domain; Region: TOBE_2; pfam08402 404589004849 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 404589004850 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 404589004851 dimer interface [polypeptide binding]; other site 404589004852 conserved gate region; other site 404589004853 putative PBP binding loops; other site 404589004854 ABC-ATPase subunit interface; other site 404589004855 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 404589004856 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 404589004857 dimer interface [polypeptide binding]; other site 404589004858 ABC-ATPase subunit interface; other site 404589004859 putative PBP binding loops; other site 404589004860 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 404589004861 YciI-like protein; Reviewed; Region: PRK12866 404589004862 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 404589004863 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 404589004864 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589004865 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 404589004866 active site 404589004867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 404589004868 TPR repeat; Region: TPR_11; pfam13414 404589004869 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 404589004870 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 404589004871 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 404589004872 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 404589004873 G1 box; other site 404589004874 putative GEF interaction site [polypeptide binding]; other site 404589004875 GTP/Mg2+ binding site [chemical binding]; other site 404589004876 Switch I region; other site 404589004877 G2 box; other site 404589004878 G3 box; other site 404589004879 Switch II region; other site 404589004880 G4 box; other site 404589004881 G5 box; other site 404589004882 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 404589004883 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 404589004884 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 404589004885 putative substrate translocation pore; other site 404589004886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589004887 NAD(P) binding site [chemical binding]; other site 404589004888 active site 404589004889 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 404589004890 Peptidase family M48; Region: Peptidase_M48; cl12018 404589004891 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 404589004892 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 404589004893 active site 404589004894 DNA binding site [nucleotide binding] 404589004895 Int/Topo IB signature motif; other site 404589004896 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 404589004897 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 404589004898 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 404589004899 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 404589004900 BON domain; Region: BON; pfam04972 404589004901 BON domain; Region: BON; pfam04972 404589004902 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 404589004903 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 404589004904 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589004905 catalytic residue [active] 404589004906 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 404589004907 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 404589004908 putative substrate translocation pore; other site 404589004909 CHASE domain; Region: CHASE; pfam03924 404589004910 GAF domain; Region: GAF; cl17456 404589004911 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589004912 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 404589004913 dimer interface [polypeptide binding]; other site 404589004914 phosphorylation site [posttranslational modification] 404589004915 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589004916 ATP binding site [chemical binding]; other site 404589004917 Mg2+ binding site [ion binding]; other site 404589004918 G-X-G motif; other site 404589004919 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 404589004920 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 404589004921 ATP binding site [chemical binding]; other site 404589004922 putative Mg++ binding site [ion binding]; other site 404589004923 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 404589004924 nucleotide binding region [chemical binding]; other site 404589004925 ATP-binding site [chemical binding]; other site 404589004926 DEAD/H associated; Region: DEAD_assoc; pfam08494 404589004927 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 404589004928 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 404589004929 putative DNA binding site [nucleotide binding]; other site 404589004930 catalytic residue [active] 404589004931 putative H2TH interface [polypeptide binding]; other site 404589004932 putative catalytic residues [active] 404589004933 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 404589004934 Cupin domain; Region: Cupin_2; cl17218 404589004935 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 404589004936 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 404589004937 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 404589004938 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 404589004939 iron-sulfur cluster [ion binding]; other site 404589004940 [2Fe-2S] cluster binding site [ion binding]; other site 404589004941 Tellurite resistance protein TerB; Region: TerB; pfam05099 404589004942 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 404589004943 Cation efflux family; Region: Cation_efflux; cl00316 404589004944 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 404589004945 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 404589004946 active site 404589004947 ADP/pyrophosphate binding site [chemical binding]; other site 404589004948 dimerization interface [polypeptide binding]; other site 404589004949 allosteric effector site; other site 404589004950 fructose-1,6-bisphosphate binding site; other site 404589004951 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 404589004952 TrkA-N domain; Region: TrkA_N; pfam02254 404589004953 Uncharacterized conserved protein [Function unknown]; Region: COG1432 404589004954 NYN domain; Region: NYN; pfam01936 404589004955 putative metal binding site [ion binding]; other site 404589004956 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 404589004957 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 404589004958 DNA binding site [nucleotide binding] 404589004959 Bacterial transcriptional activator domain; Region: BTAD; smart01043 404589004960 Predicted integral membrane protein [Function unknown]; Region: COG5616 404589004961 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 404589004962 TPR motif; other site 404589004963 TPR repeat; Region: TPR_11; pfam13414 404589004964 binding surface 404589004965 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 404589004966 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 404589004967 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 404589004968 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589004969 catalytic residue [active] 404589004970 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 404589004971 DTW domain; Region: DTW; cl01221 404589004972 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 404589004973 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 404589004974 putative deacylase active site [active] 404589004975 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 404589004976 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 404589004977 RNA/DNA hybrid binding site [nucleotide binding]; other site 404589004978 active site 404589004979 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 404589004980 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 404589004981 metal binding site [ion binding]; metal-binding site 404589004982 dimer interface [polypeptide binding]; other site 404589004983 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 404589004984 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 404589004985 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 404589004986 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 404589004987 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 404589004988 diiron binding motif [ion binding]; other site 404589004989 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589004990 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 404589004991 putative acyl-acceptor binding pocket; other site 404589004992 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 404589004993 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 404589004994 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 404589004995 active site 404589004996 catalytic residues [active] 404589004997 metal binding site [ion binding]; metal-binding site 404589004998 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 404589004999 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 404589005000 tartrate dehydrogenase; Region: TTC; TIGR02089 404589005001 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 404589005002 Peptidase family M48; Region: Peptidase_M48; pfam01435 404589005003 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 404589005004 active site 404589005005 catalytic tetrad [active] 404589005006 elongation factor G; Reviewed; Region: PRK12739 404589005007 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 404589005008 G1 box; other site 404589005009 putative GEF interaction site [polypeptide binding]; other site 404589005010 GTP/Mg2+ binding site [chemical binding]; other site 404589005011 Switch I region; other site 404589005012 G2 box; other site 404589005013 G3 box; other site 404589005014 Switch II region; other site 404589005015 G4 box; other site 404589005016 G5 box; other site 404589005017 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 404589005018 Elongation factor G, domain IV; Region: EFG_IV; smart00889 404589005019 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 404589005020 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 404589005021 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 404589005022 Na binding site [ion binding]; other site 404589005023 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 404589005024 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 404589005025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589005026 catalytic residue [active] 404589005027 Uncharacterized conserved protein [Function unknown]; Region: COG1434 404589005028 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 404589005029 putative active site [active] 404589005030 Hemerythrin; Region: Hemerythrin; cd12107 404589005031 Fe binding site [ion binding]; other site 404589005032 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 404589005033 dimer interface [polypeptide binding]; other site 404589005034 substrate binding site [chemical binding]; other site 404589005035 ATP binding site [chemical binding]; other site 404589005036 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 404589005037 active site 404589005038 catalytic site [active] 404589005039 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 404589005040 acetyl-CoA synthetase; Provisional; Region: PRK00174 404589005041 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589005042 acyl-activating enzyme (AAE) consensus motif; other site 404589005043 AMP binding site [chemical binding]; other site 404589005044 active site 404589005045 CoA binding site [chemical binding]; other site 404589005046 PAS fold; Region: PAS_4; pfam08448 404589005047 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 404589005048 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 404589005049 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 404589005050 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005051 ATP binding site [chemical binding]; other site 404589005052 G-X-G motif; other site 404589005053 Response regulator receiver domain; Region: Response_reg; pfam00072 404589005054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005055 active site 404589005056 phosphorylation site [posttranslational modification] 404589005057 intermolecular recognition site; other site 404589005058 dimerization interface [polypeptide binding]; other site 404589005059 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 404589005060 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 404589005061 Walker A/P-loop; other site 404589005062 ATP binding site [chemical binding]; other site 404589005063 Q-loop/lid; other site 404589005064 ABC transporter signature motif; other site 404589005065 Walker B; other site 404589005066 D-loop; other site 404589005067 H-loop/switch region; other site 404589005068 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 404589005069 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 404589005070 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 404589005071 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 404589005072 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589005073 substrate binding site [chemical binding]; other site 404589005074 activation loop (A-loop); other site 404589005075 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 404589005076 binding surface 404589005077 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589005078 TPR motif; other site 404589005079 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 404589005080 TPR motif; other site 404589005081 binding surface 404589005082 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 404589005083 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 404589005084 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 404589005085 DXD motif; other site 404589005086 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 404589005087 phosphoglucomutase; Validated; Region: PRK07564 404589005088 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 404589005089 active site 404589005090 substrate binding site [chemical binding]; other site 404589005091 metal binding site [ion binding]; metal-binding site 404589005092 AAA domain; Region: AAA_33; pfam13671 404589005093 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589005094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589005095 NAD(P) binding site [chemical binding]; other site 404589005096 active site 404589005097 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 404589005098 active site 404589005099 Zn binding site [ion binding]; other site 404589005100 CsbD-like; Region: CsbD; pfam05532 404589005101 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 404589005102 Protein export membrane protein; Region: SecD_SecF; cl14618 404589005103 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589005104 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 404589005105 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589005106 Outer membrane efflux protein; Region: OEP; pfam02321 404589005107 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 404589005108 GSH binding site [chemical binding]; other site 404589005109 catalytic residues [active] 404589005110 Peptidase family M48; Region: Peptidase_M48; cl12018 404589005111 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 404589005112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589005113 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 404589005114 putative dimerization interface [polypeptide binding]; other site 404589005115 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 404589005116 Putative phage integrase; Region: Phage_Integr_2; pfam13009 404589005117 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 404589005118 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 404589005119 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 404589005120 putative active site [active] 404589005121 putative substrate binding site [chemical binding]; other site 404589005122 putative cosubstrate binding site; other site 404589005123 catalytic site [active] 404589005124 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 404589005125 dimerization interface [polypeptide binding]; other site 404589005126 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 404589005127 dimer interface [polypeptide binding]; other site 404589005128 phosphorylation site [posttranslational modification] 404589005129 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005130 ATP binding site [chemical binding]; other site 404589005131 Mg2+ binding site [ion binding]; other site 404589005132 G-X-G motif; other site 404589005133 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cd11375 404589005134 active site 404589005135 Zn binding site [ion binding]; other site 404589005136 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589005137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005138 active site 404589005139 phosphorylation site [posttranslational modification] 404589005140 intermolecular recognition site; other site 404589005141 dimerization interface [polypeptide binding]; other site 404589005142 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 404589005143 Walker A motif; other site 404589005144 ATP binding site [chemical binding]; other site 404589005145 Walker B motif; other site 404589005146 arginine finger; other site 404589005147 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589005148 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 404589005149 4Fe-4S binding domain; Region: Fer4; pfam00037 404589005150 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 404589005151 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 404589005152 lipoyl attachment site [posttranslational modification]; other site 404589005153 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 404589005154 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 404589005155 lipoyl attachment site [posttranslational modification]; other site 404589005156 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589005157 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 404589005158 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 404589005159 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 404589005160 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 404589005161 Peptidase family M48; Region: Peptidase_M48; cl12018 404589005162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589005163 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 404589005164 dimerization interface [polypeptide binding]; other site 404589005165 Histidine kinase; Region: HisKA_3; pfam07730 404589005166 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005167 ATP binding site [chemical binding]; other site 404589005168 Mg2+ binding site [ion binding]; other site 404589005169 G-X-G motif; other site 404589005170 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589005171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005172 active site 404589005173 phosphorylation site [posttranslational modification] 404589005174 intermolecular recognition site; other site 404589005175 dimerization interface [polypeptide binding]; other site 404589005176 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 404589005177 DNA binding residues [nucleotide binding] 404589005178 dimerization interface [polypeptide binding]; other site 404589005179 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 404589005180 active site 404589005181 catalytic triad [active] 404589005182 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 404589005183 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589005184 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 404589005185 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 404589005186 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 404589005187 S-adenosylmethionine binding site [chemical binding]; other site 404589005188 Methyltransferase domain; Region: Methyltransf_23; pfam13489 404589005189 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 404589005190 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 404589005191 Probable Catalytic site; other site 404589005192 metal-binding site 404589005193 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 404589005194 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 404589005195 Ligand binding site; other site 404589005196 Putative Catalytic site; other site 404589005197 DXD motif; other site 404589005198 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 404589005199 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 404589005200 metal-binding site 404589005201 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 404589005202 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 404589005203 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 404589005204 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 404589005205 S-adenosylmethionine binding site [chemical binding]; other site 404589005206 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 404589005207 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 404589005208 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 404589005209 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589005210 Uncharacterized conserved protein [Function unknown]; Region: COG3391 404589005211 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 404589005212 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 404589005213 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 404589005214 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005215 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589005216 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005217 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005218 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005219 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589005220 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005221 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005222 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005223 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005224 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005225 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005226 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005227 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005228 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589005229 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 404589005230 heme-binding residues [chemical binding]; other site 404589005231 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005232 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005233 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005234 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005235 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 404589005236 NHL repeat; Region: NHL; pfam01436 404589005237 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 404589005238 binding surface 404589005239 TPR motif; other site 404589005240 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589005241 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589005242 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 404589005243 binding surface 404589005244 TPR motif; other site 404589005245 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 404589005246 Transposase; Region: HTH_Tnp_Tc3_2; pfam01498 404589005247 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 404589005248 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 404589005249 tRNA; other site 404589005250 putative tRNA binding site [nucleotide binding]; other site 404589005251 putative NADP binding site [chemical binding]; other site 404589005252 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 404589005253 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 404589005254 dimerization interface [polypeptide binding]; other site 404589005255 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 404589005256 dimer interface [polypeptide binding]; other site 404589005257 phosphorylation site [posttranslational modification] 404589005258 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005259 ATP binding site [chemical binding]; other site 404589005260 Mg2+ binding site [ion binding]; other site 404589005261 G-X-G motif; other site 404589005262 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589005263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005264 active site 404589005265 phosphorylation site [posttranslational modification] 404589005266 intermolecular recognition site; other site 404589005267 dimerization interface [polypeptide binding]; other site 404589005268 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 404589005269 Walker A motif; other site 404589005270 ATP binding site [chemical binding]; other site 404589005271 Walker B motif; other site 404589005272 arginine finger; other site 404589005273 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589005274 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 404589005275 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 404589005276 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589005277 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 404589005278 DNA binding residues [nucleotide binding] 404589005279 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589005280 dimer interface [polypeptide binding]; other site 404589005281 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 404589005282 phosphorylation site [posttranslational modification] 404589005283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005284 Response regulator receiver domain; Region: Response_reg; pfam00072 404589005285 active site 404589005286 phosphorylation site [posttranslational modification] 404589005287 intermolecular recognition site; other site 404589005288 dimerization interface [polypeptide binding]; other site 404589005289 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 404589005290 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 404589005291 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 404589005292 G1 box; other site 404589005293 putative GEF interaction site [polypeptide binding]; other site 404589005294 GTP/Mg2+ binding site [chemical binding]; other site 404589005295 Switch I region; other site 404589005296 G2 box; other site 404589005297 G3 box; other site 404589005298 Switch II region; other site 404589005299 G4 box; other site 404589005300 G5 box; other site 404589005301 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 404589005302 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 404589005303 Response regulator receiver domain; Region: Response_reg; pfam00072 404589005304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005305 active site 404589005306 phosphorylation site [posttranslational modification] 404589005307 intermolecular recognition site; other site 404589005308 dimerization interface [polypeptide binding]; other site 404589005309 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 404589005310 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 404589005311 dimer interface [polypeptide binding]; other site 404589005312 phosphorylation site [posttranslational modification] 404589005313 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005314 ATP binding site [chemical binding]; other site 404589005315 Mg2+ binding site [ion binding]; other site 404589005316 G-X-G motif; other site 404589005317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005318 Response regulator receiver domain; Region: Response_reg; pfam00072 404589005319 active site 404589005320 phosphorylation site [posttranslational modification] 404589005321 intermolecular recognition site; other site 404589005322 dimerization interface [polypeptide binding]; other site 404589005323 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589005324 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589005325 metal binding site [ion binding]; metal-binding site 404589005326 active site 404589005327 I-site; other site 404589005328 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 404589005329 dimerization interface [polypeptide binding]; other site 404589005330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589005331 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 404589005332 phosphorylation site [posttranslational modification] 404589005333 dimer interface [polypeptide binding]; other site 404589005334 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005335 ATP binding site [chemical binding]; other site 404589005336 Mg2+ binding site [ion binding]; other site 404589005337 G-X-G motif; other site 404589005338 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 404589005339 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 404589005340 beta propeller repeat, Methanosarcina surface protein type; Region: beta_prop_Msarc; TIGR04275 404589005341 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589005342 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 404589005343 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 404589005344 oligomer interface [polypeptide binding]; other site 404589005345 metal binding site [ion binding]; metal-binding site 404589005346 metal binding site [ion binding]; metal-binding site 404589005347 putative Cl binding site [ion binding]; other site 404589005348 basic sphincter; other site 404589005349 hydrophobic gate; other site 404589005350 periplasmic entrance; other site 404589005351 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 404589005352 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589005353 active site 404589005354 metal binding site [ion binding]; metal-binding site 404589005355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 404589005356 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 404589005357 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 404589005358 putative active site [active] 404589005359 putative metal binding site [ion binding]; other site 404589005360 CHASE3 domain; Region: CHASE3; pfam05227 404589005361 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589005362 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 404589005363 dimer interface [polypeptide binding]; other site 404589005364 phosphorylation site [posttranslational modification] 404589005365 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005366 ATP binding site [chemical binding]; other site 404589005367 Mg2+ binding site [ion binding]; other site 404589005368 G-X-G motif; other site 404589005369 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 404589005370 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 404589005371 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 404589005372 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 404589005373 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 404589005374 active site 404589005375 dimer interface [polypeptide binding]; other site 404589005376 motif 1; other site 404589005377 motif 2; other site 404589005378 motif 3; other site 404589005379 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 404589005380 anticodon binding site; other site 404589005381 2-isopropylmalate synthase; Validated; Region: PRK00915 404589005382 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 404589005383 active site 404589005384 catalytic residues [active] 404589005385 metal binding site [ion binding]; metal-binding site 404589005386 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 404589005387 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 404589005388 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 404589005389 substrate binding site [chemical binding]; other site 404589005390 ligand binding site [chemical binding]; other site 404589005391 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 404589005392 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 404589005393 substrate binding site [chemical binding]; other site 404589005394 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 404589005395 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 404589005396 PYR/PP interface [polypeptide binding]; other site 404589005397 dimer interface [polypeptide binding]; other site 404589005398 TPP binding site [chemical binding]; other site 404589005399 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 404589005400 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 404589005401 TPP-binding site [chemical binding]; other site 404589005402 dimer interface [polypeptide binding]; other site 404589005403 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 404589005404 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 404589005405 putative valine binding site [chemical binding]; other site 404589005406 dimer interface [polypeptide binding]; other site 404589005407 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 404589005408 ketol-acid reductoisomerase; Provisional; Region: PRK05479 404589005409 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 404589005410 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 404589005411 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 404589005412 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 404589005413 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 404589005414 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 404589005415 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 404589005416 23S rRNA binding site [nucleotide binding]; other site 404589005417 L21 binding site [polypeptide binding]; other site 404589005418 L13 binding site [polypeptide binding]; other site 404589005419 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 404589005420 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 404589005421 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 404589005422 dimer interface [polypeptide binding]; other site 404589005423 motif 1; other site 404589005424 active site 404589005425 motif 2; other site 404589005426 motif 3; other site 404589005427 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 404589005428 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 404589005429 putative tRNA-binding site [nucleotide binding]; other site 404589005430 B3/4 domain; Region: B3_4; pfam03483 404589005431 tRNA synthetase B5 domain; Region: B5; smart00874 404589005432 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 404589005433 dimer interface [polypeptide binding]; other site 404589005434 motif 1; other site 404589005435 motif 3; other site 404589005436 motif 2; other site 404589005437 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 404589005438 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 404589005439 IHF dimer interface [polypeptide binding]; other site 404589005440 IHF - DNA interface [nucleotide binding]; other site 404589005441 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 404589005442 active site 404589005443 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 404589005444 active site 404589005445 classical (c) SDRs; Region: SDR_c; cd05233 404589005446 NAD(P) binding site [chemical binding]; other site 404589005447 active site 404589005448 FAD binding domain; Region: FAD_binding_4; pfam01565 404589005449 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 404589005450 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 404589005451 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 404589005452 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 404589005453 dimer interface [polypeptide binding]; other site 404589005454 PYR/PP interface [polypeptide binding]; other site 404589005455 TPP binding site [chemical binding]; other site 404589005456 substrate binding site [chemical binding]; other site 404589005457 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 404589005458 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 404589005459 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 404589005460 TPP-binding site [chemical binding]; other site 404589005461 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 404589005462 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 404589005463 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 404589005464 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 404589005465 dimer interface [polypeptide binding]; other site 404589005466 PYR/PP interface [polypeptide binding]; other site 404589005467 TPP binding site [chemical binding]; other site 404589005468 substrate binding site [chemical binding]; other site 404589005469 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 404589005470 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 404589005471 TPP-binding site [chemical binding]; other site 404589005472 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 404589005473 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 404589005474 TPR motif; other site 404589005475 binding surface 404589005476 TPR repeat; Region: TPR_11; pfam13414 404589005477 TPR repeat; Region: TPR_11; pfam13414 404589005478 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 404589005479 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589005480 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 404589005481 NAD binding site [chemical binding]; other site 404589005482 putative substrate binding site 2 [chemical binding]; other site 404589005483 putative substrate binding site 1 [chemical binding]; other site 404589005484 active site 404589005485 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589005486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589005487 NAD(P) binding site [chemical binding]; other site 404589005488 active site 404589005489 Transglycosylase; Region: Transgly; pfam00912 404589005490 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 404589005491 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 404589005492 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 404589005493 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 404589005494 endonuclease III; Region: ENDO3c; smart00478 404589005495 minor groove reading motif; other site 404589005496 helix-hairpin-helix signature motif; other site 404589005497 substrate binding pocket [chemical binding]; other site 404589005498 active site 404589005499 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 404589005500 S17 interaction site [polypeptide binding]; other site 404589005501 S8 interaction site; other site 404589005502 16S rRNA interaction site [nucleotide binding]; other site 404589005503 streptomycin interaction site [chemical binding]; other site 404589005504 23S rRNA interaction site [nucleotide binding]; other site 404589005505 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 404589005506 30S ribosomal protein S7; Validated; Region: PRK05302 404589005507 elongation factor G; Reviewed; Region: PRK00007 404589005508 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 404589005509 G1 box; other site 404589005510 putative GEF interaction site [polypeptide binding]; other site 404589005511 GTP/Mg2+ binding site [chemical binding]; other site 404589005512 Switch I region; other site 404589005513 G2 box; other site 404589005514 G3 box; other site 404589005515 Switch II region; other site 404589005516 G4 box; other site 404589005517 G5 box; other site 404589005518 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 404589005519 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 404589005520 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 404589005521 elongation factor Tu; Reviewed; Region: PRK00049 404589005522 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 404589005523 G1 box; other site 404589005524 GEF interaction site [polypeptide binding]; other site 404589005525 GTP/Mg2+ binding site [chemical binding]; other site 404589005526 Switch I region; other site 404589005527 G2 box; other site 404589005528 G3 box; other site 404589005529 Switch II region; other site 404589005530 G4 box; other site 404589005531 G5 box; other site 404589005532 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 404589005533 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 404589005534 Antibiotic Binding Site [chemical binding]; other site 404589005535 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 404589005536 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 404589005537 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 404589005538 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 404589005539 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 404589005540 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 404589005541 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 404589005542 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 404589005543 protein-rRNA interface [nucleotide binding]; other site 404589005544 putative translocon binding site; other site 404589005545 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 404589005546 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 404589005547 G-X-X-G motif; other site 404589005548 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 404589005549 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 404589005550 23S rRNA interface [nucleotide binding]; other site 404589005551 5S rRNA interface [nucleotide binding]; other site 404589005552 putative antibiotic binding site [chemical binding]; other site 404589005553 L25 interface [polypeptide binding]; other site 404589005554 L27 interface [polypeptide binding]; other site 404589005555 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 404589005556 putative translocon interaction site; other site 404589005557 signal recognition particle (SRP54) interaction site; other site 404589005558 L23 interface [polypeptide binding]; other site 404589005559 trigger factor interaction site; other site 404589005560 23S rRNA interface [nucleotide binding]; other site 404589005561 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 404589005562 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 404589005563 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 404589005564 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 404589005565 RNA binding site [nucleotide binding]; other site 404589005566 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 404589005567 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 404589005568 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 404589005569 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 404589005570 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 404589005571 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 404589005572 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 404589005573 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 404589005574 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 404589005575 5S rRNA interface [nucleotide binding]; other site 404589005576 L27 interface [polypeptide binding]; other site 404589005577 L5 interface [polypeptide binding]; other site 404589005578 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 404589005579 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 404589005580 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 404589005581 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 404589005582 23S rRNA binding site [nucleotide binding]; other site 404589005583 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 404589005584 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 404589005585 SecY translocase; Region: SecY; pfam00344 404589005586 adenylate kinase; Reviewed; Region: adk; PRK00279 404589005587 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 404589005588 AMP-binding site [chemical binding]; other site 404589005589 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 404589005590 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 404589005591 active site 404589005592 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 404589005593 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 404589005594 30S ribosomal protein S13; Region: bact_S13; TIGR03631 404589005595 30S ribosomal protein S11; Validated; Region: PRK05309 404589005596 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 404589005597 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 404589005598 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 404589005599 RNA binding surface [nucleotide binding]; other site 404589005600 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 404589005601 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 404589005602 alphaNTD homodimer interface [polypeptide binding]; other site 404589005603 alphaNTD - beta interaction site [polypeptide binding]; other site 404589005604 alphaNTD - beta' interaction site [polypeptide binding]; other site 404589005605 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 404589005606 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 404589005607 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 404589005608 PAP2 superfamily; Region: PAP2; pfam01569 404589005609 active site 404589005610 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14525 404589005611 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 404589005612 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 404589005613 G-X-X-G motif; other site 404589005614 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 404589005615 RimM N-terminal domain; Region: RimM; pfam01782 404589005616 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 404589005617 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 404589005618 hypothetical protein; Reviewed; Region: PRK12497 404589005619 Predicted methyltransferases [General function prediction only]; Region: COG0313 404589005620 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 404589005621 putative SAM binding site [chemical binding]; other site 404589005622 putative homodimer interface [polypeptide binding]; other site 404589005623 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 404589005624 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 404589005625 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589005626 Coenzyme A binding pocket [chemical binding]; other site 404589005627 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589005628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005629 active site 404589005630 phosphorylation site [posttranslational modification] 404589005631 intermolecular recognition site; other site 404589005632 dimerization interface [polypeptide binding]; other site 404589005633 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 404589005634 Walker A motif; other site 404589005635 ATP binding site [chemical binding]; other site 404589005636 Walker B motif; other site 404589005637 arginine finger; other site 404589005638 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589005639 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 404589005640 GAF domain; Region: GAF; cl17456 404589005641 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 404589005642 dimer interface [polypeptide binding]; other site 404589005643 phosphorylation site [posttranslational modification] 404589005644 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005645 ATP binding site [chemical binding]; other site 404589005646 Mg2+ binding site [ion binding]; other site 404589005647 G-X-G motif; other site 404589005648 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 404589005649 N-acetyl-D-glucosamine binding site [chemical binding]; other site 404589005650 catalytic residue [active] 404589005651 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589005652 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 404589005653 active site 404589005654 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 404589005655 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 404589005656 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 404589005657 non-specific DNA binding site [nucleotide binding]; other site 404589005658 salt bridge; other site 404589005659 sequence-specific DNA binding site [nucleotide binding]; other site 404589005660 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 404589005661 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 404589005662 RNA binding surface [nucleotide binding]; other site 404589005663 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 404589005664 active site 404589005665 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 404589005666 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 404589005667 S-adenosylmethionine binding site [chemical binding]; other site 404589005668 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 404589005669 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 404589005670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589005671 Walker A/P-loop; other site 404589005672 ATP binding site [chemical binding]; other site 404589005673 Q-loop/lid; other site 404589005674 ABC transporter signature motif; other site 404589005675 Walker B; other site 404589005676 D-loop; other site 404589005677 H-loop/switch region; other site 404589005678 arginine decarboxylase; Provisional; Region: PRK05354 404589005679 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 404589005680 active site 404589005681 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 404589005682 catalytic residues [active] 404589005683 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 404589005684 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 404589005685 Dodecin; Region: Dodecin; pfam07311 404589005686 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 404589005687 S-adenosylmethionine binding site [chemical binding]; other site 404589005688 5' nucleotidase family; Region: 5_nucleotid; pfam05761 404589005689 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 404589005690 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 404589005691 sequence-specific DNA binding site [nucleotide binding]; other site 404589005692 salt bridge; other site 404589005693 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 404589005694 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 404589005695 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 404589005696 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 404589005697 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 404589005698 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 404589005699 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 404589005700 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 404589005701 active site 404589005702 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 404589005703 Permease; Region: Permease; pfam02405 404589005704 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 404589005705 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 404589005706 Walker A/P-loop; other site 404589005707 ATP binding site [chemical binding]; other site 404589005708 Q-loop/lid; other site 404589005709 ABC transporter signature motif; other site 404589005710 Walker B; other site 404589005711 D-loop; other site 404589005712 H-loop/switch region; other site 404589005713 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 404589005714 mce related protein; Region: MCE; pfam02470 404589005715 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 404589005716 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 404589005717 Cna protein B-type domain; Region: Cna_B_2; pfam13715 404589005718 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 404589005719 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 404589005720 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 404589005721 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589005722 catalytic residues [active] 404589005723 Domain of unknown function (DUF329); Region: DUF329; pfam03884 404589005724 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 404589005725 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 404589005726 dimerization interface [polypeptide binding]; other site 404589005727 ligand binding site [chemical binding]; other site 404589005728 NADP binding site [chemical binding]; other site 404589005729 catalytic site [active] 404589005730 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 404589005731 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 404589005732 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 404589005733 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 404589005734 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 404589005735 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 404589005736 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 404589005737 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 404589005738 B12 binding site [chemical binding]; other site 404589005739 cobalt ligand [ion binding]; other site 404589005740 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 404589005741 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 404589005742 FeS/SAM binding site; other site 404589005743 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 404589005744 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 404589005745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005746 active site 404589005747 phosphorylation site [posttranslational modification] 404589005748 intermolecular recognition site; other site 404589005749 dimerization interface [polypeptide binding]; other site 404589005750 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589005751 Zn2+ binding site [ion binding]; other site 404589005752 Mg2+ binding site [ion binding]; other site 404589005753 lipoyl synthase; Provisional; Region: PRK05481 404589005754 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 404589005755 FeS/SAM binding site; other site 404589005756 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 404589005757 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 404589005758 TPP-binding site [chemical binding]; other site 404589005759 tetramer interface [polypeptide binding]; other site 404589005760 heterodimer interface [polypeptide binding]; other site 404589005761 phosphorylation loop region [posttranslational modification] 404589005762 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 404589005763 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 404589005764 alpha subunit interface [polypeptide binding]; other site 404589005765 TPP binding site [chemical binding]; other site 404589005766 heterodimer interface [polypeptide binding]; other site 404589005767 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 404589005768 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 404589005769 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 404589005770 E3 interaction surface; other site 404589005771 lipoyl attachment site [posttranslational modification]; other site 404589005772 e3 binding domain; Region: E3_binding; pfam02817 404589005773 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 404589005774 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 404589005775 active site 404589005776 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 404589005777 putative ATP binding site [chemical binding]; other site 404589005778 putative substrate interface [chemical binding]; other site 404589005779 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 404589005780 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 404589005781 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589005782 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 404589005783 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 404589005784 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 404589005785 nudix motif; other site 404589005786 SUKH-4 immunity protein; Region: SUKH-4; pfam14435 404589005787 aspartate kinase; Validated; Region: PRK09181 404589005788 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 404589005789 nucleotide binding site [chemical binding]; other site 404589005790 substrate binding site [chemical binding]; other site 404589005791 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 404589005792 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 404589005793 PAS domain S-box; Region: sensory_box; TIGR00229 404589005794 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 404589005795 putative active site [active] 404589005796 heme pocket [chemical binding]; other site 404589005797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589005798 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 404589005799 dimer interface [polypeptide binding]; other site 404589005800 phosphorylation site [posttranslational modification] 404589005801 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005802 ATP binding site [chemical binding]; other site 404589005803 Mg2+ binding site [ion binding]; other site 404589005804 G-X-G motif; other site 404589005805 Response regulator receiver domain; Region: Response_reg; pfam00072 404589005806 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005807 active site 404589005808 phosphorylation site [posttranslational modification] 404589005809 intermolecular recognition site; other site 404589005810 dimerization interface [polypeptide binding]; other site 404589005811 alanine aminotransferase; Provisional; Region: PTZ00377 404589005812 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 404589005813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589005814 homodimer interface [polypeptide binding]; other site 404589005815 catalytic residue [active] 404589005816 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 404589005817 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 404589005818 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 404589005819 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 404589005820 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 404589005821 molybdopterin cofactor binding site; other site 404589005822 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 404589005823 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 404589005824 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 404589005825 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 404589005826 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 404589005827 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 404589005828 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 404589005829 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 404589005830 active sites [active] 404589005831 tetramer interface [polypeptide binding]; other site 404589005832 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 404589005833 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 404589005834 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 404589005835 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 404589005836 DXD motif; other site 404589005837 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 404589005838 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 404589005839 active site 404589005840 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 404589005841 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 404589005842 Part of AAA domain; Region: AAA_19; pfam13245 404589005843 Family description; Region: UvrD_C_2; pfam13538 404589005844 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589005845 rod shape-determining protein MreB; Provisional; Region: PRK13930 404589005846 nucleotide binding site [chemical binding]; other site 404589005847 SCP-2 sterol transfer family; Region: SCP2; pfam02036 404589005848 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 404589005849 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 404589005850 TPP-binding site [chemical binding]; other site 404589005851 dimer interface [polypeptide binding]; other site 404589005852 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 404589005853 PYR/PP interface [polypeptide binding]; other site 404589005854 dimer interface [polypeptide binding]; other site 404589005855 TPP binding site [chemical binding]; other site 404589005856 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 404589005857 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 404589005858 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 404589005859 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 404589005860 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 404589005861 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 404589005862 FOG: CBS domain [General function prediction only]; Region: COG0517 404589005863 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 404589005864 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589005865 metal binding triad; other site 404589005866 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 404589005867 Response regulator receiver domain; Region: Response_reg; pfam00072 404589005868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589005869 active site 404589005870 phosphorylation site [posttranslational modification] 404589005871 intermolecular recognition site; other site 404589005872 dimerization interface [polypeptide binding]; other site 404589005873 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 404589005874 Na binding site [ion binding]; other site 404589005875 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589005876 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 404589005877 dimer interface [polypeptide binding]; other site 404589005878 phosphorylation site [posttranslational modification] 404589005879 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589005880 ATP binding site [chemical binding]; other site 404589005881 Mg2+ binding site [ion binding]; other site 404589005882 G-X-G motif; other site 404589005883 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 404589005884 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 404589005885 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 404589005886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589005887 NAD(P) binding site [chemical binding]; other site 404589005888 active site 404589005889 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 404589005890 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 404589005891 active site residue [active] 404589005892 Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Signal transduction mechanisms]; Region: SpoIIAA; COG1366 404589005893 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 404589005894 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 404589005895 motif II; other site 404589005896 prephenate dehydratase; Provisional; Region: PRK11898 404589005897 Prephenate dehydratase; Region: PDT; pfam00800 404589005898 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 404589005899 putative L-Phe binding site [chemical binding]; other site 404589005900 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 404589005901 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 404589005902 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589005903 Beta-Casp domain; Region: Beta-Casp; smart01027 404589005904 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 404589005905 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 404589005906 active site 404589005907 8-oxo-dGMP binding site [chemical binding]; other site 404589005908 nudix motif; other site 404589005909 metal binding site [ion binding]; metal-binding site 404589005910 FtsH Extracellular; Region: FtsH_ext; pfam06480 404589005911 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 404589005912 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 404589005913 Walker A motif; other site 404589005914 ATP binding site [chemical binding]; other site 404589005915 Walker B motif; other site 404589005916 arginine finger; other site 404589005917 Peptidase family M41; Region: Peptidase_M41; pfam01434 404589005918 GrpE; Region: GrpE; pfam01025 404589005919 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 404589005920 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 404589005921 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 404589005922 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589005923 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 404589005924 protein binding site [polypeptide binding]; other site 404589005925 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 404589005926 protein binding site [polypeptide binding]; other site 404589005927 PilZ domain; Region: PilZ; cl01260 404589005928 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 404589005929 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 404589005930 Walker A/P-loop; other site 404589005931 ATP binding site [chemical binding]; other site 404589005932 Q-loop/lid; other site 404589005933 ABC transporter signature motif; other site 404589005934 Walker B; other site 404589005935 D-loop; other site 404589005936 H-loop/switch region; other site 404589005937 M6 family metalloprotease domain; Region: M6dom_TIGR03296 404589005938 Disaggregatase related; Region: Disaggr_assoc; pfam08480 404589005939 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 404589005940 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 404589005941 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 404589005942 NAD(P) binding site [chemical binding]; other site 404589005943 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 404589005944 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 404589005945 motif II; other site 404589005946 OsmC-like protein; Region: OsmC; pfam02566 404589005947 Cupin; Region: Cupin_6; pfam12852 404589005948 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 404589005949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589005950 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589005951 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589005952 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 404589005953 GIY-YIG motif/motif A; other site 404589005954 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 404589005955 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 404589005956 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589005957 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589005958 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589005959 TAP-like protein; Region: Abhydrolase_4; pfam08386 404589005960 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 404589005961 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 404589005962 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 404589005963 S-adenosylmethionine binding site [chemical binding]; other site 404589005964 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 404589005965 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 404589005966 active site 404589005967 (T/H)XGH motif; other site 404589005968 aspartate aminotransferase; Provisional; Region: PRK05764 404589005969 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 404589005970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589005971 homodimer interface [polypeptide binding]; other site 404589005972 catalytic residue [active] 404589005973 TPR repeat; Region: TPR_11; pfam13414 404589005974 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 404589005975 binding surface 404589005976 TPR motif; other site 404589005977 TPR repeat; Region: TPR_11; pfam13414 404589005978 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 404589005979 FecR protein; Region: FecR; pfam04773 404589005980 CARDB; Region: CARDB; pfam07705 404589005981 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 404589005982 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 404589005983 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 404589005984 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 404589005985 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 404589005986 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589005987 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 404589005988 IMP binding site; other site 404589005989 dimer interface [polypeptide binding]; other site 404589005990 partial ornithine binding site; other site 404589005991 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 404589005992 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 404589005993 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 404589005994 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 404589005995 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 404589005996 ssDNA binding site; other site 404589005997 generic binding surface II; other site 404589005998 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 404589005999 ATP binding site [chemical binding]; other site 404589006000 putative Mg++ binding site [ion binding]; other site 404589006001 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 404589006002 nucleotide binding region [chemical binding]; other site 404589006003 ATP-binding site [chemical binding]; other site 404589006004 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 404589006005 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 404589006006 S-adenosylmethionine binding site [chemical binding]; other site 404589006007 aminotransferase; Validated; Region: PRK08175 404589006008 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 404589006009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589006010 homodimer interface [polypeptide binding]; other site 404589006011 catalytic residue [active] 404589006012 threonine synthase; Region: PLN02569 404589006013 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 404589006014 homodimer interface [polypeptide binding]; other site 404589006015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589006016 catalytic residue [active] 404589006017 thymidylate kinase; Region: DTMP_kinase; TIGR00041 404589006018 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 404589006019 TMP-binding site; other site 404589006020 ATP-binding site [chemical binding]; other site 404589006021 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 404589006022 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 404589006023 putative MPT binding site; other site 404589006024 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 404589006025 Cytochrome c; Region: Cytochrom_C; pfam00034 404589006026 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 404589006027 Di-iron ligands [ion binding]; other site 404589006028 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 404589006029 active site 404589006030 dimer interface [polypeptide binding]; other site 404589006031 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 404589006032 dimer interface [polypeptide binding]; other site 404589006033 active site 404589006034 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589006035 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 404589006036 putative acyl-acceptor binding pocket; other site 404589006037 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 404589006038 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006039 ATP binding site [chemical binding]; other site 404589006040 Mg2+ binding site [ion binding]; other site 404589006041 G-X-G motif; other site 404589006042 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 404589006043 ATP binding site [chemical binding]; other site 404589006044 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 404589006045 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 404589006046 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589006047 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 404589006048 Walker A motif; other site 404589006049 ATP binding site [chemical binding]; other site 404589006050 Walker B motif; other site 404589006051 arginine finger; other site 404589006052 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589006053 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589006054 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589006055 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589006056 active site 404589006057 ATP binding site [chemical binding]; other site 404589006058 substrate binding site [chemical binding]; other site 404589006059 activation loop (A-loop); other site 404589006060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589006061 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589006062 active site 404589006063 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 404589006064 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589006065 active site 404589006066 catalytic tetrad [active] 404589006067 Found in ATP-dependent protease La (LON); Region: LON; smart00464 404589006068 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 404589006069 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 404589006070 Walker A motif; other site 404589006071 ATP binding site [chemical binding]; other site 404589006072 Walker B motif; other site 404589006073 arginine finger; other site 404589006074 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 404589006075 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589006076 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 404589006077 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589006078 LexA repressor; Validated; Region: PRK00215 404589006079 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 404589006080 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 404589006081 Catalytic site [active] 404589006082 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 404589006083 ABC1 family; Region: ABC1; pfam03109 404589006084 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 404589006085 active site 404589006086 ATP binding site [chemical binding]; other site 404589006087 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 404589006088 MutS domain I; Region: MutS_I; pfam01624 404589006089 MutS domain III; Region: MutS_III; pfam05192 404589006090 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 404589006091 Walker A/P-loop; other site 404589006092 ATP binding site [chemical binding]; other site 404589006093 Q-loop/lid; other site 404589006094 ABC transporter signature motif; other site 404589006095 Walker B; other site 404589006096 D-loop; other site 404589006097 H-loop/switch region; other site 404589006098 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 404589006099 heme-binding residues [chemical binding]; other site 404589006100 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 404589006101 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 404589006102 conserved cys residue [active] 404589006103 AMIN domain; Region: AMIN; pfam11741 404589006104 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 404589006105 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 404589006106 active site 404589006107 metal binding site [ion binding]; metal-binding site 404589006108 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589006109 PII uridylyl-transferase; Provisional; Region: PRK05092 404589006110 metal binding triad; other site 404589006111 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 404589006112 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589006113 Zn2+ binding site [ion binding]; other site 404589006114 Mg2+ binding site [ion binding]; other site 404589006115 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 404589006116 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 404589006117 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 404589006118 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589006119 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 404589006120 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 404589006121 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 404589006122 active site 404589006123 Int/Topo IB signature motif; other site 404589006124 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 404589006125 Peptidase family M50; Region: Peptidase_M50; pfam02163 404589006126 active site 404589006127 putative substrate binding region [chemical binding]; other site 404589006128 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 404589006129 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 404589006130 active site 404589006131 HIGH motif; other site 404589006132 dimer interface [polypeptide binding]; other site 404589006133 KMSKS motif; other site 404589006134 ScpA/B protein; Region: ScpA_ScpB; cl00598 404589006135 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 404589006136 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 404589006137 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 404589006138 RNA binding surface [nucleotide binding]; other site 404589006139 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 404589006140 active site 404589006141 HEAT repeats; Region: HEAT_2; pfam13646 404589006142 Secretin and TonB N terminus short domain; Region: STN; pfam07660 404589006143 Putative zinc-finger; Region: zf-HC2; pfam13490 404589006144 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 404589006145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589006146 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 404589006147 DNA binding residues [nucleotide binding] 404589006148 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 404589006149 transmembrane helices; other site 404589006150 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 404589006151 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 404589006152 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 404589006153 putative active site [active] 404589006154 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 404589006155 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 404589006156 oligomer interface [polypeptide binding]; other site 404589006157 metal binding site [ion binding]; metal-binding site 404589006158 metal binding site [ion binding]; metal-binding site 404589006159 putative Cl binding site [ion binding]; other site 404589006160 aspartate ring; other site 404589006161 basic sphincter; other site 404589006162 hydrophobic gate; other site 404589006163 periplasmic entrance; other site 404589006164 Domain of unknown function DUF59; Region: DUF59; pfam01883 404589006165 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 404589006166 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 404589006167 Walker A motif; other site 404589006168 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 404589006169 active site 404589006170 catalytic residues [active] 404589006171 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 404589006172 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 404589006173 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 404589006174 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 404589006175 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 404589006176 substrate binding site [chemical binding]; other site 404589006177 oxyanion hole (OAH) forming residues; other site 404589006178 trimer interface [polypeptide binding]; other site 404589006179 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589006180 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 404589006181 FAD binding site [chemical binding]; other site 404589006182 homotetramer interface [polypeptide binding]; other site 404589006183 substrate binding pocket [chemical binding]; other site 404589006184 catalytic base [active] 404589006185 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589006186 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589006187 active site 404589006188 propionate/acetate kinase; Provisional; Region: PRK12379 404589006189 Acetokinase family; Region: Acetate_kinase; cl17229 404589006190 putative phosphoketolase; Provisional; Region: PRK05261 404589006191 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 404589006192 TPP-binding site; other site 404589006193 XFP C-terminal domain; Region: XFP_C; pfam09363 404589006194 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 404589006195 dimerization interface [polypeptide binding]; other site 404589006196 active site 404589006197 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 404589006198 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 404589006199 DNA binding residues [nucleotide binding] 404589006200 dimer interface [polypeptide binding]; other site 404589006201 PAS domain; Region: PAS_9; pfam13426 404589006202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589006203 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 404589006204 dimer interface [polypeptide binding]; other site 404589006205 phosphorylation site [posttranslational modification] 404589006206 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006207 ATP binding site [chemical binding]; other site 404589006208 Mg2+ binding site [ion binding]; other site 404589006209 G-X-G motif; other site 404589006210 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 404589006211 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 404589006212 Walker A/P-loop; other site 404589006213 ATP binding site [chemical binding]; other site 404589006214 Q-loop/lid; other site 404589006215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589006216 Walker B; other site 404589006217 D-loop; other site 404589006218 H-loop/switch region; other site 404589006219 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 404589006220 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 404589006221 active site 404589006222 metal binding site [ion binding]; metal-binding site 404589006223 DNA binding site [nucleotide binding] 404589006224 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 404589006225 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 404589006226 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 404589006227 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 404589006228 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 404589006229 dimer interface [polypeptide binding]; other site 404589006230 decamer (pentamer of dimers) interface [polypeptide binding]; other site 404589006231 catalytic triad [active] 404589006232 peroxidatic and resolving cysteines [active] 404589006233 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 404589006234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589006235 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 404589006236 dimerization interface [polypeptide binding]; other site 404589006237 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 404589006238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589006239 NAD(P) binding site [chemical binding]; other site 404589006240 active site 404589006241 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 404589006242 active site 404589006243 8-oxo-dGMP binding site [chemical binding]; other site 404589006244 nudix motif; other site 404589006245 metal binding site [ion binding]; metal-binding site 404589006246 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 404589006247 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 404589006248 Trp docking motif [polypeptide binding]; other site 404589006249 active site 404589006250 GTP-binding protein Der; Reviewed; Region: PRK00093 404589006251 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 404589006252 G1 box; other site 404589006253 GTP/Mg2+ binding site [chemical binding]; other site 404589006254 Switch I region; other site 404589006255 G2 box; other site 404589006256 Switch II region; other site 404589006257 G3 box; other site 404589006258 G4 box; other site 404589006259 G5 box; other site 404589006260 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 404589006261 G1 box; other site 404589006262 GTP/Mg2+ binding site [chemical binding]; other site 404589006263 Switch I region; other site 404589006264 G2 box; other site 404589006265 G3 box; other site 404589006266 Switch II region; other site 404589006267 G4 box; other site 404589006268 G5 box; other site 404589006269 GTPase Era; Reviewed; Region: era; PRK00089 404589006270 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 404589006271 G1 box; other site 404589006272 GTP/Mg2+ binding site [chemical binding]; other site 404589006273 Switch I region; other site 404589006274 G2 box; other site 404589006275 Switch II region; other site 404589006276 G3 box; other site 404589006277 G4 box; other site 404589006278 G5 box; other site 404589006279 KH domain; Region: KH_2; pfam07650 404589006280 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 404589006281 active site 404589006282 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 404589006283 active site 404589006284 ribonuclease III; Reviewed; Region: rnc; PRK00102 404589006285 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 404589006286 dimerization interface [polypeptide binding]; other site 404589006287 active site 404589006288 metal binding site [ion binding]; metal-binding site 404589006289 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 404589006290 dsRNA binding site [nucleotide binding]; other site 404589006291 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 404589006292 Walker A; other site 404589006293 maltose O-acetyltransferase; Provisional; Region: PRK10092 404589006294 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 404589006295 active site 404589006296 substrate binding site [chemical binding]; other site 404589006297 trimer interface [polypeptide binding]; other site 404589006298 CoA binding site [chemical binding]; other site 404589006299 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589006300 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589006301 active site 404589006302 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 404589006303 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 404589006304 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 404589006305 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 404589006306 enoyl-CoA hydratase; Provisional; Region: PRK07657 404589006307 substrate binding site [chemical binding]; other site 404589006308 oxyanion hole (OAH) forming residues; other site 404589006309 trimer interface [polypeptide binding]; other site 404589006310 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 404589006311 active site 404589006312 catalytic residues [active] 404589006313 metal binding site [ion binding]; metal-binding site 404589006314 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 404589006315 ThiC family; Region: ThiC; pfam01964 404589006316 enolase; Provisional; Region: eno; PRK00077 404589006317 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 404589006318 dimer interface [polypeptide binding]; other site 404589006319 metal binding site [ion binding]; metal-binding site 404589006320 substrate binding pocket [chemical binding]; other site 404589006321 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 404589006322 hydrophobic ligand binding site; other site 404589006323 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 404589006324 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 404589006325 putative active site [active] 404589006326 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 404589006327 active site 404589006328 homoserine dehydrogenase; Provisional; Region: PRK06349 404589006329 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 404589006330 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 404589006331 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 404589006332 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 404589006333 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 404589006334 HEAT repeats; Region: HEAT_2; pfam13646 404589006335 protein binding surface [polypeptide binding]; other site 404589006336 Restriction endonuclease; Region: Mrr_cat; pfam04471 404589006337 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589006338 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 404589006339 active site 404589006340 metal binding site [ion binding]; metal-binding site 404589006341 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 404589006342 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 404589006343 substrate binding site [chemical binding]; other site 404589006344 ATP binding site [chemical binding]; other site 404589006345 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 404589006346 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 404589006347 FeS/SAM binding site; other site 404589006348 Domain of unknown function DUF21; Region: DUF21; pfam01595 404589006349 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 404589006350 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 404589006351 Transporter associated domain; Region: CorC_HlyC; smart01091 404589006352 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 404589006353 active site 404589006354 multimer interface [polypeptide binding]; other site 404589006355 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 404589006356 CoA binding domain; Region: CoA_binding; pfam02629 404589006357 CoA-ligase; Region: Ligase_CoA; pfam00549 404589006358 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 404589006359 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 404589006360 CoA-ligase; Region: Ligase_CoA; pfam00549 404589006361 malate dehydrogenase; Reviewed; Region: PRK06223 404589006362 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 404589006363 NAD(P) binding site [chemical binding]; other site 404589006364 dimer interface [polypeptide binding]; other site 404589006365 tetramer (dimer of dimers) interface [polypeptide binding]; other site 404589006366 substrate binding site [chemical binding]; other site 404589006367 isocitrate dehydrogenase; Reviewed; Region: PRK07006 404589006368 isocitrate dehydrogenase; Validated; Region: PRK07362 404589006369 YdjC-like protein; Region: YdjC; pfam04794 404589006370 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 404589006371 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 404589006372 putative active site [active] 404589006373 heme pocket [chemical binding]; other site 404589006374 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 404589006375 dimer interface [polypeptide binding]; other site 404589006376 phosphorylation site [posttranslational modification] 404589006377 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006378 ATP binding site [chemical binding]; other site 404589006379 Mg2+ binding site [ion binding]; other site 404589006380 G-X-G motif; other site 404589006381 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 404589006382 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 404589006383 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 404589006384 catalytic site [active] 404589006385 subunit interface [polypeptide binding]; other site 404589006386 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 404589006387 dihydroorotase; Validated; Region: pyrC; PRK09357 404589006388 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 404589006389 active site 404589006390 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 404589006391 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 404589006392 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 404589006393 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 404589006394 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589006395 active site 404589006396 signal peptidase I; Provisional; Region: PRK10861 404589006397 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 404589006398 Catalytic site [active] 404589006399 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 404589006400 GTP-binding protein LepA; Provisional; Region: PRK05433 404589006401 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 404589006402 G1 box; other site 404589006403 putative GEF interaction site [polypeptide binding]; other site 404589006404 GTP/Mg2+ binding site [chemical binding]; other site 404589006405 Switch I region; other site 404589006406 G2 box; other site 404589006407 G3 box; other site 404589006408 Switch II region; other site 404589006409 G4 box; other site 404589006410 G5 box; other site 404589006411 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 404589006412 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 404589006413 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 404589006414 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 404589006415 RES domain; Region: RES; cl02411 404589006416 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 404589006417 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 404589006418 active site 404589006419 dimer interface [polypeptide binding]; other site 404589006420 effector binding site; other site 404589006421 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 404589006422 TSCPD domain; Region: TSCPD; pfam12637 404589006423 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 404589006424 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 404589006425 putative active site [active] 404589006426 putative PHP Thumb interface [polypeptide binding]; other site 404589006427 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 404589006428 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 404589006429 generic binding surface I; other site 404589006430 generic binding surface II; other site 404589006431 Y-family of DNA polymerases; Region: PolY; cl12025 404589006432 active site 404589006433 Y-family of DNA polymerases; Region: PolY; cl12025 404589006434 DNA binding site [nucleotide binding] 404589006435 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 404589006436 Walker A motif; other site 404589006437 ATP binding site [chemical binding]; other site 404589006438 Walker B motif; other site 404589006439 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 404589006440 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 404589006441 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589006442 catalytic residues [active] 404589006443 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 404589006444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006445 active site 404589006446 phosphorylation site [posttranslational modification] 404589006447 intermolecular recognition site; other site 404589006448 dimerization interface [polypeptide binding]; other site 404589006449 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589006450 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589006451 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006452 ATP binding site [chemical binding]; other site 404589006453 Mg2+ binding site [ion binding]; other site 404589006454 G-X-G motif; other site 404589006455 Protein of unknown function (DUF721); Region: DUF721; cl02324 404589006456 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 404589006457 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 404589006458 N-acetyl-D-glucosamine binding site [chemical binding]; other site 404589006459 catalytic residue [active] 404589006460 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 404589006461 catalytic site [active] 404589006462 putative active site [active] 404589006463 putative substrate binding site [chemical binding]; other site 404589006464 HRDC domain; Region: HRDC; pfam00570 404589006465 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 404589006466 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589006467 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 404589006468 putative acyl-acceptor binding pocket; other site 404589006469 Response regulator receiver domain; Region: Response_reg; pfam00072 404589006470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006471 active site 404589006472 phosphorylation site [posttranslational modification] 404589006473 intermolecular recognition site; other site 404589006474 dimerization interface [polypeptide binding]; other site 404589006475 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 404589006476 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 404589006477 Walker A motif; other site 404589006478 ATP binding site [chemical binding]; other site 404589006479 Walker B motif; other site 404589006480 Flagellar assembly protein FliH; Region: FliH; pfam02108 404589006481 nickel responsive regulator; Provisional; Region: PRK04460 404589006482 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 404589006483 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 404589006484 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 404589006485 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 404589006486 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589006487 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 404589006488 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 404589006489 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 404589006490 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 404589006491 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 404589006492 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 404589006493 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 404589006494 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 404589006495 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 404589006496 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 404589006497 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 404589006498 DNA binding site [nucleotide binding] 404589006499 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 404589006500 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 404589006501 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 404589006502 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 404589006503 RPB11 interaction site [polypeptide binding]; other site 404589006504 RPB12 interaction site [polypeptide binding]; other site 404589006505 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 404589006506 RPB3 interaction site [polypeptide binding]; other site 404589006507 RPB1 interaction site [polypeptide binding]; other site 404589006508 RPB11 interaction site [polypeptide binding]; other site 404589006509 RPB10 interaction site [polypeptide binding]; other site 404589006510 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 404589006511 core dimer interface [polypeptide binding]; other site 404589006512 peripheral dimer interface [polypeptide binding]; other site 404589006513 L10 interface [polypeptide binding]; other site 404589006514 L11 interface [polypeptide binding]; other site 404589006515 putative EF-Tu interaction site [polypeptide binding]; other site 404589006516 putative EF-G interaction site [polypeptide binding]; other site 404589006517 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 404589006518 23S rRNA interface [nucleotide binding]; other site 404589006519 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 404589006520 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 404589006521 mRNA/rRNA interface [nucleotide binding]; other site 404589006522 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 404589006523 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 404589006524 23S rRNA interface [nucleotide binding]; other site 404589006525 L7/L12 interface [polypeptide binding]; other site 404589006526 putative thiostrepton binding site; other site 404589006527 L25 interface [polypeptide binding]; other site 404589006528 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 404589006529 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 404589006530 putative homodimer interface [polypeptide binding]; other site 404589006531 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 404589006532 heterodimer interface [polypeptide binding]; other site 404589006533 homodimer interface [polypeptide binding]; other site 404589006534 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 404589006535 elongation factor Tu; Reviewed; Region: PRK00049 404589006536 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 404589006537 G1 box; other site 404589006538 GEF interaction site [polypeptide binding]; other site 404589006539 GTP/Mg2+ binding site [chemical binding]; other site 404589006540 Switch I region; other site 404589006541 G2 box; other site 404589006542 G3 box; other site 404589006543 Switch II region; other site 404589006544 G4 box; other site 404589006545 G5 box; other site 404589006546 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 404589006547 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 404589006548 Antibiotic Binding Site [chemical binding]; other site 404589006549 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 404589006550 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 404589006551 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 404589006552 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 404589006553 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589006554 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 404589006555 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 404589006556 nucleotide binding site [chemical binding]; other site 404589006557 NEF interaction site [polypeptide binding]; other site 404589006558 SBD interface [polypeptide binding]; other site 404589006559 Response regulator receiver domain; Region: Response_reg; pfam00072 404589006560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006561 active site 404589006562 phosphorylation site [posttranslational modification] 404589006563 intermolecular recognition site; other site 404589006564 dimerization interface [polypeptide binding]; other site 404589006565 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 404589006566 PAS fold; Region: PAS_3; pfam08447 404589006567 putative active site [active] 404589006568 heme pocket [chemical binding]; other site 404589006569 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589006570 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 404589006571 dimer interface [polypeptide binding]; other site 404589006572 phosphorylation site [posttranslational modification] 404589006573 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006574 ATP binding site [chemical binding]; other site 404589006575 Mg2+ binding site [ion binding]; other site 404589006576 G-X-G motif; other site 404589006577 Protein of unknown function (DUF493); Region: DUF493; pfam04359 404589006578 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 404589006579 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 404589006580 putative active site [active] 404589006581 PhoH-like protein; Region: PhoH; pfam02562 404589006582 GAF domain; Region: GAF_3; pfam13492 404589006583 GAF domain; Region: GAF_2; pfam13185 404589006584 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 404589006585 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589006586 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589006587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589006588 metal binding site [ion binding]; metal-binding site 404589006589 active site 404589006590 I-site; other site 404589006591 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 404589006592 Septum formation initiator; Region: DivIC; pfam04977 404589006593 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 404589006594 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 404589006595 heme binding site [chemical binding]; other site 404589006596 ferroxidase pore; other site 404589006597 ferroxidase diiron center [ion binding]; other site 404589006598 ApbE family; Region: ApbE; pfam02424 404589006599 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 404589006600 FMN-binding domain; Region: FMN_bind; pfam04205 404589006601 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 404589006602 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 404589006603 FeoA domain; Region: FeoA; pfam04023 404589006604 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 404589006605 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 404589006606 G1 box; other site 404589006607 GTP/Mg2+ binding site [chemical binding]; other site 404589006608 Switch I region; other site 404589006609 G2 box; other site 404589006610 G3 box; other site 404589006611 Switch II region; other site 404589006612 G4 box; other site 404589006613 G5 box; other site 404589006614 Nucleoside recognition; Region: Gate; pfam07670 404589006615 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 404589006616 Nucleoside recognition; Region: Gate; pfam07670 404589006617 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 404589006618 metal binding site 2 [ion binding]; metal-binding site 404589006619 putative DNA binding helix; other site 404589006620 metal binding site 1 [ion binding]; metal-binding site 404589006621 dimer interface [polypeptide binding]; other site 404589006622 structural Zn2+ binding site [ion binding]; other site 404589006623 HEAT repeats; Region: HEAT_2; pfam13646 404589006624 HEAT repeat; Region: HEAT; pfam02985 404589006625 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 404589006626 binding surface 404589006627 TPR motif; other site 404589006628 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589006629 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 404589006630 Response regulator receiver domain; Region: Response_reg; pfam00072 404589006631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006632 active site 404589006633 phosphorylation site [posttranslational modification] 404589006634 intermolecular recognition site; other site 404589006635 dimerization interface [polypeptide binding]; other site 404589006636 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589006637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589006638 metal binding site [ion binding]; metal-binding site 404589006639 active site 404589006640 I-site; other site 404589006641 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589006642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006643 active site 404589006644 phosphorylation site [posttranslational modification] 404589006645 intermolecular recognition site; other site 404589006646 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 404589006647 Walker A motif; other site 404589006648 ATP binding site [chemical binding]; other site 404589006649 Walker B motif; other site 404589006650 arginine finger; other site 404589006651 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589006652 Histidine kinase-like ATPases; This family includes several ATP-binding 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 404589006653 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 404589006654 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 404589006655 putative active site [active] 404589006656 putative metal binding site [ion binding]; other site 404589006657 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 404589006658 catalytic motif [active] 404589006659 Zn binding site [ion binding]; other site 404589006660 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589006661 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589006662 nucleotide binding site [chemical binding]; other site 404589006663 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 404589006664 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 404589006665 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 404589006666 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 404589006667 Walker A motif; other site 404589006668 ATP binding site [chemical binding]; other site 404589006669 Walker B motif; other site 404589006670 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 404589006671 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 404589006672 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 404589006673 active site 404589006674 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 404589006675 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 404589006676 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 404589006677 Ligand Binding Site [chemical binding]; other site 404589006678 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 404589006679 ligand-binding site [chemical binding]; other site 404589006680 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 404589006681 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 404589006682 ATP binding site [chemical binding]; other site 404589006683 substrate interface [chemical binding]; other site 404589006684 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 404589006685 CPxP motif; other site 404589006686 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 404589006687 ATP binding site [chemical binding]; other site 404589006688 substrate interface [chemical binding]; other site 404589006689 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 404589006690 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 404589006691 Ferredoxin [Energy production and conversion]; Region: COG1146 404589006692 4Fe-4S binding domain; Region: Fer4; pfam00037 404589006693 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 404589006694 triosephosphate isomerase; Provisional; Region: PRK14567 404589006695 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 404589006696 substrate binding site [chemical binding]; other site 404589006697 dimer interface [polypeptide binding]; other site 404589006698 catalytic triad [active] 404589006699 Phosphoglycerate kinase; Region: PGK; pfam00162 404589006700 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 404589006701 substrate binding site [chemical binding]; other site 404589006702 hinge regions; other site 404589006703 ADP binding site [chemical binding]; other site 404589006704 catalytic site [active] 404589006705 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 404589006706 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 404589006707 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 404589006708 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 404589006709 Cupin domain; Region: Cupin_2; cl17218 404589006710 Sporulation related domain; Region: SPOR; pfam05036 404589006711 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 404589006712 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 404589006713 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 404589006714 active site 404589006715 HIGH motif; other site 404589006716 KMSK motif region; other site 404589006717 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 404589006718 tRNA binding surface [nucleotide binding]; other site 404589006719 anticodon binding site; other site 404589006720 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 404589006721 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 404589006722 nucleotide binding site/active site [active] 404589006723 HIT family signature motif; other site 404589006724 catalytic residue [active] 404589006725 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 404589006726 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 404589006727 tandem repeat interface [polypeptide binding]; other site 404589006728 oligomer interface [polypeptide binding]; other site 404589006729 active site residues [active] 404589006730 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 404589006731 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 404589006732 TrkA-C domain; Region: TrkA_C; pfam02080 404589006733 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 404589006734 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 404589006735 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 404589006736 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 404589006737 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 404589006738 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 404589006739 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 404589006740 dimerization interface [polypeptide binding]; other site 404589006741 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 404589006742 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589006743 dimer interface [polypeptide binding]; other site 404589006744 putative CheW interface [polypeptide binding]; other site 404589006745 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 404589006746 putative binding surface; other site 404589006747 active site 404589006748 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006749 ATP binding site [chemical binding]; other site 404589006750 Mg2+ binding site [ion binding]; other site 404589006751 G-X-G motif; other site 404589006752 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 404589006753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006754 Response regulator receiver domain; Region: Response_reg; pfam00072 404589006755 active site 404589006756 phosphorylation site [posttranslational modification] 404589006757 intermolecular recognition site; other site 404589006758 dimerization interface [polypeptide binding]; other site 404589006759 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 404589006760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006761 active site 404589006762 phosphorylation site [posttranslational modification] 404589006763 intermolecular recognition site; other site 404589006764 CheB methylesterase; Region: CheB_methylest; pfam01339 404589006765 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 404589006766 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 404589006767 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 404589006768 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 404589006769 RNA binding site [nucleotide binding]; other site 404589006770 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 404589006771 RNA binding site [nucleotide binding]; other site 404589006772 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 404589006773 RNA binding site [nucleotide binding]; other site 404589006774 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 404589006775 RNA binding site [nucleotide binding]; other site 404589006776 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 404589006777 RNA binding site [nucleotide binding]; other site 404589006778 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 404589006779 RNA binding site [nucleotide binding]; other site 404589006780 domain interface; other site 404589006781 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 404589006782 LytB protein; Region: LYTB; cl00507 404589006783 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 404589006784 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 404589006785 Walker A/P-loop; other site 404589006786 ATP binding site [chemical binding]; other site 404589006787 Q-loop/lid; other site 404589006788 ABC transporter signature motif; other site 404589006789 Walker B; other site 404589006790 D-loop; other site 404589006791 H-loop/switch region; other site 404589006792 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 404589006793 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 404589006794 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 404589006795 cytidylate kinase; Provisional; Region: cmk; PRK00023 404589006796 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 404589006797 CMP-binding site; other site 404589006798 The sites determining sugar specificity; other site 404589006799 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 404589006800 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 404589006801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589006802 homodimer interface [polypeptide binding]; other site 404589006803 catalytic residue [active] 404589006804 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 404589006805 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 404589006806 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 404589006807 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 404589006808 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 404589006809 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 404589006810 dimer interface [polypeptide binding]; other site 404589006811 motif 1; other site 404589006812 active site 404589006813 motif 2; other site 404589006814 motif 3; other site 404589006815 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 404589006816 anticodon binding site; other site 404589006817 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 404589006818 urocanate hydratase; Provisional; Region: PRK05414 404589006819 imidazolonepropionase; Validated; Region: PRK09356 404589006820 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 404589006821 active site 404589006822 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 404589006823 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589006824 active site 404589006825 metal binding site [ion binding]; metal-binding site 404589006826 homotetramer interface [polypeptide binding]; other site 404589006827 Protein of unknown function DUF99; Region: DUF99; pfam01949 404589006828 hypothetical protein; Provisional; Region: PRK00766 404589006829 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 404589006830 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 404589006831 putative active site [active] 404589006832 putative dimer interface [polypeptide binding]; other site 404589006833 conserved hypothetical protein; Region: TIGR02231 404589006834 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 404589006835 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 404589006836 Transposase IS200 like; Region: Y1_Tnp; cl00848 404589006837 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 404589006838 RHS Repeat; Region: RHS_repeat; pfam05593 404589006839 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 404589006840 Transposase IS200 like; Region: Y1_Tnp; cl00848 404589006841 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 404589006842 RHS Repeat; Region: RHS_repeat; cl11982 404589006843 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 404589006844 CARDB; Region: CARDB; pfam07705 404589006845 CARDB; Region: CARDB; pfam07705 404589006846 CARDB; Region: CARDB; pfam07705 404589006847 Uncharacterized conserved protein [Function unknown]; Region: COG1572 404589006848 CARDB; Region: CARDB; pfam07705 404589006849 CARDB; Region: CARDB; pfam07705 404589006850 CARDB; Region: CARDB; pfam07705 404589006851 CARDB; Region: CARDB; pfam07705 404589006852 CARDB; Region: CARDB; pfam07705 404589006853 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 404589006854 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589006855 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 404589006856 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 404589006857 RHS Repeat; Region: RHS_repeat; pfam05593 404589006858 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 404589006859 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 404589006860 Bacterial Ig-like domain; Region: Big_5; pfam13205 404589006861 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 404589006862 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 404589006863 Bacterial Ig-like domain; Region: Big_5; pfam13205 404589006864 IPT/TIG domain; Region: TIG; pfam01833 404589006865 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 404589006866 LVIVD repeat; Region: LVIVD; pfam08309 404589006867 IPT/TIG domain; Region: TIG; pfam01833 404589006868 Uncharacterized conserved protein [Function unknown]; Region: COG5276 404589006869 Bacterial Ig-like domain; Region: Big_5; pfam13205 404589006870 Bacterial Ig-like domain; Region: Big_5; pfam13205 404589006871 ig-like, plexins, transcription factors; Region: IPT; smart00429 404589006872 IPT/TIG domain; Region: TIG; pfam01833 404589006873 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 404589006874 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 404589006875 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 404589006876 SurA N-terminal domain; Region: SurA_N_3; cl07813 404589006877 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 404589006878 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 404589006879 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 404589006880 putative carbohydrate kinase; Provisional; Region: PRK10565 404589006881 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 404589006882 putative substrate binding site [chemical binding]; other site 404589006883 putative ATP binding site [chemical binding]; other site 404589006884 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 404589006885 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 404589006886 active site 404589006887 hydrophilic channel; other site 404589006888 dimerization interface [polypeptide binding]; other site 404589006889 catalytic residues [active] 404589006890 active site lid [active] 404589006891 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 404589006892 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 404589006893 active site 404589006894 substrate binding site [chemical binding]; other site 404589006895 metal binding site [ion binding]; metal-binding site 404589006896 Uncharacterized conserved protein [Function unknown]; Region: COG1624 404589006897 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 404589006898 dihydropteroate synthase; Region: DHPS; TIGR01496 404589006899 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 404589006900 substrate binding pocket [chemical binding]; other site 404589006901 dimer interface [polypeptide binding]; other site 404589006902 inhibitor binding site; inhibition site 404589006903 FtsH Extracellular; Region: FtsH_ext; pfam06480 404589006904 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 404589006905 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 404589006906 Walker A motif; other site 404589006907 ATP binding site [chemical binding]; other site 404589006908 Walker B motif; other site 404589006909 arginine finger; other site 404589006910 Peptidase family M41; Region: Peptidase_M41; pfam01434 404589006911 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 404589006912 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 404589006913 Ligand Binding Site [chemical binding]; other site 404589006914 TilS substrate C-terminal domain; Region: TilS_C; smart00977 404589006915 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 404589006916 PilZ domain; Region: PilZ; pfam07238 404589006917 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 404589006918 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 404589006919 active site 2 [active] 404589006920 active site 1 [active] 404589006921 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 404589006922 B12 binding site [chemical binding]; other site 404589006923 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 404589006924 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 404589006925 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 404589006926 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 404589006927 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 404589006928 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 404589006929 Ligand Binding Site [chemical binding]; other site 404589006930 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589006931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006932 active site 404589006933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589006934 phosphorylation site [posttranslational modification] 404589006935 intermolecular recognition site; other site 404589006936 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 404589006937 dimer interface [polypeptide binding]; other site 404589006938 phosphorylation site [posttranslational modification] 404589006939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006940 ATP binding site [chemical binding]; other site 404589006941 Mg2+ binding site [ion binding]; other site 404589006942 G-X-G motif; other site 404589006943 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 404589006944 active site 404589006945 NTP binding site [chemical binding]; other site 404589006946 metal binding triad [ion binding]; metal-binding site 404589006947 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 404589006948 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 404589006949 FOG: CBS domain [General function prediction only]; Region: COG0517 404589006950 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_9; cd04622 404589006951 PAS domain; Region: PAS_9; pfam13426 404589006952 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 404589006953 putative active site [active] 404589006954 heme pocket [chemical binding]; other site 404589006955 PAS domain; Region: PAS_9; pfam13426 404589006956 PAS domain S-box; Region: sensory_box; TIGR00229 404589006957 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589006958 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 404589006959 dimer interface [polypeptide binding]; other site 404589006960 phosphorylation site [posttranslational modification] 404589006961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589006962 ATP binding site [chemical binding]; other site 404589006963 Mg2+ binding site [ion binding]; other site 404589006964 G-X-G motif; other site 404589006965 Response regulator receiver domain; Region: Response_reg; pfam00072 404589006966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589006967 active site 404589006968 phosphorylation site [posttranslational modification] 404589006969 intermolecular recognition site; other site 404589006970 dimerization interface [polypeptide binding]; other site 404589006971 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 404589006972 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 404589006973 putative di-iron ligands [ion binding]; other site 404589006974 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 404589006975 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589006976 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 404589006977 S-adenosylmethionine binding site [chemical binding]; other site 404589006978 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 404589006979 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 404589006980 FeS/SAM binding site; other site 404589006981 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 404589006982 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 404589006983 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589006984 catalytic residues [active] 404589006985 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 404589006986 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 404589006987 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589006988 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589006989 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589006990 active site 404589006991 metal binding site [ion binding]; metal-binding site 404589006992 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589006993 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589006994 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 404589006995 dimer interface [polypeptide binding]; other site 404589006996 active site 404589006997 metal binding site [ion binding]; metal-binding site 404589006998 glutathione binding site [chemical binding]; other site 404589006999 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007001 active site 404589007002 phosphorylation site [posttranslational modification] 404589007003 intermolecular recognition site; other site 404589007004 dimerization interface [polypeptide binding]; other site 404589007005 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589007006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007007 active site 404589007008 phosphorylation site [posttranslational modification] 404589007009 intermolecular recognition site; other site 404589007010 dimerization interface [polypeptide binding]; other site 404589007011 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 404589007012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007013 active site 404589007014 phosphorylation site [posttranslational modification] 404589007015 intermolecular recognition site; other site 404589007016 dimerization interface [polypeptide binding]; other site 404589007017 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 404589007018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007019 putative active site [active] 404589007020 heme pocket [chemical binding]; other site 404589007021 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 404589007022 phosphorylation site [posttranslational modification] 404589007023 dimer interface [polypeptide binding]; other site 404589007024 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007025 ATP binding site [chemical binding]; other site 404589007026 Mg2+ binding site [ion binding]; other site 404589007027 G-X-G motif; other site 404589007028 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 404589007029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007030 active site 404589007031 phosphorylation site [posttranslational modification] 404589007032 intermolecular recognition site; other site 404589007033 dimerization interface [polypeptide binding]; other site 404589007034 CheB methylesterase; Region: CheB_methylest; pfam01339 404589007035 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 404589007036 putative binding surface; other site 404589007037 active site 404589007038 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589007039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007040 active site 404589007041 phosphorylation site [posttranslational modification] 404589007042 intermolecular recognition site; other site 404589007043 dimerization interface [polypeptide binding]; other site 404589007044 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 404589007045 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589007046 dimer interface [polypeptide binding]; other site 404589007047 putative CheW interface [polypeptide binding]; other site 404589007048 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 404589007049 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 404589007050 S-adenosylmethionine binding site [chemical binding]; other site 404589007051 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 404589007052 TPR motif; other site 404589007053 binding surface 404589007054 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 404589007055 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 404589007056 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 404589007057 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 404589007058 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 404589007059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007060 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 404589007061 dimer interface [polypeptide binding]; other site 404589007062 phosphorylation site [posttranslational modification] 404589007063 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007064 ATP binding site [chemical binding]; other site 404589007065 Mg2+ binding site [ion binding]; other site 404589007066 G-X-G motif; other site 404589007067 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589007068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007069 active site 404589007070 phosphorylation site [posttranslational modification] 404589007071 intermolecular recognition site; other site 404589007072 dimerization interface [polypeptide binding]; other site 404589007073 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 404589007074 Walker A motif; other site 404589007075 ATP binding site [chemical binding]; other site 404589007076 Walker B motif; other site 404589007077 arginine finger; other site 404589007078 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589007079 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 404589007080 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 404589007081 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 404589007082 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589007083 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589007084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007085 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 404589007086 dimerization interface [polypeptide binding]; other site 404589007087 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 404589007088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007089 ATP binding site [chemical binding]; other site 404589007090 Mg2+ binding site [ion binding]; other site 404589007091 G-X-G motif; other site 404589007092 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 404589007093 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 404589007094 Cl- selectivity filter; other site 404589007095 Cl- binding residues [ion binding]; other site 404589007096 pore gating glutamate residue; other site 404589007097 dimer interface [polypeptide binding]; other site 404589007098 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 404589007099 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 404589007100 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 404589007101 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 404589007102 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 404589007103 active site 404589007104 homotetramer interface [polypeptide binding]; other site 404589007105 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007107 active site 404589007108 phosphorylation site [posttranslational modification] 404589007109 intermolecular recognition site; other site 404589007110 dimerization interface [polypeptide binding]; other site 404589007111 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 404589007112 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589007113 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 404589007114 acyl-activating enzyme (AAE) consensus motif; other site 404589007115 acyl-activating enzyme (AAE) consensus motif; other site 404589007116 putative AMP binding site [chemical binding]; other site 404589007117 putative active site [active] 404589007118 putative CoA binding site [chemical binding]; other site 404589007119 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 404589007120 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 404589007121 Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_HCS; cd07948 404589007122 active site 404589007123 catalytic residues [active] 404589007124 metal binding site [ion binding]; metal-binding site 404589007125 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 404589007126 active site 404589007127 nucleophile elbow; other site 404589007128 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 404589007129 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 404589007130 D-cysteine desulfhydrase; Validated; Region: PRK03910 404589007131 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 404589007132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589007133 catalytic residue [active] 404589007134 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 404589007135 dimerization interface [polypeptide binding]; other site 404589007136 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 404589007137 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589007138 dimer interface [polypeptide binding]; other site 404589007139 putative CheW interface [polypeptide binding]; other site 404589007140 DTW domain; Region: DTW; cl01221 404589007141 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 404589007142 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 404589007143 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 404589007144 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 404589007145 Acyltransferase family; Region: Acyl_transf_3; pfam01757 404589007146 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 404589007147 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 404589007148 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 404589007149 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 404589007150 4Fe-4S binding domain; Region: Fer4; pfam00037 404589007151 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 404589007152 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 404589007153 B12 binding site [chemical binding]; other site 404589007154 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 404589007155 FeS/SAM binding site; other site 404589007156 CAAX protease self-immunity; Region: Abi; pfam02517 404589007157 V4R domain; Region: V4R; cl15268 404589007158 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 404589007159 Cl- selectivity filter; other site 404589007160 Cl- binding residues [ion binding]; other site 404589007161 pore gating glutamate residue; other site 404589007162 dimer interface [polypeptide binding]; other site 404589007163 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 404589007164 muropeptide transporter; Validated; Region: ampG; cl17669 404589007165 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 404589007166 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 404589007167 Zn binding site [ion binding]; other site 404589007168 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 404589007169 Ferritin-like domain; Region: Ferritin; pfam00210 404589007170 ferroxidase diiron center [ion binding]; other site 404589007171 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589007172 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589007173 active site 404589007174 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 404589007175 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 404589007176 S-adenosylmethionine binding site [chemical binding]; other site 404589007177 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 404589007178 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 404589007179 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 404589007180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589007181 Walker A/P-loop; other site 404589007182 ATP binding site [chemical binding]; other site 404589007183 Q-loop/lid; other site 404589007184 ABC transporter signature motif; other site 404589007185 Walker B; other site 404589007186 D-loop; other site 404589007187 H-loop/switch region; other site 404589007188 SEC-C motif; Region: SEC-C; pfam02810 404589007189 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 404589007190 active site 404589007191 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 404589007192 Hemerythrin-like domain; Region: Hr-like; cd12108 404589007193 Fe binding site [ion binding]; other site 404589007194 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 404589007195 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589007196 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 404589007197 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 404589007198 Walker A motif; other site 404589007199 ATP binding site [chemical binding]; other site 404589007200 Walker B motif; other site 404589007201 arginine finger; other site 404589007202 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589007203 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 404589007204 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 404589007205 homoserine dehydrogenase family protein; Region: PLN02700 404589007206 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 404589007207 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 404589007208 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 404589007209 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 404589007210 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 404589007211 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 404589007212 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 404589007213 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 404589007214 dimer interface [polypeptide binding]; other site 404589007215 putative functional site; other site 404589007216 putative MPT binding site; other site 404589007217 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589007218 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 404589007219 ligand binding site [chemical binding]; other site 404589007220 flexible hinge region; other site 404589007221 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 404589007222 DNA binding site [nucleotide binding] 404589007223 sequence specific DNA binding site [nucleotide binding]; other site 404589007224 putative cAMP binding site [chemical binding]; other site 404589007225 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 404589007226 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 404589007227 Ligand Binding Site [chemical binding]; other site 404589007228 FOG: CBS domain [General function prediction only]; Region: COG0517 404589007229 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 404589007230 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 404589007231 heme-binding site [chemical binding]; other site 404589007232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007233 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 404589007234 dimer interface [polypeptide binding]; other site 404589007235 phosphorylation site [posttranslational modification] 404589007236 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007237 ATP binding site [chemical binding]; other site 404589007238 Mg2+ binding site [ion binding]; other site 404589007239 G-X-G motif; other site 404589007240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007241 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007242 active site 404589007243 phosphorylation site [posttranslational modification] 404589007244 intermolecular recognition site; other site 404589007245 dimerization interface [polypeptide binding]; other site 404589007246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007247 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007248 active site 404589007249 phosphorylation site [posttranslational modification] 404589007250 intermolecular recognition site; other site 404589007251 dimerization interface [polypeptide binding]; other site 404589007252 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007253 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007254 active site 404589007255 phosphorylation site [posttranslational modification] 404589007256 intermolecular recognition site; other site 404589007257 dimerization interface [polypeptide binding]; other site 404589007258 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 404589007259 dimer interface [polypeptide binding]; other site 404589007260 phosphorylation site [posttranslational modification] 404589007261 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007262 ATP binding site [chemical binding]; other site 404589007263 Mg2+ binding site [ion binding]; other site 404589007264 G-X-G motif; other site 404589007265 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589007266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007267 active site 404589007268 phosphorylation site [posttranslational modification] 404589007269 intermolecular recognition site; other site 404589007270 dimerization interface [polypeptide binding]; other site 404589007271 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 404589007272 Walker A motif; other site 404589007273 ATP binding site [chemical binding]; other site 404589007274 Walker B motif; other site 404589007275 arginine finger; other site 404589007276 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589007277 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 404589007278 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 404589007279 FeS/SAM binding site; other site 404589007280 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 404589007281 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 404589007282 catalytic triad [active] 404589007283 metal binding site [ion binding]; metal-binding site 404589007284 conserved cis-peptide bond; other site 404589007285 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 404589007286 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 404589007287 generic binding surface I; other site 404589007288 generic binding surface II; other site 404589007289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589007290 Zn2+ binding site [ion binding]; other site 404589007291 Mg2+ binding site [ion binding]; other site 404589007292 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 404589007293 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 404589007294 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 404589007295 active site 404589007296 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 404589007297 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 404589007298 active site 404589007299 HIGH motif; other site 404589007300 KMSKS motif; other site 404589007301 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 404589007302 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 404589007303 dimer interface [polypeptide binding]; other site 404589007304 putative tRNA-binding site [nucleotide binding]; other site 404589007305 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 404589007306 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 404589007307 DNA polymerase III subunit delta'; Validated; Region: PRK08485 404589007308 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007309 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 404589007310 dimer interface [polypeptide binding]; other site 404589007311 phosphorylation site [posttranslational modification] 404589007312 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007313 ATP binding site [chemical binding]; other site 404589007314 Mg2+ binding site [ion binding]; other site 404589007315 G-X-G motif; other site 404589007316 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007317 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007318 active site 404589007319 phosphorylation site [posttranslational modification] 404589007320 intermolecular recognition site; other site 404589007321 dimerization interface [polypeptide binding]; other site 404589007322 DivIVA protein; Region: DivIVA; pfam05103 404589007323 DivIVA domain; Region: DivI1A_domain; TIGR03544 404589007324 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 404589007325 active site clefts [active] 404589007326 zinc binding site [ion binding]; other site 404589007327 dimer interface [polypeptide binding]; other site 404589007328 DNA polymerase I; Provisional; Region: PRK05755 404589007329 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 404589007330 active site 404589007331 metal binding site 1 [ion binding]; metal-binding site 404589007332 putative 5' ssDNA interaction site; other site 404589007333 metal binding site 3; metal-binding site 404589007334 metal binding site 2 [ion binding]; metal-binding site 404589007335 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 404589007336 putative DNA binding site [nucleotide binding]; other site 404589007337 putative metal binding site [ion binding]; other site 404589007338 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 404589007339 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 404589007340 active site 404589007341 DNA binding site [nucleotide binding] 404589007342 catalytic site [active] 404589007343 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 404589007344 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589007345 phosphopeptide binding site; other site 404589007346 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 404589007347 DALR anticodon binding domain; Region: DALR_1; pfam05746 404589007348 anticodon binding site; other site 404589007349 tRNA binding surface [nucleotide binding]; other site 404589007350 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 404589007351 dimer interface [polypeptide binding]; other site 404589007352 motif 1; other site 404589007353 active site 404589007354 motif 2; other site 404589007355 motif 3; other site 404589007356 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 404589007357 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 404589007358 putative substrate binding site [chemical binding]; other site 404589007359 putative ATP binding site [chemical binding]; other site 404589007360 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 404589007361 Recombination protein O N terminal; Region: RecO_N; pfam11967 404589007362 Recombination protein O C terminal; Region: RecO_C; pfam02565 404589007363 Helix-turn-helix domain; Region: HTH_25; pfam13413 404589007364 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 404589007365 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 404589007366 binding surface 404589007367 TPR motif; other site 404589007368 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 404589007369 binding surface 404589007370 TPR motif; other site 404589007371 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 404589007372 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 404589007373 FeS/SAM binding site; other site 404589007374 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 404589007375 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 404589007376 N-acetyl-D-glucosamine binding site [chemical binding]; other site 404589007377 catalytic residue [active] 404589007378 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 404589007379 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 404589007380 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 404589007381 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 404589007382 quinone interaction residues [chemical binding]; other site 404589007383 active site 404589007384 catalytic residues [active] 404589007385 FMN binding site [chemical binding]; other site 404589007386 substrate binding site [chemical binding]; other site 404589007387 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 404589007388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589007389 Coenzyme A binding pocket [chemical binding]; other site 404589007390 chaperone protein DnaJ; Provisional; Region: PRK14299 404589007391 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 404589007392 HSP70 interaction site [polypeptide binding]; other site 404589007393 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 404589007394 substrate binding site [polypeptide binding]; other site 404589007395 dimer interface [polypeptide binding]; other site 404589007396 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 404589007397 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 404589007398 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 404589007399 putative acyl-acceptor binding pocket; other site 404589007400 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 404589007401 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 404589007402 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 404589007403 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 404589007404 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 404589007405 active site 404589007406 Ycf46; Provisional; Region: ycf46; CHL00195 404589007407 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 404589007408 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 404589007409 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 404589007410 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 404589007411 Walker A motif; other site 404589007412 ATP binding site [chemical binding]; other site 404589007413 Walker B motif; other site 404589007414 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 404589007415 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 404589007416 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 404589007417 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 404589007418 dimer interface [polypeptide binding]; other site 404589007419 substrate binding site [chemical binding]; other site 404589007420 metal binding sites [ion binding]; metal-binding site 404589007421 serine O-acetyltransferase; Region: cysE; TIGR01172 404589007422 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 404589007423 trimer interface [polypeptide binding]; other site 404589007424 active site 404589007425 substrate binding site [chemical binding]; other site 404589007426 CoA binding site [chemical binding]; other site 404589007427 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 404589007428 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 404589007429 dimer interface [polypeptide binding]; other site 404589007430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589007431 catalytic residue [active] 404589007432 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 404589007433 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 404589007434 GIY-YIG motif/motif A; other site 404589007435 active site 404589007436 catalytic site [active] 404589007437 putative DNA binding site [nucleotide binding]; other site 404589007438 metal binding site [ion binding]; metal-binding site 404589007439 UvrB/uvrC motif; Region: UVR; pfam02151 404589007440 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 404589007441 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 404589007442 Cytochrome c; Region: Cytochrom_C; pfam00034 404589007443 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007444 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 404589007445 dimerization interface [polypeptide binding]; other site 404589007446 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 404589007447 dimer interface [polypeptide binding]; other site 404589007448 phosphorylation site [posttranslational modification] 404589007449 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007450 ATP binding site [chemical binding]; other site 404589007451 Mg2+ binding site [ion binding]; other site 404589007452 G-X-G motif; other site 404589007453 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589007454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007455 active site 404589007456 phosphorylation site [posttranslational modification] 404589007457 intermolecular recognition site; other site 404589007458 dimerization interface [polypeptide binding]; other site 404589007459 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 404589007460 Walker A motif; other site 404589007461 ATP binding site [chemical binding]; other site 404589007462 Walker B motif; other site 404589007463 arginine finger; other site 404589007464 excinuclease ABC subunit B; Provisional; Region: PRK05298 404589007465 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 404589007466 ATP binding site [chemical binding]; other site 404589007467 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 404589007468 nucleotide binding region [chemical binding]; other site 404589007469 ATP-binding site [chemical binding]; other site 404589007470 Ultra-violet resistance protein B; Region: UvrB; pfam12344 404589007471 UvrB/uvrC motif; Region: UVR; pfam02151 404589007472 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 404589007473 DNA-binding site [nucleotide binding]; DNA binding site 404589007474 RNA-binding motif; other site 404589007475 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 404589007476 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 404589007477 active site 404589007478 HIGH motif; other site 404589007479 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 404589007480 KMSKS motif; other site 404589007481 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 404589007482 tRNA binding surface [nucleotide binding]; other site 404589007483 anticodon binding site; other site 404589007484 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 404589007485 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 404589007486 substrate binding site; other site 404589007487 dimer interface; other site 404589007488 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 404589007489 homotrimer interaction site [polypeptide binding]; other site 404589007490 zinc binding site [ion binding]; other site 404589007491 CDP-binding sites; other site 404589007492 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 404589007493 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 404589007494 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 404589007495 Competence protein; Region: Competence; pfam03772 404589007496 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589007497 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 404589007498 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589007499 phosphopeptide binding site; other site 404589007500 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 404589007501 TPR motif; other site 404589007502 binding surface 404589007503 TPR repeat; Region: TPR_11; pfam13414 404589007504 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 404589007505 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 404589007506 GDP-binding site [chemical binding]; other site 404589007507 ACT binding site; other site 404589007508 IMP binding site; other site 404589007509 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 404589007510 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 404589007511 motif 1; other site 404589007512 dimer interface [polypeptide binding]; other site 404589007513 active site 404589007514 motif 2; other site 404589007515 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 404589007516 active site 404589007517 motif 3; other site 404589007518 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 404589007519 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 404589007520 ligand binding site [chemical binding]; other site 404589007521 NAD binding site [chemical binding]; other site 404589007522 dimerization interface [polypeptide binding]; other site 404589007523 catalytic site [active] 404589007524 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 404589007525 putative L-serine binding site [chemical binding]; other site 404589007526 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589007527 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589007528 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 404589007529 AMIN domain; Region: AMIN; pfam11741 404589007530 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 404589007531 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 404589007532 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 404589007533 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 404589007534 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 404589007535 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 404589007536 dimerization interface [polypeptide binding]; other site 404589007537 putative ATP binding site [chemical binding]; other site 404589007538 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 404589007539 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 404589007540 active site 404589007541 substrate binding site [chemical binding]; other site 404589007542 cosubstrate binding site; other site 404589007543 catalytic site [active] 404589007544 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 404589007545 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 404589007546 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 404589007547 active site 404589007548 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14182 404589007549 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 404589007550 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 404589007551 homodimer interface [polypeptide binding]; other site 404589007552 NADP binding site [chemical binding]; other site 404589007553 substrate binding site [chemical binding]; other site 404589007554 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589007555 active site 404589007556 metal binding site [ion binding]; metal-binding site 404589007557 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 404589007558 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 404589007559 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 404589007560 lipoyl attachment site [posttranslational modification]; other site 404589007561 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 404589007562 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 404589007563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589007564 catalytic residue [active] 404589007565 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 404589007566 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589007567 catalytic residue [active] 404589007568 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 404589007569 active site 404589007570 dimer interfaces [polypeptide binding]; other site 404589007571 catalytic residues [active] 404589007572 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 404589007573 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 404589007574 Transglycosylase; Region: Transgly; pfam00912 404589007575 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 404589007576 rRNA binding site [nucleotide binding]; other site 404589007577 predicted 30S ribosome binding site; other site 404589007578 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 404589007579 DNA-binding site [nucleotide binding]; DNA binding site 404589007580 RNA-binding motif; other site 404589007581 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 404589007582 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 404589007583 binding surface 404589007584 TPR motif; other site 404589007585 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 404589007586 YceG-like family; Region: YceG; pfam02618 404589007587 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 404589007588 dimerization interface [polypeptide binding]; other site 404589007589 PrkA AAA domain; Region: AAA_PrkA; smart00763 404589007590 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 404589007591 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 404589007592 metal ion-dependent adhesion site (MIDAS); other site 404589007593 SpoVR like protein; Region: SpoVR; pfam04293 404589007594 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 404589007595 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 404589007596 Peptidase family M23; Region: Peptidase_M23; pfam01551 404589007597 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 404589007598 PAS domain; Region: PAS_9; pfam13426 404589007599 putative active site [active] 404589007600 heme pocket [chemical binding]; other site 404589007601 GAF domain; Region: GAF_3; pfam13492 404589007602 GAF domain; Region: GAF_2; pfam13185 404589007603 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 404589007604 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 404589007605 putative active site [active] 404589007606 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 404589007607 dimer interface [polypeptide binding]; other site 404589007608 phosphorylation site [posttranslational modification] 404589007609 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007610 ATP binding site [chemical binding]; other site 404589007611 Mg2+ binding site [ion binding]; other site 404589007612 G-X-G motif; other site 404589007613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007614 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007615 active site 404589007616 phosphorylation site [posttranslational modification] 404589007617 intermolecular recognition site; other site 404589007618 dimerization interface [polypeptide binding]; other site 404589007619 helicase 45; Provisional; Region: PTZ00424 404589007620 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 404589007621 ATP binding site [chemical binding]; other site 404589007622 Mg++ binding site [ion binding]; other site 404589007623 motif III; other site 404589007624 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 404589007625 nucleotide binding region [chemical binding]; other site 404589007626 ATP-binding site [chemical binding]; other site 404589007627 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 404589007628 RNA binding site [nucleotide binding]; other site 404589007629 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 404589007630 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 404589007631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589007632 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 404589007633 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 404589007634 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 404589007635 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 404589007636 metal ion-dependent adhesion site (MIDAS); other site 404589007637 Protein of unknown function (DUF1355); Region: DUF1355; pfam07090 404589007638 MG2 domain; Region: A2M_N; pfam01835 404589007639 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 404589007640 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 404589007641 PEGA domain; Region: PEGA; pfam08308 404589007642 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 404589007643 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 404589007644 motif II; other site 404589007645 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 404589007646 classical (c) SDRs; Region: SDR_c; cd05233 404589007647 NAD(P) binding site [chemical binding]; other site 404589007648 active site 404589007649 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 404589007650 dimer interface [polypeptide binding]; other site 404589007651 [2Fe-2S] cluster binding site [ion binding]; other site 404589007652 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 404589007653 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589007654 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 404589007655 putative NAD(P) binding site [chemical binding]; other site 404589007656 putative substrate binding site [chemical binding]; other site 404589007657 catalytic Zn binding site [ion binding]; other site 404589007658 structural Zn binding site [ion binding]; other site 404589007659 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 404589007660 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 404589007661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589007662 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589007663 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 404589007664 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 404589007665 Pirin-related protein [General function prediction only]; Region: COG1741 404589007666 Pirin; Region: Pirin; pfam02678 404589007667 PAS domain S-box; Region: sensory_box; TIGR00229 404589007668 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 404589007669 putative active site [active] 404589007670 heme pocket [chemical binding]; other site 404589007671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007672 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 404589007673 dimer interface [polypeptide binding]; other site 404589007674 phosphorylation site [posttranslational modification] 404589007675 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007676 ATP binding site [chemical binding]; other site 404589007677 Mg2+ binding site [ion binding]; other site 404589007678 G-X-G motif; other site 404589007679 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 404589007680 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 404589007681 V-type ATP synthase subunit B; Provisional; Region: PRK04196 404589007682 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 404589007683 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 404589007684 Walker A motif homologous position; other site 404589007685 Walker B motif; other site 404589007686 V-type ATP synthase subunit A; Provisional; Region: PRK04192 404589007687 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 404589007688 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 404589007689 Walker A motif/ATP binding site; other site 404589007690 Walker B motif; other site 404589007691 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 404589007692 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 404589007693 V-type ATP synthase subunit I; Validated; Region: PRK05771 404589007694 V-type ATP synthase subunit I; Validated; Region: PRK05771 404589007695 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 404589007696 nudix motif; other site 404589007697 Protein of unknown function (DUF763); Region: DUF763; pfam05559 404589007698 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 404589007699 Fe-S cluster binding site [ion binding]; other site 404589007700 active site 404589007701 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 404589007702 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 404589007703 catalytic site [active] 404589007704 G-X2-G-X-G-K; other site 404589007705 hypothetical protein; Provisional; Region: PRK11820 404589007706 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 404589007707 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 404589007708 Uncharacterized conserved protein [Function unknown]; Region: COG2835 404589007709 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 404589007710 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589007711 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 404589007712 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 404589007713 active site 404589007714 nucleotide binding site [chemical binding]; other site 404589007715 HIGH motif; other site 404589007716 KMSKS motif; other site 404589007717 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 404589007718 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 404589007719 putative ribose interaction site [chemical binding]; other site 404589007720 putative ADP binding site [chemical binding]; other site 404589007721 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 404589007722 putative acyl-acceptor binding pocket; other site 404589007723 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 404589007724 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 404589007725 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 404589007726 putative active site [active] 404589007727 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 404589007728 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 404589007729 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 404589007730 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 404589007731 active site 404589007732 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 404589007733 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 404589007734 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 404589007735 Walker A/P-loop; other site 404589007736 ATP binding site [chemical binding]; other site 404589007737 Q-loop/lid; other site 404589007738 ABC transporter signature motif; other site 404589007739 Walker B; other site 404589007740 D-loop; other site 404589007741 H-loop/switch region; other site 404589007742 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 404589007743 elongation factor G; Reviewed; Region: PRK12740 404589007744 G1 box; other site 404589007745 GTP/Mg2+ binding site [chemical binding]; other site 404589007746 G2 box; other site 404589007747 Switch I region; other site 404589007748 G3 box; other site 404589007749 Switch II region; other site 404589007750 G4 box; other site 404589007751 G5 box; other site 404589007752 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 404589007753 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 404589007754 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 404589007755 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 404589007756 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 404589007757 active site 404589007758 acyl-activating enzyme (AAE) consensus motif; other site 404589007759 putative CoA binding site [chemical binding]; other site 404589007760 AMP binding site [chemical binding]; other site 404589007761 MarC family integral membrane protein; Region: MarC; pfam01914 404589007762 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 404589007763 Ligand binding site; other site 404589007764 Putative Catalytic site; other site 404589007765 DXD motif; other site 404589007766 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 404589007767 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 404589007768 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 404589007769 dimerization interface [polypeptide binding]; other site 404589007770 putative DNA binding site [nucleotide binding]; other site 404589007771 putative Zn2+ binding site [ion binding]; other site 404589007772 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 404589007773 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 404589007774 heme-binding residues [chemical binding]; other site 404589007775 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 404589007776 Sulphur transport; Region: Sulf_transp; pfam04143 404589007777 PAS domain; Region: PAS_8; pfam13188 404589007778 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 404589007779 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 404589007780 dimer interface [polypeptide binding]; other site 404589007781 phosphorylation site [posttranslational modification] 404589007782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007783 ATP binding site [chemical binding]; other site 404589007784 Mg2+ binding site [ion binding]; other site 404589007785 G-X-G motif; other site 404589007786 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007788 active site 404589007789 phosphorylation site [posttranslational modification] 404589007790 intermolecular recognition site; other site 404589007791 dimerization interface [polypeptide binding]; other site 404589007792 YHS domain; Region: YHS; pfam04945 404589007793 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 404589007794 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 404589007795 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 404589007796 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 404589007797 motif I; other site 404589007798 motif II; other site 404589007799 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 404589007800 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 404589007801 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 404589007802 putative Iron-sulfur protein interface [polypeptide binding]; other site 404589007803 proximal heme binding site [chemical binding]; other site 404589007804 distal heme binding site [chemical binding]; other site 404589007805 putative dimer interface [polypeptide binding]; other site 404589007806 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 404589007807 L-aspartate oxidase; Provisional; Region: PRK06175 404589007808 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 404589007809 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 404589007810 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 404589007811 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 404589007812 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 404589007813 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 404589007814 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 404589007815 O-Antigen ligase; Region: Wzy_C; cl04850 404589007816 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 404589007817 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 404589007818 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 404589007819 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 404589007820 putative active site [active] 404589007821 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 404589007822 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 404589007823 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 404589007824 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589007825 catalytic residue [active] 404589007826 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 404589007827 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 404589007828 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 404589007829 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 404589007830 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 404589007831 phosphate binding site [ion binding]; other site 404589007832 putative substrate binding pocket [chemical binding]; other site 404589007833 dimer interface [polypeptide binding]; other site 404589007834 Bacterial sugar transferase; Region: Bac_transf; pfam02397 404589007835 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 404589007836 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 404589007837 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 404589007838 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 404589007839 SLBB domain; Region: SLBB; pfam10531 404589007840 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589007841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007842 active site 404589007843 phosphorylation site [posttranslational modification] 404589007844 intermolecular recognition site; other site 404589007845 dimerization interface [polypeptide binding]; other site 404589007846 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 404589007847 Walker A motif; other site 404589007848 ATP binding site [chemical binding]; other site 404589007849 Walker B motif; other site 404589007850 arginine finger; other site 404589007851 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 404589007852 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 404589007853 active site 404589007854 Bacterial sugar transferase; Region: Bac_transf; pfam02397 404589007855 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 404589007856 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 404589007857 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 404589007858 Right handed beta helix region; Region: Beta_helix; pfam13229 404589007859 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 404589007860 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 404589007861 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 404589007862 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589007863 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 404589007864 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 404589007865 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589007866 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 404589007867 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 404589007868 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 404589007869 putative ADP-binding pocket [chemical binding]; other site 404589007870 Chain length determinant protein; Region: Wzz; pfam02706 404589007871 tyrosine kinase; Provisional; Region: PRK11519 404589007872 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 404589007873 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 404589007874 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 404589007875 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 404589007876 inhibitor-cofactor binding pocket; inhibition site 404589007877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589007878 catalytic residue [active] 404589007879 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 404589007880 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 404589007881 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 404589007882 NAD(P) binding site [chemical binding]; other site 404589007883 homodimer interface [polypeptide binding]; other site 404589007884 substrate binding site [chemical binding]; other site 404589007885 active site 404589007886 Stage II sporulation protein; Region: SpoIID; pfam08486 404589007887 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 404589007888 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 404589007889 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 404589007890 homodimer interface [polypeptide binding]; other site 404589007891 substrate-cofactor binding pocket; other site 404589007892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589007893 catalytic residue [active] 404589007894 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 404589007895 4Fe-4S binding domain; Region: Fer4_6; pfam12837 404589007896 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 404589007897 4Fe-4S binding domain; Region: Fer4; pfam00037 404589007898 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 404589007899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 404589007900 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 404589007901 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 404589007902 dimer interface [polypeptide binding]; other site 404589007903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589007904 catalytic residue [active] 404589007905 integrase; Provisional; Region: int; PHA02601 404589007906 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 404589007907 active site 404589007908 catalytic residues [active] 404589007909 DNA binding site [nucleotide binding] 404589007910 Int/Topo IB signature motif; other site 404589007911 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 404589007912 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589007913 active site 404589007914 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 404589007915 DNA-binding interface [nucleotide binding]; DNA binding site 404589007916 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 404589007917 multiple promoter invertase; Provisional; Region: mpi; PRK13413 404589007918 Resolvase, N terminal domain; Region: Resolvase; smart00857 404589007919 catalytic residues [active] 404589007920 catalytic nucleophile [active] 404589007921 DNA-binding interface [nucleotide binding]; DNA binding site 404589007922 Helix-turn-helix domain; Region: HTH_38; pfam13936 404589007923 Peptidase family M48; Region: Peptidase_M48; cl12018 404589007924 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 404589007925 PAS domain S-box; Region: sensory_box; TIGR00229 404589007926 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 404589007927 putative active site [active] 404589007928 heme pocket [chemical binding]; other site 404589007929 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 404589007930 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 404589007931 putative active site [active] 404589007932 heme pocket [chemical binding]; other site 404589007933 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 404589007934 dimer interface [polypeptide binding]; other site 404589007935 phosphorylation site [posttranslational modification] 404589007936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007937 ATP binding site [chemical binding]; other site 404589007938 Mg2+ binding site [ion binding]; other site 404589007939 G-X-G motif; other site 404589007940 Response regulator receiver domain; Region: Response_reg; pfam00072 404589007941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589007942 active site 404589007943 phosphorylation site [posttranslational modification] 404589007944 intermolecular recognition site; other site 404589007945 dimerization interface [polypeptide binding]; other site 404589007946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589007947 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589007948 ATP binding site [chemical binding]; other site 404589007949 Mg2+ binding site [ion binding]; other site 404589007950 G-X-G motif; other site 404589007951 Pectinacetylesterase; Region: PAE; pfam03283 404589007952 Low affinity iron permease; Region: Iron_permease; pfam04120 404589007953 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 404589007954 FAD binding site [chemical binding]; other site 404589007955 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 404589007956 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 404589007957 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 404589007958 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 404589007959 putative catalytic site [active] 404589007960 putative metal binding site [ion binding]; other site 404589007961 putative phosphate binding site [ion binding]; other site 404589007962 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 404589007963 G1 box; other site 404589007964 GTP/Mg2+ binding site [chemical binding]; other site 404589007965 Switch I region; other site 404589007966 G2 box; other site 404589007967 G3 box; other site 404589007968 Switch II region; other site 404589007969 G4 box; other site 404589007970 G5 box; other site 404589007971 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 404589007972 dephospho-CoA kinase; Region: TIGR00152 404589007973 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 404589007974 CoA-binding site [chemical binding]; other site 404589007975 ATP-binding [chemical binding]; other site 404589007976 thioester reductase domain; Region: Thioester-redct; TIGR01746 404589007977 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 404589007978 putative NAD(P) binding site [chemical binding]; other site 404589007979 active site 404589007980 putative substrate binding site [chemical binding]; other site 404589007981 (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 404589007982 active site 404589007983 catalytic site [active] 404589007984 (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 404589007985 active site 404589007986 catalytic site [active] 404589007987 Protein of unknown function (DUF1059); Region: DUF1059; pfam06348 404589007988 argininosuccinate synthase; Validated; Region: PRK05370 404589007989 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 404589007990 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 404589007991 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589007992 Hsp70 protein; Region: HSP70; pfam00012 404589007993 nucleotide binding site [chemical binding]; other site 404589007994 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 404589007995 HSP70 interaction site [polypeptide binding]; other site 404589007996 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 404589007997 ornithine carbamoyltransferase; Provisional; Region: PRK00779 404589007998 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 404589007999 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 404589008000 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 404589008001 inhibitor-cofactor binding pocket; inhibition site 404589008002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589008003 catalytic residue [active] 404589008004 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 404589008005 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 404589008006 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 404589008007 Walker A motif; other site 404589008008 ATP binding site [chemical binding]; other site 404589008009 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 404589008010 Walker B motif; other site 404589008011 arginine finger; other site 404589008012 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 404589008013 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 404589008014 active site 404589008015 HslU subunit interaction site [polypeptide binding]; other site 404589008016 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 404589008017 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 404589008018 active site 404589008019 DNA binding site [nucleotide binding] 404589008020 Int/Topo IB signature motif; other site 404589008021 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 404589008022 Glucose inhibited division protein A; Region: GIDA; pfam01134 404589008023 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 404589008024 DNA topoisomerase I; Validated; Region: PRK06599 404589008025 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 404589008026 active site 404589008027 interdomain interaction site; other site 404589008028 putative metal-binding site [ion binding]; other site 404589008029 nucleotide binding site [chemical binding]; other site 404589008030 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 404589008031 domain I; other site 404589008032 DNA binding groove [nucleotide binding] 404589008033 phosphate binding site [ion binding]; other site 404589008034 domain II; other site 404589008035 domain III; other site 404589008036 nucleotide binding site [chemical binding]; other site 404589008037 catalytic site [active] 404589008038 domain IV; other site 404589008039 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 404589008040 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 404589008041 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 404589008042 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 404589008043 DNA protecting protein DprA; Region: dprA; TIGR00732 404589008044 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 404589008045 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 404589008046 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 404589008047 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 404589008048 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 404589008049 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 404589008050 dimerization interface [polypeptide binding]; other site 404589008051 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589008052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589008053 metal binding site [ion binding]; metal-binding site 404589008054 active site 404589008055 I-site; other site 404589008056 Response regulator receiver domain; Region: Response_reg; pfam00072 404589008057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589008058 active site 404589008059 phosphorylation site [posttranslational modification] 404589008060 intermolecular recognition site; other site 404589008061 dimerization interface [polypeptide binding]; other site 404589008062 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 404589008063 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 404589008064 active site 404589008065 metal binding site [ion binding]; metal-binding site 404589008066 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 404589008067 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589008068 Walker A motif; other site 404589008069 ATP binding site [chemical binding]; other site 404589008070 Walker B motif; other site 404589008071 arginine finger; other site 404589008072 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 404589008073 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 404589008074 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 404589008075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589008076 putative ADP-binding pocket [chemical binding]; other site 404589008077 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 404589008078 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 404589008079 Walker A motif; other site 404589008080 ATP binding site [chemical binding]; other site 404589008081 Walker B motif; other site 404589008082 PilZ domain; Region: PilZ; cl01260 404589008083 Peptidase family M48; Region: Peptidase_M48; cl12018 404589008084 PCRF domain; Region: PCRF; pfam03462 404589008085 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 404589008086 RF-1 domain; Region: RF-1; pfam00472 404589008087 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 404589008088 putative active site [active] 404589008089 catalytic triad [active] 404589008090 putative dimer interface [polypeptide binding]; other site 404589008091 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 404589008092 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589008093 Zn2+ binding site [ion binding]; other site 404589008094 Mg2+ binding site [ion binding]; other site 404589008095 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 404589008096 PhoH-like protein; Region: PhoH; pfam02562 404589008097 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589008098 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 404589008099 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 404589008100 homodimer interface [polypeptide binding]; other site 404589008101 metal binding site [ion binding]; metal-binding site 404589008102 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 404589008103 homodimer interface [polypeptide binding]; other site 404589008104 active site 404589008105 putative chemical substrate binding site [chemical binding]; other site 404589008106 metal binding site [ion binding]; metal-binding site 404589008107 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 404589008108 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 404589008109 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 404589008110 HIGH motif; other site 404589008111 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 404589008112 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 404589008113 active site 404589008114 KMSKS motif; other site 404589008115 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 404589008116 tRNA binding surface [nucleotide binding]; other site 404589008117 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 404589008118 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 404589008119 putative dimer interface [polypeptide binding]; other site 404589008120 putative anticodon binding site; other site 404589008121 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 404589008122 homodimer interface [polypeptide binding]; other site 404589008123 motif 1; other site 404589008124 motif 2; other site 404589008125 active site 404589008126 motif 3; other site 404589008127 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 404589008128 active site 404589008129 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 404589008130 active site 404589008131 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 404589008132 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 404589008133 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 404589008134 Uncharacterized conserved protein [Function unknown]; Region: COG2898 404589008135 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 404589008136 Cytosol aminopeptidase family, N-terminal domain; Region: Peptidase_M17_N; pfam02789 404589008137 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 404589008138 putative RNA binding site [nucleotide binding]; other site 404589008139 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 404589008140 homopentamer interface [polypeptide binding]; other site 404589008141 active site 404589008142 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 404589008143 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 404589008144 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 404589008145 dimerization interface [polypeptide binding]; other site 404589008146 active site 404589008147 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 404589008148 Lumazine binding domain; Region: Lum_binding; pfam00677 404589008149 Lumazine binding domain; Region: Lum_binding; pfam00677 404589008150 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 404589008151 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 404589008152 catalytic motif [active] 404589008153 Zn binding site [ion binding]; other site 404589008154 RibD C-terminal domain; Region: RibD_C; cl17279 404589008155 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 404589008156 ATP cone domain; Region: ATP-cone; pfam03477 404589008157 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 404589008158 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 404589008159 dimer interface [polypeptide binding]; other site 404589008160 active site 404589008161 glycine-pyridoxal phosphate binding site [chemical binding]; other site 404589008162 folate binding site [chemical binding]; other site 404589008163 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 404589008164 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 404589008165 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 404589008166 dimer interface [polypeptide binding]; other site 404589008167 active site 404589008168 acyl carrier protein; Provisional; Region: acpP; PRK00982 404589008169 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 404589008170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589008171 NAD(P) binding site [chemical binding]; other site 404589008172 active site 404589008173 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 404589008174 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 404589008175 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 404589008176 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 404589008177 dimer interface [polypeptide binding]; other site 404589008178 active site 404589008179 CoA binding pocket [chemical binding]; other site 404589008180 putative phosphate acyltransferase; Provisional; Region: PRK05331 404589008181 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 404589008182 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 404589008183 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589008184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589008185 active site 404589008186 phosphorylation site [posttranslational modification] 404589008187 intermolecular recognition site; other site 404589008188 dimerization interface [polypeptide binding]; other site 404589008189 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 404589008190 DNA binding residues [nucleotide binding] 404589008191 dimerization interface [polypeptide binding]; other site 404589008192 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 404589008193 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 404589008194 ResB-like family; Region: ResB; pfam05140 404589008195 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 404589008196 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 404589008197 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional; Region: PRK12775 404589008198 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 404589008199 FAD binding pocket [chemical binding]; other site 404589008200 FAD binding motif [chemical binding]; other site 404589008201 phosphate binding motif [ion binding]; other site 404589008202 beta-alpha-beta structure motif; other site 404589008203 NAD binding pocket [chemical binding]; other site 404589008204 Iron coordination center [ion binding]; other site 404589008205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589008206 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 404589008207 diiron binding motif [ion binding]; other site 404589008208 Rhomboid family; Region: Rhomboid; cl11446 404589008209 Uncharacterized conserved protein [Function unknown]; Region: COG0432 404589008210 Hemerythrin; Region: Hemerythrin; cd12107 404589008211 Fe binding site [ion binding]; other site 404589008212 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 404589008213 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 404589008214 cofactor binding site; other site 404589008215 metal binding site [ion binding]; metal-binding site 404589008216 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 404589008217 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 404589008218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589008219 Walker A/P-loop; other site 404589008220 ATP binding site [chemical binding]; other site 404589008221 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 404589008222 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589008223 ABC transporter signature motif; other site 404589008224 Walker B; other site 404589008225 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 404589008226 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589008227 Response regulator receiver domain; Region: Response_reg; pfam00072 404589008228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589008229 active site 404589008230 phosphorylation site [posttranslational modification] 404589008231 intermolecular recognition site; other site 404589008232 dimerization interface [polypeptide binding]; other site 404589008233 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 404589008234 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 404589008235 Binuclear center (active site) [active] 404589008236 K-pathway; other site 404589008237 Putative proton exit pathway; other site 404589008238 Cytochrome c; Region: Cytochrom_C; pfam00034 404589008239 Cytochrome c; Region: Cytochrom_C; pfam00034 404589008240 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 404589008241 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 404589008242 Uncharacterized conserved protein [Function unknown]; Region: COG4198 404589008243 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 404589008244 chaperone protein DnaJ; Provisional; Region: PRK10767 404589008245 short chain dehydrogenase; Provisional; Region: PRK06701 404589008246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589008247 NAD(P) binding site [chemical binding]; other site 404589008248 active site 404589008249 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 404589008250 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 404589008251 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 404589008252 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 404589008253 active site 404589008254 catalytic site [active] 404589008255 substrate binding site [chemical binding]; other site 404589008256 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 404589008257 DNA topoisomerase VI subunit A; Provisional; Region: PRK04342 404589008258 Type IIB DNA topoisomerase; Region: TP6A_N; pfam04406 404589008259 TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI)...; Region: TOPRIM_TopoIIB_SPO; cd00223 404589008260 active site 404589008261 metal binding site [ion binding]; metal-binding site 404589008262 interdomain interaction site; other site 404589008263 DNA topoisomerase VI subunit B; Validated; Region: PRK04184 404589008264 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008265 ATP binding site [chemical binding]; other site 404589008266 Mg2+ binding site [ion binding]; other site 404589008267 G-X-G motif; other site 404589008268 TopoIIB_Trans: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIB family of DNA topoisomerases similar to Sulfolobus shibatae topoisomerase VI (topoVI). The sole representative of the Type IIB...; Region: TopoIIB_Trans; cd00823 404589008269 anchoring element; other site 404589008270 dimer interface [polypeptide binding]; other site 404589008271 ATP binding site [chemical binding]; other site 404589008272 Peptidase family M48; Region: Peptidase_M48; cl12018 404589008273 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 404589008274 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 404589008275 putative NAD(P) binding site [chemical binding]; other site 404589008276 structural Zn binding site [ion binding]; other site 404589008277 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 404589008278 nudix motif; other site 404589008279 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 404589008280 methionine sulfoxide reductase B; Provisional; Region: PRK00222 404589008281 SelR domain; Region: SelR; pfam01641 404589008282 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 404589008283 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 404589008284 catalytic triad [active] 404589008285 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 404589008286 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 404589008287 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 404589008288 EamA-like transporter family; Region: EamA; pfam00892 404589008289 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 404589008290 EamA-like transporter family; Region: EamA; pfam00892 404589008291 epoxyqueuosine reductase; Region: TIGR00276 404589008292 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 404589008293 4Fe-4S binding domain; Region: Fer4; pfam00037 404589008294 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 404589008295 DNA methylase; Region: N6_N4_Mtase; pfam01555 404589008296 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 404589008297 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 404589008298 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cd11375 404589008299 active site 404589008300 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 404589008301 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 404589008302 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 404589008303 Ligand Binding Site [chemical binding]; other site 404589008304 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 404589008305 Ligand Binding Site [chemical binding]; other site 404589008306 AAA domain; Region: AAA_32; pfam13654 404589008307 ATP-dependent protease Lon; Provisional; Region: PRK13765 404589008308 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 404589008309 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 404589008310 nickel binding site [ion binding]; other site 404589008311 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 404589008312 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 404589008313 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 404589008314 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 404589008315 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 404589008316 active site 404589008317 DNA binding site [nucleotide binding] 404589008318 Int/Topo IB signature motif; other site 404589008319 Helix-turn-helix domain; Region: HTH_17; pfam12728 404589008320 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 404589008321 Fic/DOC family; Region: Fic; cl00960 404589008322 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 404589008323 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 404589008324 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 404589008325 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 404589008326 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 404589008327 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 404589008328 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 404589008329 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 404589008330 Uncharacterized conserved protein [Function unknown]; Region: COG3791 404589008331 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 404589008332 Transcriptional regulators [Transcription]; Region: MarR; COG1846 404589008333 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 404589008334 putative DNA binding site [nucleotide binding]; other site 404589008335 putative Zn2+ binding site [ion binding]; other site 404589008336 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 404589008337 hydrophobic ligand binding site; other site 404589008338 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589008339 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 404589008340 active site 404589008341 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 404589008342 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 404589008343 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 404589008344 rRNA binding site [nucleotide binding]; other site 404589008345 predicted 30S ribosome binding site; other site 404589008346 GTPase RsgA; Reviewed; Region: PRK01889 404589008347 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 404589008348 GTPase/Zn-binding domain interface [polypeptide binding]; other site 404589008349 GTP/Mg2+ binding site [chemical binding]; other site 404589008350 G4 box; other site 404589008351 G5 box; other site 404589008352 G1 box; other site 404589008353 Switch I region; other site 404589008354 G2 box; other site 404589008355 G3 box; other site 404589008356 Switch II region; other site 404589008357 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 404589008358 catalytic core [active] 404589008359 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 404589008360 elongation factor G; Reviewed; Region: PRK12740 404589008361 G1 box; other site 404589008362 putative GEF interaction site [polypeptide binding]; other site 404589008363 GTP/Mg2+ binding site [chemical binding]; other site 404589008364 Switch I region; other site 404589008365 G2 box; other site 404589008366 G3 box; other site 404589008367 Switch II region; other site 404589008368 G4 box; other site 404589008369 G5 box; other site 404589008370 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 404589008371 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 404589008372 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 404589008373 41 helicase; Provisional; Region: 41; PHA02542 404589008374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 404589008375 MOSC domain; Region: MOSC; pfam03473 404589008376 3-alpha domain; Region: 3-alpha; pfam03475 404589008377 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 404589008378 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 404589008379 FAD binding pocket [chemical binding]; other site 404589008380 FAD binding motif [chemical binding]; other site 404589008381 phosphate binding motif [ion binding]; other site 404589008382 beta-alpha-beta structure motif; other site 404589008383 NAD binding pocket [chemical binding]; other site 404589008384 Heme binding pocket [chemical binding]; other site 404589008385 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 404589008386 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 404589008387 catalytic loop [active] 404589008388 iron binding site [ion binding]; other site 404589008389 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 404589008390 Class I aldolases; Region: Aldolase_Class_I; cl17187 404589008391 5'-3' exonuclease; Region: 53EXOc; smart00475 404589008392 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 404589008393 active site 404589008394 metal binding site 1 [ion binding]; metal-binding site 404589008395 putative 5' ssDNA interaction site; other site 404589008396 metal binding site 3; metal-binding site 404589008397 metal binding site 2 [ion binding]; metal-binding site 404589008398 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 404589008399 putative DNA binding site [nucleotide binding]; other site 404589008400 putative metal binding site [ion binding]; other site 404589008401 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 404589008402 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 404589008403 NADP binding site [chemical binding]; other site 404589008404 dimer interface [polypeptide binding]; other site 404589008405 Protein of unknown function, DUF488; Region: DUF488; cl01246 404589008406 Uncharacterized conserved protein [Function unknown]; Region: COG3791 404589008407 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 404589008408 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 404589008409 substrate binding pocket [chemical binding]; other site 404589008410 membrane-bound complex binding site; other site 404589008411 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589008412 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 404589008413 dimerization interface [polypeptide binding]; other site 404589008414 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 404589008415 dimer interface [polypeptide binding]; other site 404589008416 phosphorylation site [posttranslational modification] 404589008417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008418 ATP binding site [chemical binding]; other site 404589008419 Mg2+ binding site [ion binding]; other site 404589008420 G-X-G motif; other site 404589008421 TPR repeat; Region: TPR_11; pfam13414 404589008422 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 404589008423 Predicted membrane protein [Function unknown]; Region: COG2323 404589008424 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 404589008425 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 404589008426 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 404589008427 nucleotide binding site [chemical binding]; other site 404589008428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 404589008429 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 404589008430 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589008431 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 404589008432 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 404589008433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 404589008434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 404589008435 Vitamin K epoxide reductase family in bacteria; Region: VKOR_3; cd12920 404589008436 putative active site [active] 404589008437 redox center [active] 404589008438 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 404589008439 ligand binding site [chemical binding]; other site 404589008440 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 404589008441 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589008442 catalytic residues [active] 404589008443 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 404589008444 putative ADP-ribose binding site [chemical binding]; other site 404589008445 putative active site [active] 404589008446 Carbonic anhydrase; Region: Pro_CA; smart00947 404589008447 active site clefts [active] 404589008448 zinc binding site [ion binding]; other site 404589008449 dimer interface [polypeptide binding]; other site 404589008450 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589008451 ligand binding site [chemical binding]; other site 404589008452 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 404589008453 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 404589008454 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 404589008455 S-adenosylmethionine binding site [chemical binding]; other site 404589008456 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 404589008457 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_3; cd04822 404589008458 PA/protease or protease-like domain interface [polypeptide binding]; other site 404589008459 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 404589008460 metal binding site [ion binding]; metal-binding site 404589008461 Peptidase family M28; Region: Peptidase_M28; pfam04389 404589008462 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 404589008463 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 404589008464 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589008465 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589008466 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589008467 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 404589008468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589008469 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 404589008470 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 404589008471 putative dimerization interface [polypeptide binding]; other site 404589008472 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 404589008473 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 404589008474 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 404589008475 active site 404589008476 Cytochrome C' Region: Cytochrom_C_2; cl01610 404589008477 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589008478 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589008479 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589008480 active site 404589008481 metal binding site [ion binding]; metal-binding site 404589008482 Cytochrome c [Energy production and conversion]; Region: COG3258 404589008483 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 404589008484 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 404589008485 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 404589008486 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 404589008487 active site residue [active] 404589008488 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 404589008489 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 404589008490 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 404589008491 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 404589008492 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 404589008493 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 404589008494 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; cd00386 404589008495 Subunit I/III interface [polypeptide binding]; other site 404589008496 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 404589008497 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 404589008498 Cu(I) binding site [ion binding]; other site 404589008499 Protein of unknown function, DUF485; Region: DUF485; pfam04341 404589008500 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 404589008501 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 404589008502 Na binding site [ion binding]; other site 404589008503 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 404589008504 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 404589008505 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 404589008506 Uncharacterized conserved protein [Function unknown]; Region: COG3268 404589008507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589008508 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 404589008509 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 404589008510 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 404589008511 dimerization interface [polypeptide binding]; other site 404589008512 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589008513 dimer interface [polypeptide binding]; other site 404589008514 putative CheW interface [polypeptide binding]; other site 404589008515 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589008516 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589008517 active site 404589008518 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 404589008519 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 404589008520 dimer interface [polypeptide binding]; other site 404589008521 active site 404589008522 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 404589008523 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 404589008524 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 404589008525 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 404589008526 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 404589008527 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 404589008528 substrate binding site [chemical binding]; other site 404589008529 oxyanion hole (OAH) forming residues; other site 404589008530 trimer interface [polypeptide binding]; other site 404589008531 Baculoviral E56 protein, specific to ODV envelope; Region: Baculo_E56; pfam04639 404589008532 Propionate catabolism activator; Region: PrpR_N; pfam06506 404589008533 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 404589008534 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 404589008535 putative active site [active] 404589008536 heme pocket [chemical binding]; other site 404589008537 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 404589008538 Walker A motif; other site 404589008539 ATP binding site [chemical binding]; other site 404589008540 Walker B motif; other site 404589008541 arginine finger; other site 404589008542 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589008543 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 404589008544 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 404589008545 Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular...; Region: FReD; cl00085 404589008546 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 404589008547 active site 2 [active] 404589008548 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 404589008549 Active_site [active] 404589008550 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 404589008551 substrate binding site [chemical binding]; other site 404589008552 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 404589008553 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589008554 active site 404589008555 catalytic tetrad [active] 404589008556 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 404589008557 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589008558 active site 404589008559 metal binding site [ion binding]; metal-binding site 404589008560 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 404589008561 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 404589008562 dimerization interface [polypeptide binding]; other site 404589008563 DPS ferroxidase diiron center [ion binding]; other site 404589008564 ion pore; other site 404589008565 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 404589008566 GIY-YIG motif/motif A; other site 404589008567 putative active site [active] 404589008568 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 404589008569 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 404589008570 nucleophile elbow; other site 404589008571 Transcriptional regulator [Transcription]; Region: LysR; COG0583 404589008572 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 404589008573 dimerization interface [polypeptide binding]; other site 404589008574 Electron transfer flavoprotein domain; Region: ETF; smart00893 404589008575 Electron transfer flavoprotein domain; Region: ETF; pfam01012 404589008576 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 404589008577 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 404589008578 4Fe-4S binding domain; Region: Fer4; cl02805 404589008579 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589008580 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589008581 Acyl-CoA dehydrogenase, C-terminal domain; Region: Acyl-CoA_dh_1; pfam00441 404589008582 active site 404589008583 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 404589008584 active site 404589008585 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 404589008586 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 404589008587 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 404589008588 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589008589 dimer interface [polypeptide binding]; other site 404589008590 phosphorylation site [posttranslational modification] 404589008591 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008592 ATP binding site [chemical binding]; other site 404589008593 Mg2+ binding site [ion binding]; other site 404589008594 G-X-G motif; other site 404589008595 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 404589008596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589008597 active site 404589008598 phosphorylation site [posttranslational modification] 404589008599 intermolecular recognition site; other site 404589008600 dimerization interface [polypeptide binding]; other site 404589008601 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589008602 Zn2+ binding site [ion binding]; other site 404589008603 Mg2+ binding site [ion binding]; other site 404589008604 Phospholipid methyltransferase; Region: PEMT; cl17370 404589008605 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 404589008606 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 404589008607 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 404589008608 putative ligand binding site [chemical binding]; other site 404589008609 putative NAD binding site [chemical binding]; other site 404589008610 putative catalytic site [active] 404589008611 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 404589008612 Nudix hydrolase homolog; Region: PLN02791 404589008613 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 404589008614 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589008615 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 404589008616 S-adenosylmethionine binding site [chemical binding]; other site 404589008617 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 404589008618 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 404589008619 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 404589008620 carboxyltransferase (CT) interaction site; other site 404589008621 biotinylation site [posttranslational modification]; other site 404589008622 Acetyl-CoA carboxylase, central region; Region: ACC_central; pfam08326 404589008623 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 404589008624 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 404589008625 helicase 45; Provisional; Region: PTZ00424 404589008626 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 404589008627 ATP binding site [chemical binding]; other site 404589008628 Mg++ binding site [ion binding]; other site 404589008629 motif III; other site 404589008630 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 404589008631 nucleotide binding region [chemical binding]; other site 404589008632 ATP-binding site [chemical binding]; other site 404589008633 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 404589008634 RNA binding site [nucleotide binding]; other site 404589008635 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 404589008636 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 404589008637 Cytochrome c; Region: Cytochrom_C; pfam00034 404589008638 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 404589008639 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589008640 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589008641 active site 404589008642 ATP binding site [chemical binding]; other site 404589008643 substrate binding site [chemical binding]; other site 404589008644 activation loop (A-loop); other site 404589008645 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 404589008646 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 404589008647 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 404589008648 Cysteine-rich domain; Region: CCG; pfam02754 404589008649 Cysteine-rich domain; Region: CCG; pfam02754 404589008650 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 404589008651 FAD binding domain; Region: FAD_binding_4; pfam01565 404589008652 FAD binding domain; Region: FAD_binding_4; pfam01565 404589008653 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 404589008654 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 404589008655 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 404589008656 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 404589008657 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 404589008658 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 404589008659 PGAP1-like protein; Region: PGAP1; pfam07819 404589008660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589008661 Coenzyme A binding pocket [chemical binding]; other site 404589008662 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 404589008663 PAS domain; Region: PAS_9; pfam13426 404589008664 PAS domain; Region: PAS_9; pfam13426 404589008665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589008666 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 404589008667 dimer interface [polypeptide binding]; other site 404589008668 phosphorylation site [posttranslational modification] 404589008669 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008670 Mg2+ binding site [ion binding]; other site 404589008671 G-X-G motif; other site 404589008672 Response regulator receiver domain; Region: Response_reg; pfam00072 404589008673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589008674 active site 404589008675 phosphorylation site [posttranslational modification] 404589008676 intermolecular recognition site; other site 404589008677 dimerization interface [polypeptide binding]; other site 404589008678 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 404589008679 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 404589008680 substrate-cofactor binding pocket; other site 404589008681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589008682 catalytic residue [active] 404589008683 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 404589008684 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 404589008685 NAD(P) binding site [chemical binding]; other site 404589008686 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 404589008687 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589008688 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008689 ATP binding site [chemical binding]; other site 404589008690 Mg2+ binding site [ion binding]; other site 404589008691 G-X-G motif; other site 404589008692 TPR repeat; Region: TPR_11; pfam13414 404589008693 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 404589008694 binding surface 404589008695 TPR motif; other site 404589008696 TPR repeat; Region: TPR_11; pfam13414 404589008697 Protein of unknown function, DUF399; Region: DUF399; pfam04187 404589008698 B12 binding domain; Region: B12-binding; pfam02310 404589008699 B12 binding site [chemical binding]; other site 404589008700 Radical SAM superfamily; Region: Radical_SAM; pfam04055 404589008701 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 404589008702 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 404589008703 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 404589008704 G1 box; other site 404589008705 GTP/Mg2+ binding site [chemical binding]; other site 404589008706 G2 box; other site 404589008707 Switch I region; other site 404589008708 G3 box; other site 404589008709 Switch II region; other site 404589008710 G4 box; other site 404589008711 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 404589008712 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 404589008713 putative lipid kinase; Reviewed; Region: PRK13057 404589008714 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 404589008715 PilZ domain; Region: PilZ; pfam07238 404589008716 Predicted methyltransferase [General function prediction only]; Region: COG3897 404589008717 OPT oligopeptide transporter protein; Region: OPT; pfam03169 404589008718 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 404589008719 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 404589008720 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 404589008721 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 404589008722 FOG: CBS domain [General function prediction only]; Region: COG0517 404589008723 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_9; cd04622 404589008724 UPF0126 domain; Region: UPF0126; pfam03458 404589008725 hypothetical protein; Provisional; Region: PRK10578 404589008726 UPF0126 domain; Region: UPF0126; pfam03458 404589008727 Predicted membrane protein [Function unknown]; Region: COG2246 404589008728 GtrA-like protein; Region: GtrA; pfam04138 404589008729 cheY-homologous receiver domain; Region: REC; smart00448 404589008730 phosphorylation site [posttranslational modification] 404589008731 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 404589008732 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 404589008733 homodimer interface [polypeptide binding]; other site 404589008734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589008735 catalytic residue [active] 404589008736 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589008737 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589008738 FtsX-like permease family; Region: FtsX; pfam02687 404589008739 FtsX-like permease family; Region: FtsX; pfam02687 404589008740 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 404589008741 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 404589008742 Walker A/P-loop; other site 404589008743 ATP binding site [chemical binding]; other site 404589008744 Q-loop/lid; other site 404589008745 ABC transporter signature motif; other site 404589008746 Walker B; other site 404589008747 D-loop; other site 404589008748 H-loop/switch region; other site 404589008749 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 404589008750 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 404589008751 non-specific DNA binding site [nucleotide binding]; other site 404589008752 salt bridge; other site 404589008753 sequence-specific DNA binding site [nucleotide binding]; other site 404589008754 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 404589008755 Domain of unknown function (DUF955); Region: DUF955; pfam06114 404589008756 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 404589008757 malate synthase A; Region: malate_syn_A; TIGR01344 404589008758 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 404589008759 active site 404589008760 isocitrate lyase; Provisional; Region: PRK15063 404589008761 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 404589008762 tetramer interface [polypeptide binding]; other site 404589008763 active site 404589008764 Mg2+/Mn2+ binding site [ion binding]; other site 404589008765 Hemerythrin-like domain; Region: Hr-like; cd12108 404589008766 Fe binding site [ion binding]; other site 404589008767 4-alpha-glucanotransferase; Provisional; Region: PRK14508 404589008768 trehalose synthase; Region: treS_nterm; TIGR02456 404589008769 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 404589008770 active site 404589008771 catalytic site [active] 404589008772 FOG: CBS domain [General function prediction only]; Region: COG0517 404589008773 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_11; cd04624 404589008774 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 404589008775 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 404589008776 ligand binding site [chemical binding]; other site 404589008777 homodimer interface [polypeptide binding]; other site 404589008778 NAD(P) binding site [chemical binding]; other site 404589008779 trimer interface B [polypeptide binding]; other site 404589008780 trimer interface A [polypeptide binding]; other site 404589008781 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 404589008782 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 404589008783 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 404589008784 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589008785 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 404589008786 putative NAD(P) binding site [chemical binding]; other site 404589008787 putative substrate binding site [chemical binding]; other site 404589008788 catalytic Zn binding site [ion binding]; other site 404589008789 structural Zn binding site [ion binding]; other site 404589008790 dimer interface [polypeptide binding]; other site 404589008791 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 404589008792 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589008793 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 404589008794 dimer interface [polypeptide binding]; other site 404589008795 phosphorylation site [posttranslational modification] 404589008796 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008797 ATP binding site [chemical binding]; other site 404589008798 Mg2+ binding site [ion binding]; other site 404589008799 G-X-G motif; other site 404589008800 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 404589008801 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; cd00136 404589008802 protein binding site [polypeptide binding]; other site 404589008803 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 404589008804 Active site serine [active] 404589008805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589008806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589008807 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589008808 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 404589008809 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589008810 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 404589008811 Protein export membrane protein; Region: SecD_SecF; cl14618 404589008812 AMP-binding domain protein; Validated; Region: PRK08315 404589008813 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589008814 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 404589008815 acyl-activating enzyme (AAE) consensus motif; other site 404589008816 putative AMP binding site [chemical binding]; other site 404589008817 putative active site [active] 404589008818 putative CoA binding site [chemical binding]; other site 404589008819 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 404589008820 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 404589008821 NADP binding site [chemical binding]; other site 404589008822 dimer interface [polypeptide binding]; other site 404589008823 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 404589008824 active site 404589008825 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 404589008826 active site residue [active] 404589008827 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 404589008828 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 404589008829 TPP-binding site [chemical binding]; other site 404589008830 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 404589008831 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 404589008832 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 404589008833 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 404589008834 dimer interface [polypeptide binding]; other site 404589008835 PYR/PP interface [polypeptide binding]; other site 404589008836 TPP binding site [chemical binding]; other site 404589008837 substrate binding site [chemical binding]; other site 404589008838 pyruvate carboxylase; Reviewed; Region: PRK12999 404589008839 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 404589008840 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 404589008841 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 404589008842 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 404589008843 active site 404589008844 catalytic residues [active] 404589008845 metal binding site [ion binding]; metal-binding site 404589008846 homodimer binding site [polypeptide binding]; other site 404589008847 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 404589008848 carboxyltransferase (CT) interaction site; other site 404589008849 biotinylation site [posttranslational modification]; other site 404589008850 Hemerythrin; Region: Hemerythrin; cd12107 404589008851 Fe binding site [ion binding]; other site 404589008852 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 404589008853 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 404589008854 FAD binding domain; Region: FAD_binding_4; pfam01565 404589008855 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 404589008856 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 404589008857 Cysteine-rich domain; Region: CCG; pfam02754 404589008858 glutamate dehydrogenase; Provisional; Region: PRK09414 404589008859 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 404589008860 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 404589008861 NAD(P) binding site [chemical binding]; other site 404589008862 GAF domain; Region: GAF; pfam01590 404589008863 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 404589008864 PAS fold; Region: PAS_4; pfam08448 404589008865 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589008866 active site 404589008867 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 404589008868 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 404589008869 NAD(P) binding site [chemical binding]; other site 404589008870 catalytic residues [active] 404589008871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589008872 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 404589008873 dimer interface [polypeptide binding]; other site 404589008874 phosphorylation site [posttranslational modification] 404589008875 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008876 ATP binding site [chemical binding]; other site 404589008877 Mg2+ binding site [ion binding]; other site 404589008878 G-X-G motif; other site 404589008879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589008880 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 404589008881 NAD(P) binding site [chemical binding]; other site 404589008882 active site 404589008883 photolyase PhrII; Region: phr2; TIGR00591 404589008884 Protein of unknown function (DUF523); Region: DUF523; pfam04463 404589008885 Uncharacterized conserved protein [Function unknown]; Region: COG3272 404589008886 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 404589008887 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 404589008888 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 404589008889 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 404589008890 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 404589008891 active site 404589008892 homotetramer interface [polypeptide binding]; other site 404589008893 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 404589008894 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 404589008895 nucleotide binding site [chemical binding]; other site 404589008896 putative NEF/HSP70 interaction site [polypeptide binding]; other site 404589008897 SBD interface [polypeptide binding]; other site 404589008898 DNA-K related protein; Region: DUF3731; pfam12531 404589008899 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 404589008900 nucleotide binding site [chemical binding]; other site 404589008901 putative NEF/HSP70 interaction site [polypeptide binding]; other site 404589008902 SBD interface [polypeptide binding]; other site 404589008903 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 404589008904 Protein of unknown function DUF72; Region: DUF72; pfam01904 404589008905 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 404589008906 dimerization interface [polypeptide binding]; other site 404589008907 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 404589008908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589008909 putative active site [active] 404589008910 heme pocket [chemical binding]; other site 404589008911 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 404589008912 dimer interface [polypeptide binding]; other site 404589008913 phosphorylation site [posttranslational modification] 404589008914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589008915 ATP binding site [chemical binding]; other site 404589008916 G-X-G motif; other site 404589008917 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589008918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589008919 active site 404589008920 phosphorylation site [posttranslational modification] 404589008921 intermolecular recognition site; other site 404589008922 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 404589008923 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589008924 active site 404589008925 catalytic tetrad [active] 404589008926 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589008927 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 404589008928 Walker A/P-loop; other site 404589008929 ATP binding site [chemical binding]; other site 404589008930 Q-loop/lid; other site 404589008931 ABC transporter signature motif; other site 404589008932 Walker B; other site 404589008933 D-loop; other site 404589008934 H-loop/switch region; other site 404589008935 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 404589008936 putative dimerization interface [polypeptide binding]; other site 404589008937 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 404589008938 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 404589008939 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 404589008940 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 404589008941 substrate binding pocket [chemical binding]; other site 404589008942 membrane-bound complex binding site; other site 404589008943 hinge residues; other site 404589008944 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 404589008945 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 404589008946 FeS/SAM binding site; other site 404589008947 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 404589008948 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 404589008949 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 404589008950 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 404589008951 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 404589008952 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 404589008953 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 404589008954 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 404589008955 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 404589008956 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 404589008957 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 404589008958 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 404589008959 MoFe protein alpha/beta subunit interactions; other site 404589008960 Alpha subunit P cluster binding residues; other site 404589008961 FeMoco binding residues [chemical binding]; other site 404589008962 MoFe protein alpha subunit/Fe protein contacts; other site 404589008963 MoFe protein dimer/ dimer interactions; other site 404589008964 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 404589008965 nitrogenase iron protein; Region: nifH; TIGR01287 404589008966 Nucleotide-binding sites [chemical binding]; other site 404589008967 Walker A motif; other site 404589008968 Switch I region of nucleotide binding site; other site 404589008969 Fe4S4 binding sites [ion binding]; other site 404589008970 Switch II region of nucleotide binding site; other site 404589008971 putative acetyltransferase; Provisional; Region: PRK03624 404589008972 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 404589008973 Nif-specific regulatory protein; Region: nifA; TIGR01817 404589008974 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589008975 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 404589008976 Walker A motif; other site 404589008977 ATP binding site [chemical binding]; other site 404589008978 Walker B motif; other site 404589008979 arginine finger; other site 404589008980 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589008981 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 404589008982 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 404589008983 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 404589008984 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 404589008985 Zn binding site [ion binding]; other site 404589008986 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 404589008987 PA/protease or protease-like domain interface [polypeptide binding]; other site 404589008988 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 404589008989 Calx-beta domain; Region: Calx-beta; cl02522 404589008990 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 404589008991 Na2 binding site [ion binding]; other site 404589008992 putative substrate binding site 1 [chemical binding]; other site 404589008993 Na binding site 1 [ion binding]; other site 404589008994 putative substrate binding site 2 [chemical binding]; other site 404589008995 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 404589008996 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 404589008997 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589008998 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 404589008999 active site 404589009000 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 404589009001 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 404589009002 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 404589009003 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 404589009004 4Fe-4S binding domain; Region: Fer4_6; pfam12837 404589009005 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 404589009006 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 404589009007 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 404589009008 molybdopterin cofactor binding site; other site 404589009009 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 404589009010 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 404589009011 molybdopterin cofactor binding site; other site 404589009012 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 404589009013 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 404589009014 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589009015 Walker A motif; other site 404589009016 ATP binding site [chemical binding]; other site 404589009017 Walker B motif; other site 404589009018 arginine finger; other site 404589009019 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589009020 PAS fold; Region: PAS_4; pfam08448 404589009021 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 404589009022 putative active site [active] 404589009023 heme pocket [chemical binding]; other site 404589009024 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 404589009025 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; pfam09698 404589009026 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 404589009027 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589009028 active site 404589009029 catalytic tetrad [active] 404589009030 fumarate hydratase; Provisional; Region: PRK15389 404589009031 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 404589009032 Fumarase C-terminus; Region: Fumerase_C; pfam05683 404589009033 Hemerythrin; Region: Hemerythrin; cd12107 404589009034 Fe binding site [ion binding]; other site 404589009035 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 404589009036 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 404589009037 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 404589009038 conserved gate region; other site 404589009039 ABC-ATPase subunit interface; other site 404589009040 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 404589009041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589009042 Walker A/P-loop; other site 404589009043 ATP binding site [chemical binding]; other site 404589009044 Q-loop/lid; other site 404589009045 ABC transporter signature motif; other site 404589009046 Walker B; other site 404589009047 D-loop; other site 404589009048 H-loop/switch region; other site 404589009049 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 404589009050 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 404589009051 Haemolysin-III related; Region: HlyIII; cl03831 404589009052 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 404589009053 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 404589009054 putative deacylase active site [active] 404589009055 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589009056 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH5; cd08259 404589009057 putative NAD(P) binding site [chemical binding]; other site 404589009058 catalytic Zn binding site [ion binding]; other site 404589009059 structural Zn binding site [ion binding]; other site 404589009060 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 404589009061 Beta propeller domain; Region: Beta_propel; pfam09826 404589009062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589009063 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009064 ATP binding site [chemical binding]; other site 404589009065 Mg2+ binding site [ion binding]; other site 404589009066 G-X-G motif; other site 404589009067 Response regulator receiver domain; Region: Response_reg; pfam00072 404589009068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589009069 active site 404589009070 phosphorylation site [posttranslational modification] 404589009071 intermolecular recognition site; other site 404589009072 dimerization interface [polypeptide binding]; other site 404589009073 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 404589009074 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 404589009075 glycogen branching enzyme; Provisional; Region: PRK12313 404589009076 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 404589009077 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 404589009078 active site 404589009079 catalytic site [active] 404589009080 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 404589009081 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 404589009082 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 404589009083 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 404589009084 active site 404589009085 homodimer interface [polypeptide binding]; other site 404589009086 catalytic site [active] 404589009087 acceptor binding site [chemical binding]; other site 404589009088 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 404589009089 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589009090 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589009091 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589009092 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 404589009093 active site 404589009094 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 404589009095 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589009096 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 404589009097 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 404589009098 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 404589009099 putative dimer interface [polypeptide binding]; other site 404589009100 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 404589009101 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 404589009102 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 404589009103 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 404589009104 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 404589009105 4Fe-4S binding domain; Region: Fer4; cl02805 404589009106 4Fe-4S binding domain; Region: Fer4; pfam00037 404589009107 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589009108 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 404589009109 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 404589009110 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 404589009111 putative catalytic site [active] 404589009112 putative phosphate binding site [ion binding]; other site 404589009113 putative metal binding site [ion binding]; other site 404589009114 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 404589009115 Ligand Binding Site [chemical binding]; other site 404589009116 Chorismate mutase type II; Region: CM_2; smart00830 404589009117 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 404589009118 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 404589009119 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 404589009120 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 404589009121 active site 404589009122 nucleotide binding site [chemical binding]; other site 404589009123 HIGH motif; other site 404589009124 KMSKS motif; other site 404589009125 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 404589009126 tRNA binding surface [nucleotide binding]; other site 404589009127 anticodon binding site; other site 404589009128 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 404589009129 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 404589009130 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 404589009131 Predicted membrane protein [Function unknown]; Region: COG3671 404589009132 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 404589009133 active site 1 [active] 404589009134 dimer interface [polypeptide binding]; other site 404589009135 hexamer interface [polypeptide binding]; other site 404589009136 active site 2 [active] 404589009137 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 404589009138 propionate/acetate kinase; Provisional; Region: PRK12379 404589009139 phosphate acetyltransferase; Reviewed; Region: PRK05632 404589009140 DRTGG domain; Region: DRTGG; pfam07085 404589009141 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 404589009142 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 404589009143 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 404589009144 GAF domain; Region: GAF_3; pfam13492 404589009145 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 404589009146 dimer interface [polypeptide binding]; other site 404589009147 phosphorylation site [posttranslational modification] 404589009148 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009149 ATP binding site [chemical binding]; other site 404589009150 G-X-G motif; other site 404589009151 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 404589009152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589009153 active site 404589009154 phosphorylation site [posttranslational modification] 404589009155 intermolecular recognition site; other site 404589009156 dimerization interface [polypeptide binding]; other site 404589009157 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 404589009158 DNA binding site [nucleotide binding] 404589009159 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 404589009160 ATP binding site [chemical binding]; other site 404589009161 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 404589009162 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 404589009163 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589009164 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 404589009165 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 404589009166 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 404589009167 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 404589009168 active site 1 [active] 404589009169 dimer interface [polypeptide binding]; other site 404589009170 hexamer interface [polypeptide binding]; other site 404589009171 active site 2 [active] 404589009172 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 404589009173 Double zinc ribbon; Region: DZR; pfam12773 404589009174 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589009175 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589009176 active site 404589009177 ATP binding site [chemical binding]; other site 404589009178 substrate binding site [chemical binding]; other site 404589009179 activation loop (A-loop); other site 404589009180 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 404589009181 binding surface 404589009182 TPR motif; other site 404589009183 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 404589009184 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 404589009185 dimerization interface [polypeptide binding]; other site 404589009186 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589009187 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589009188 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 404589009189 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 404589009190 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 404589009191 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 404589009192 putative active site [active] 404589009193 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 404589009194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589009195 Walker A/P-loop; other site 404589009196 ATP binding site [chemical binding]; other site 404589009197 Q-loop/lid; other site 404589009198 ABC transporter signature motif; other site 404589009199 Walker B; other site 404589009200 D-loop; other site 404589009201 H-loop/switch region; other site 404589009202 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 404589009203 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 404589009204 putative active site [active] 404589009205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 404589009206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589009207 Walker A/P-loop; other site 404589009208 ATP binding site [chemical binding]; other site 404589009209 Q-loop/lid; other site 404589009210 ABC transporter signature motif; other site 404589009211 Outer membrane efflux protein; Region: OEP; pfam02321 404589009212 Outer membrane efflux protein; Region: OEP; pfam02321 404589009213 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 404589009214 phosphopeptide binding site; other site 404589009215 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589009216 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589009217 active site 404589009218 ATP binding site [chemical binding]; other site 404589009219 substrate binding site [chemical binding]; other site 404589009220 activation loop (A-loop); other site 404589009221 Vitamin K epoxide reductase family in bacteria; Region: VKOR_3; cd12920 404589009222 putative active site [active] 404589009223 Thioredoxin; Region: Thioredoxin_4; cl17273 404589009224 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 404589009225 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 404589009226 anti sigma factor interaction site; other site 404589009227 regulatory phosphorylation site [posttranslational modification]; other site 404589009228 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 404589009229 DXD motif; other site 404589009230 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 404589009231 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 404589009232 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 404589009233 active site 404589009234 catalytic residues [active] 404589009235 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 404589009236 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 404589009237 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 404589009238 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 404589009239 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 404589009240 active site 404589009241 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 404589009242 Peptidase family M50; Region: Peptidase_M50; pfam02163 404589009243 active site 404589009244 putative substrate binding region [chemical binding]; other site 404589009245 Pirin-related protein [General function prediction only]; Region: COG1741 404589009246 Pirin; Region: Pirin; pfam02678 404589009247 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 404589009248 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 404589009249 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 404589009250 active site 404589009251 catalytic site [active] 404589009252 substrate binding site [chemical binding]; other site 404589009253 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 404589009254 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 404589009255 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 404589009256 Na binding site [ion binding]; other site 404589009257 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 404589009258 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 404589009259 ligand binding site [chemical binding]; other site 404589009260 flexible hinge region; other site 404589009261 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 404589009262 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589009263 metal binding triad; other site 404589009264 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 404589009265 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 404589009266 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 404589009267 ligand binding site [chemical binding]; other site 404589009268 flexible hinge region; other site 404589009269 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 404589009270 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589009271 metal binding triad; other site 404589009272 BON domain; Region: BON; pfam04972 404589009273 Hemerythrin-like domain; Region: Hr-like; cd12108 404589009274 Fe binding site [ion binding]; other site 404589009275 PAS domain; Region: PAS_10; pfam13596 404589009276 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 404589009277 Uncharacterized conserved protein [Function unknown]; Region: COG2128 404589009278 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 404589009279 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589009280 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 404589009281 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 404589009282 Rubrerythrin [Energy production and conversion]; Region: COG1592 404589009283 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 404589009284 binuclear metal center [ion binding]; other site 404589009285 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 404589009286 iron binding site [ion binding]; other site 404589009287 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 404589009288 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 404589009289 active site 404589009290 Zn binding site [ion binding]; other site 404589009291 Cupin domain; Region: Cupin_2; cl17218 404589009292 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 404589009293 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589009294 active site 404589009295 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 404589009296 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 404589009297 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 404589009298 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 404589009299 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 404589009300 motif II; other site 404589009301 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 404589009302 L-aspartate oxidase; Provisional; Region: PRK06175 404589009303 L-aspartate oxidase; Provisional; Region: PRK09077 404589009304 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 404589009305 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 404589009306 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 404589009307 putative active site [active] 404589009308 heme pocket [chemical binding]; other site 404589009309 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 404589009310 dimer interface [polypeptide binding]; other site 404589009311 phosphorylation site [posttranslational modification] 404589009312 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009313 ATP binding site [chemical binding]; other site 404589009314 Mg2+ binding site [ion binding]; other site 404589009315 G-X-G motif; other site 404589009316 hydroperoxidase II; Provisional; Region: katE; PRK11249 404589009317 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 404589009318 heme binding pocket [chemical binding]; other site 404589009319 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 404589009320 domain interactions; other site 404589009321 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 404589009322 CoA binding domain; Region: CoA_binding_2; pfam13380 404589009323 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 404589009324 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 404589009325 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 404589009326 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589009327 Coenzyme A binding pocket [chemical binding]; other site 404589009328 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 404589009329 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 404589009330 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 404589009331 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 404589009332 Ligand binding site [chemical binding]; other site 404589009333 Electron transfer flavoprotein domain; Region: ETF; pfam01012 404589009334 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 404589009335 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 404589009336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589009337 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 404589009338 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 404589009339 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589009340 active site 404589009341 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 404589009342 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 404589009343 B12 binding site [chemical binding]; other site 404589009344 cobalt ligand [ion binding]; other site 404589009345 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 404589009346 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 404589009347 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 404589009348 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 404589009349 active site 404589009350 acyl-activating enzyme (AAE) consensus motif; other site 404589009351 putative CoA binding site [chemical binding]; other site 404589009352 AMP binding site [chemical binding]; other site 404589009353 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589009354 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 404589009355 S-adenosylmethionine binding site [chemical binding]; other site 404589009356 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589009357 active site 404589009358 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 404589009359 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 404589009360 Walker A/P-loop; other site 404589009361 ATP binding site [chemical binding]; other site 404589009362 Q-loop/lid; other site 404589009363 ABC transporter signature motif; other site 404589009364 Walker B; other site 404589009365 D-loop; other site 404589009366 H-loop/switch region; other site 404589009367 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 404589009368 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 404589009369 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 404589009370 TM-ABC transporter signature motif; other site 404589009371 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 404589009372 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 404589009373 TM-ABC transporter signature motif; other site 404589009374 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 404589009375 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 404589009376 putative ligand binding site [chemical binding]; other site 404589009377 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 404589009378 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589009379 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 404589009380 ligand binding site [chemical binding]; other site 404589009381 flexible hinge region; other site 404589009382 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 404589009383 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 404589009384 nucleophile elbow; other site 404589009385 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 404589009386 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 404589009387 B12 binding domain; Region: B12-binding; pfam02310 404589009388 B12 binding site [chemical binding]; other site 404589009389 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 404589009390 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 404589009391 FeS/SAM binding site; other site 404589009392 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 404589009393 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 404589009394 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 404589009395 Fatty acid desaturase; Region: FA_desaturase; pfam00487 404589009396 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 404589009397 putative di-iron ligands [ion binding]; other site 404589009398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 404589009399 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009400 ATP binding site [chemical binding]; other site 404589009401 Mg2+ binding site [ion binding]; other site 404589009402 G-X-G motif; other site 404589009403 PGAP1-like protein; Region: PGAP1; pfam07819 404589009404 Activator of aromatic catabolism; Region: XylR_N; pfam06505 404589009405 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 404589009406 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 404589009407 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 404589009408 Walker A motif; other site 404589009409 ATP binding site [chemical binding]; other site 404589009410 Walker B motif; other site 404589009411 arginine finger; other site 404589009412 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589009413 Uncharacterized conserved protein [Function unknown]; Region: COG2353 404589009414 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 404589009415 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 404589009416 putative active site [active] 404589009417 metal binding site [ion binding]; metal-binding site 404589009418 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 404589009419 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 404589009420 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 404589009421 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 404589009422 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 404589009423 homodimer interface [polypeptide binding]; other site 404589009424 substrate-cofactor binding pocket; other site 404589009425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589009426 catalytic residue [active] 404589009427 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 404589009428 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589009429 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 404589009430 active site 404589009431 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 404589009432 PQQ-like domain; Region: PQQ_2; pfam13360 404589009433 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 404589009434 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589009435 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 404589009436 ligand binding site [chemical binding]; other site 404589009437 flexible hinge region; other site 404589009438 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 404589009439 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589009440 active site 404589009441 catalytic tetrad [active] 404589009442 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 404589009443 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589009444 putative NAD(P) binding site [chemical binding]; other site 404589009445 putative substrate binding site [chemical binding]; other site 404589009446 catalytic Zn binding site [ion binding]; other site 404589009447 structural Zn binding site [ion binding]; other site 404589009448 dimer interface [polypeptide binding]; other site 404589009449 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589009450 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 404589009451 putative NAD(P) binding site [chemical binding]; other site 404589009452 putative substrate binding site [chemical binding]; other site 404589009453 catalytic Zn binding site [ion binding]; other site 404589009454 structural Zn binding site [ion binding]; other site 404589009455 dimer interface [polypeptide binding]; other site 404589009456 Transcriptional regulator [Transcription]; Region: LysR; COG0583 404589009457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589009458 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 404589009459 putative effector binding pocket; other site 404589009460 putative dimerization interface [polypeptide binding]; other site 404589009461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 404589009462 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 404589009463 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 404589009464 active site 404589009465 Substrate binding site; other site 404589009466 Mg++ binding site; other site 404589009467 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 404589009468 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 404589009469 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 404589009470 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 404589009471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 404589009472 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 404589009473 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 404589009474 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 404589009475 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 404589009476 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589009477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589009478 NAD(P) binding site [chemical binding]; other site 404589009479 active site 404589009480 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589009481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589009482 NAD(P) binding site [chemical binding]; other site 404589009483 active site 404589009484 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589009485 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 404589009486 putative NAD(P) binding site [chemical binding]; other site 404589009487 catalytic Zn binding site [ion binding]; other site 404589009488 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 404589009489 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 404589009490 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 404589009491 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 404589009492 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 404589009493 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 404589009494 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589009495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 404589009496 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 404589009497 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 404589009498 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 404589009499 S-adenosylmethionine binding site [chemical binding]; other site 404589009500 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 404589009501 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 404589009502 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 404589009503 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 404589009504 Walker A/P-loop; other site 404589009505 ATP binding site [chemical binding]; other site 404589009506 Q-loop/lid; other site 404589009507 ABC transporter signature motif; other site 404589009508 Walker B; other site 404589009509 D-loop; other site 404589009510 H-loop/switch region; other site 404589009511 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 404589009512 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589009513 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 404589009514 dimer interface [polypeptide binding]; other site 404589009515 phosphorylation site [posttranslational modification] 404589009516 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009517 ATP binding site [chemical binding]; other site 404589009518 Mg2+ binding site [ion binding]; other site 404589009519 G-X-G motif; other site 404589009520 circadian clock protein KaiC; Reviewed; Region: PRK09302 404589009521 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 404589009522 Walker A motif; other site 404589009523 ATP binding site [chemical binding]; other site 404589009524 Walker B motif; other site 404589009525 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 404589009526 Walker A motif; other site 404589009527 ATP binding site [chemical binding]; other site 404589009528 Walker B motif; other site 404589009529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 404589009530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589009531 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 404589009532 dimerization interface [polypeptide binding]; other site 404589009533 Predicted thioesterase [General function prediction only]; Region: COG5496 404589009534 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 404589009535 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 404589009536 FeS/SAM binding site; other site 404589009537 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 404589009538 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 404589009539 Sulfatase; Region: Sulfatase; cl17466 404589009540 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 404589009541 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 404589009542 Sulfate transporter family; Region: Sulfate_transp; pfam00916 404589009543 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 404589009544 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 404589009545 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589009546 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589009547 amidase; Provisional; Region: PRK07869 404589009548 Amidase; Region: Amidase; cl11426 404589009549 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 404589009550 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 404589009551 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 404589009552 putative active site [active] 404589009553 transaldolase; Provisional; Region: PRK03903 404589009554 catalytic residue [active] 404589009555 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 404589009556 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 404589009557 active site 404589009558 DNA binding site [nucleotide binding] 404589009559 LigD_Pol_like_1: Polymerase (Pol) domain of mostly bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 1. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is...; Region: LigD_Pol_like_1; cd04864 404589009560 nucleotide binding site [chemical binding]; other site 404589009561 RibD C-terminal domain; Region: RibD_C; cl17279 404589009562 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 404589009563 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 404589009564 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 404589009565 dimer interface [polypeptide binding]; other site 404589009566 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589009567 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589009568 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 404589009569 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 404589009570 NADP binding site [chemical binding]; other site 404589009571 homodimer interface [polypeptide binding]; other site 404589009572 active site 404589009573 substrate binding site [chemical binding]; other site 404589009574 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 404589009575 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589009576 Transposase IS200 like; Region: Y1_Tnp; cl00848 404589009577 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 404589009578 dimerization interface [polypeptide binding]; other site 404589009579 putative DNA binding site [nucleotide binding]; other site 404589009580 putative Zn2+ binding site [ion binding]; other site 404589009581 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 404589009582 active site residue [active] 404589009583 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 404589009584 DsrE/DsrF-like family; Region: DrsE; cl00672 404589009585 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 404589009586 Methyltransferase domain; Region: Methyltransf_23; pfam13489 404589009587 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 404589009588 S-adenosylmethionine binding site [chemical binding]; other site 404589009589 Predicted transcriptional regulator [Transcription]; Region: COG1959 404589009590 Transcriptional regulator; Region: Rrf2; pfam02082 404589009591 Alginate lyase; Region: Alginate_lyase; pfam05426 404589009592 Probable beta-xylosidase; Provisional; Region: PLN03080 404589009593 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 404589009594 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 404589009595 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 404589009596 SEC-C motif; Region: SEC-C; pfam02810 404589009597 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 404589009598 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 404589009599 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 404589009600 Response regulator receiver domain; Region: Response_reg; pfam00072 404589009601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589009602 active site 404589009603 phosphorylation site [posttranslational modification] 404589009604 intermolecular recognition site; other site 404589009605 dimerization interface [polypeptide binding]; other site 404589009606 short chain dehydrogenase; Provisional; Region: PRK06172 404589009607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589009608 NAD(P) binding site [chemical binding]; other site 404589009609 active site 404589009610 DDE superfamily endonuclease; Region: DDE_3; pfam13358 404589009611 Cupin; Region: Cupin_6; pfam12852 404589009612 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589009613 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 404589009614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589009615 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 404589009616 active site 404589009617 metal binding site [ion binding]; metal-binding site 404589009618 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589009619 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589009620 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 404589009621 Walker A motif; other site 404589009622 ATP binding site [chemical binding]; other site 404589009623 Walker B motif; other site 404589009624 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 404589009625 Beta-lactamase; Region: Beta-lactamase; pfam00144 404589009626 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 404589009627 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 404589009628 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 404589009629 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 404589009630 SWIM zinc finger; Region: SWIM; pfam04434 404589009631 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 404589009632 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 404589009633 ATP binding site [chemical binding]; other site 404589009634 putative Mg++ binding site [ion binding]; other site 404589009635 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 404589009636 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 404589009637 nucleotide binding region [chemical binding]; other site 404589009638 ATP-binding site [chemical binding]; other site 404589009639 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 404589009640 active site 404589009641 DNA binding site [nucleotide binding] 404589009642 Int/Topo IB signature motif; other site 404589009643 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 404589009644 putative FMN binding site [chemical binding]; other site 404589009645 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 404589009646 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 404589009647 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 404589009648 active site 404589009649 motif I; other site 404589009650 motif II; other site 404589009651 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 404589009652 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 404589009653 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589009654 ligand binding site [chemical binding]; other site 404589009655 flexible hinge region; other site 404589009656 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 404589009657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 404589009658 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 404589009659 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 404589009660 active site 404589009661 catalytic tetrad [active] 404589009662 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 404589009663 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 404589009664 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 404589009665 active site 404589009666 catalytic site [active] 404589009667 cardiolipin synthase 2; Provisional; Region: PRK11263 404589009668 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 404589009669 putative active site [active] 404589009670 catalytic site [active] 404589009671 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 404589009672 putative active site [active] 404589009673 catalytic site [active] 404589009674 transketolase; Reviewed; Region: PRK05899 404589009675 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 404589009676 TPP-binding site [chemical binding]; other site 404589009677 dimer interface [polypeptide binding]; other site 404589009678 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 404589009679 PYR/PP interface [polypeptide binding]; other site 404589009680 dimer interface [polypeptide binding]; other site 404589009681 TPP binding site [chemical binding]; other site 404589009682 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 404589009683 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 404589009684 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 404589009685 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 404589009686 active site 404589009687 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 404589009688 Clp amino terminal domain; Region: Clp_N; pfam02861 404589009689 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 404589009690 Walker A motif; other site 404589009691 ATP binding site [chemical binding]; other site 404589009692 Walker B motif; other site 404589009693 arginine finger; other site 404589009694 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 404589009695 Walker A motif; other site 404589009696 ATP binding site [chemical binding]; other site 404589009697 Walker B motif; other site 404589009698 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 404589009699 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 404589009700 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 404589009701 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 404589009702 putative dimer interface [polypeptide binding]; other site 404589009703 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 404589009704 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 404589009705 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 404589009706 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 404589009707 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 404589009708 Ligand Binding Site [chemical binding]; other site 404589009709 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 404589009710 BON domain; Region: BON; pfam04972 404589009711 BON domain; Region: BON; pfam04972 404589009712 BON domain; Region: BON; pfam04972 404589009713 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 404589009714 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 404589009715 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 404589009716 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 404589009717 active site 404589009718 catalytic site [active] 404589009719 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 404589009720 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 404589009721 putative metal binding site [ion binding]; other site 404589009722 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 404589009723 putative metal binding site [ion binding]; other site 404589009724 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 404589009725 ParB-like nuclease domain; Region: ParBc; cl02129 404589009726 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 404589009727 intracellular protease, PfpI family; Region: PfpI; TIGR01382 404589009728 proposed catalytic triad [active] 404589009729 conserved cys residue [active] 404589009730 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 404589009731 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 404589009732 putative dimer interface [polypeptide binding]; other site 404589009733 PRC-barrel domain; Region: PRC; pfam05239 404589009734 BON domain; Region: BON; pfam04972 404589009735 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 404589009736 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 404589009737 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 404589009738 active site 404589009739 Sulphur transport; Region: Sulf_transp; pfam04143 404589009740 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 404589009741 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 404589009742 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 404589009743 protein binding site [polypeptide binding]; other site 404589009744 Bacterial transcriptional activator domain; Region: BTAD; smart01043 404589009745 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 404589009746 TPR motif; other site 404589009747 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 404589009748 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 404589009749 NAD(P) binding site [chemical binding]; other site 404589009750 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 404589009751 Protein kinase domain; Region: Pkinase; pfam00069 404589009752 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589009753 active site 404589009754 ATP binding site [chemical binding]; other site 404589009755 substrate binding site [chemical binding]; other site 404589009756 activation loop (A-loop); other site 404589009757 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 404589009758 Ligand Binding Site [chemical binding]; other site 404589009759 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 404589009760 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589009761 active site 404589009762 metal binding site [ion binding]; metal-binding site 404589009763 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 404589009764 putative substrate translocation pore; other site 404589009765 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 404589009766 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009767 ATP binding site [chemical binding]; other site 404589009768 Mg2+ binding site [ion binding]; other site 404589009769 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589009770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 404589009771 active site 404589009772 phosphorylation site [posttranslational modification] 404589009773 intermolecular recognition site; other site 404589009774 dimerization interface [polypeptide binding]; other site 404589009775 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 404589009776 DNA binding residues [nucleotide binding] 404589009777 dimerization interface [polypeptide binding]; other site 404589009778 short chain dehydrogenase; Provisional; Region: PRK09291 404589009779 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 404589009780 NADP binding site [chemical binding]; other site 404589009781 active site 404589009782 steroid binding site; other site 404589009783 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 404589009784 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 404589009785 PAS domain S-box; Region: sensory_box; TIGR00229 404589009786 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 404589009787 putative active site [active] 404589009788 heme pocket [chemical binding]; other site 404589009789 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 404589009790 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589009791 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 404589009792 Walker A motif; other site 404589009793 ATP binding site [chemical binding]; other site 404589009794 Walker B motif; other site 404589009795 arginine finger; other site 404589009796 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589009797 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589009798 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 404589009799 ligand binding site [chemical binding]; other site 404589009800 flexible hinge region; other site 404589009801 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 404589009802 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 404589009803 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 404589009804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589009805 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589009806 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589009807 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589009808 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 404589009809 Disintegrin; Region: Disintegrin; cl10507 404589009810 Disintegrin; Region: Disintegrin; cl10507 404589009811 Disintegrin; Region: Disintegrin; cl10507 404589009812 Disintegrin; Region: Disintegrin; cl10507 404589009813 Disintegrin; Region: Disintegrin; cl10507 404589009814 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 404589009815 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 404589009816 Walker A motif; other site 404589009817 ATP binding site [chemical binding]; other site 404589009818 Walker B motif; other site 404589009819 Response regulator receiver domain; Region: Response_reg; pfam00072 404589009820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589009821 active site 404589009822 phosphorylation site [posttranslational modification] 404589009823 intermolecular recognition site; other site 404589009824 dimerization interface [polypeptide binding]; other site 404589009825 Uncharacterized conserved protein (DUF2203); Region: DUF2203; pfam09969 404589009826 signal recognition particle protein; Provisional; Region: PRK10867 404589009827 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 404589009828 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 404589009829 P loop; other site 404589009830 GTP binding site [chemical binding]; other site 404589009831 Signal peptide binding domain; Region: SRP_SPB; pfam02978 404589009832 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 404589009833 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 404589009834 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 404589009835 TPR motif; other site 404589009836 binding surface 404589009837 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 404589009838 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 404589009839 TPR motif; other site 404589009840 binding surface 404589009841 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 404589009842 binding surface 404589009843 TPR motif; other site 404589009844 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 404589009845 binding surface 404589009846 TPR motif; other site 404589009847 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 404589009848 TMP-binding site; other site 404589009849 ATP-binding site [chemical binding]; other site 404589009850 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 404589009851 putative active site; other site 404589009852 putative metal binding residues [ion binding]; other site 404589009853 signature motif; other site 404589009854 putative triphosphate binding site [ion binding]; other site 404589009855 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 404589009856 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589009857 active site 404589009858 metal binding site [ion binding]; metal-binding site 404589009859 CotH protein; Region: CotH; pfam08757 404589009860 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 404589009861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589009862 Walker A/P-loop; other site 404589009863 ATP binding site [chemical binding]; other site 404589009864 Q-loop/lid; other site 404589009865 ABC transporter signature motif; other site 404589009866 Walker B; other site 404589009867 D-loop; other site 404589009868 H-loop/switch region; other site 404589009869 ABC transporter; Region: ABC_tran_2; pfam12848 404589009870 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589009871 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 404589009872 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589009873 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 404589009874 phosphopeptide binding site; other site 404589009875 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 404589009876 binding surface 404589009877 TPR motif; other site 404589009878 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 404589009879 binding surface 404589009880 TPR motif; other site 404589009881 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 404589009882 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 404589009883 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 404589009884 PilZ domain; Region: PilZ; cl01260 404589009885 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 404589009886 SnoaL-like domain; Region: SnoaL_4; cl17707 404589009887 SnoaL-like domain; Region: SnoaL_3; pfam13474 404589009888 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 404589009889 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 404589009890 active site 404589009891 substrate binding site [chemical binding]; other site 404589009892 ATP binding site [chemical binding]; other site 404589009893 TPR repeat; Region: TPR_11; pfam13414 404589009894 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 404589009895 binding surface 404589009896 TPR motif; other site 404589009897 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 404589009898 binding surface 404589009899 TPR motif; other site 404589009900 TPR repeat; Region: TPR_11; pfam13414 404589009901 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 404589009902 binding surface 404589009903 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589009904 TPR motif; other site 404589009905 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 404589009906 phosphopeptide binding site; other site 404589009907 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589009908 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 404589009909 phosphopeptide binding site; other site 404589009910 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 404589009911 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 404589009912 Walker A motif; other site 404589009913 ATP binding site [chemical binding]; other site 404589009914 Walker B motif; other site 404589009915 arginine finger; other site 404589009916 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589009917 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 404589009918 active site 404589009919 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589009920 active site 404589009921 metal binding site [ion binding]; metal-binding site 404589009922 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 404589009923 Tetratricopeptide repeat; Region: TPR_6; pfam13174 404589009924 EB module; Region: EB; pfam01683 404589009925 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 404589009926 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589009927 ligand binding site [chemical binding]; other site 404589009928 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589009929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589009930 active site 404589009931 phosphorylation site [posttranslational modification] 404589009932 intermolecular recognition site; other site 404589009933 dimerization interface [polypeptide binding]; other site 404589009934 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 404589009935 Walker A motif; other site 404589009936 ATP binding site [chemical binding]; other site 404589009937 Walker B motif; other site 404589009938 arginine finger; other site 404589009939 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589009940 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 404589009941 Transglycosylase; Region: Transgly; pfam00912 404589009942 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 404589009943 RNA binding site [nucleotide binding]; other site 404589009944 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 404589009945 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 404589009946 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 404589009947 phosphorylation site [posttranslational modification] 404589009948 dimer interface [polypeptide binding]; other site 404589009949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009950 ATP binding site [chemical binding]; other site 404589009951 G-X-G motif; other site 404589009952 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 404589009953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589009954 homodimer interface [polypeptide binding]; other site 404589009955 catalytic residue [active] 404589009956 Peptidase S46; Region: Peptidase_S46; pfam10459 404589009957 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 404589009958 quinolinate synthetase; Provisional; Region: PRK09375 404589009959 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 404589009960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589009961 active site 404589009962 phosphorylation site [posttranslational modification] 404589009963 intermolecular recognition site; other site 404589009964 dimerization interface [polypeptide binding]; other site 404589009965 LytTr DNA-binding domain; Region: LytTR; smart00850 404589009966 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 404589009967 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 404589009968 Histidine kinase; Region: His_kinase; pfam06580 404589009969 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589009970 ATP binding site [chemical binding]; other site 404589009971 Mg2+ binding site [ion binding]; other site 404589009972 G-X-G motif; other site 404589009973 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 404589009974 Found in ATP-dependent protease La (LON); Region: LON; smart00464 404589009975 Found in ATP-dependent protease La (LON); Region: LON; smart00464 404589009976 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 404589009977 Walker A motif; other site 404589009978 ATP binding site [chemical binding]; other site 404589009979 Walker B motif; other site 404589009980 arginine finger; other site 404589009981 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 404589009982 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 404589009983 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 404589009984 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589009985 catalytic residue [active] 404589009986 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 404589009987 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 404589009988 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 404589009989 Walker A motif; other site 404589009990 ATP binding site [chemical binding]; other site 404589009991 Walker B motif; other site 404589009992 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 404589009993 Clp protease; Region: CLP_protease; pfam00574 404589009994 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 404589009995 oligomer interface [polypeptide binding]; other site 404589009996 active site residues [active] 404589009997 trigger factor; Region: tig; TIGR00115 404589009998 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 404589009999 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 404589010000 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 404589010001 active site 404589010002 dimerization interface [polypeptide binding]; other site 404589010003 ribonuclease PH; Reviewed; Region: rph; PRK00173 404589010004 Ribonuclease PH; Region: RNase_PH_bact; cd11362 404589010005 hexamer interface [polypeptide binding]; other site 404589010006 active site 404589010007 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 404589010008 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 404589010009 active site 404589010010 metal binding site [ion binding]; metal-binding site 404589010011 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 404589010012 dimerization interface [polypeptide binding]; other site 404589010013 putative ATP binding site [chemical binding]; other site 404589010014 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 404589010015 binding surface 404589010016 TPR motif; other site 404589010017 TPR repeat; Region: TPR_11; pfam13414 404589010018 Tetratricopeptide repeat; Region: TPR_12; pfam13424 404589010019 TPR repeat; Region: TPR_11; pfam13414 404589010020 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 404589010021 binding surface 404589010022 TPR motif; other site 404589010023 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589010024 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 404589010025 Tetratricopeptide repeat; Region: TPR_6; pfam13174 404589010026 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 404589010027 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 404589010028 ATP binding site [chemical binding]; other site 404589010029 Walker B motif; other site 404589010030 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 404589010031 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 404589010032 putative active site [active] 404589010033 catalytic site [active] 404589010034 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 404589010035 putative active site [active] 404589010036 catalytic site [active] 404589010037 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 404589010038 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 404589010039 23S rRNA interface [nucleotide binding]; other site 404589010040 L3 interface [polypeptide binding]; other site 404589010041 M28 Zn-Peptidases; Region: M28_like_1; cd05640 404589010042 metal binding site [ion binding]; metal-binding site 404589010043 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 404589010044 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 404589010045 Part of AAA domain; Region: AAA_19; pfam13245 404589010046 Family description; Region: UvrD_C_2; pfam13538 404589010047 Peptidase family C69; Region: Peptidase_C69; cl17793 404589010048 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 404589010049 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 404589010050 RNA binding surface [nucleotide binding]; other site 404589010051 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 404589010052 active site 404589010053 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 404589010054 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 404589010055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589010056 Walker A/P-loop; other site 404589010057 ATP binding site [chemical binding]; other site 404589010058 Q-loop/lid; other site 404589010059 ABC transporter signature motif; other site 404589010060 Walker B; other site 404589010061 D-loop; other site 404589010062 H-loop/switch region; other site 404589010063 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589010064 Walker A/P-loop; other site 404589010065 ATP binding site [chemical binding]; other site 404589010066 Q-loop/lid; other site 404589010067 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 404589010068 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 404589010069 Peptidase family M23; Region: Peptidase_M23; pfam01551 404589010070 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 404589010071 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 404589010072 active site 404589010073 dimerization interface [polypeptide binding]; other site 404589010074 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 404589010075 putative active site [active] 404589010076 Zn binding site [ion binding]; other site 404589010077 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 404589010078 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 404589010079 catalytic residues [active] 404589010080 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 404589010081 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 404589010082 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 404589010083 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 404589010084 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 404589010085 Beta-lactamase; Region: Beta-lactamase; pfam00144 404589010086 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 404589010087 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 404589010088 dimer interface [polypeptide binding]; other site 404589010089 catalytic triad [active] 404589010090 acetyl-CoA synthetase; Provisional; Region: PRK00174 404589010091 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 404589010092 active site 404589010093 CoA binding site [chemical binding]; other site 404589010094 acyl-activating enzyme (AAE) consensus motif; other site 404589010095 AMP binding site [chemical binding]; other site 404589010096 acetate binding site [chemical binding]; other site 404589010097 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 404589010098 Domain of unknown function DUF20; Region: UPF0118; pfam01594 404589010099 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 404589010100 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 404589010101 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 404589010102 glutathione S-transferase; Provisional; Region: PRK15113 404589010103 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 404589010104 C-terminal domain interface [polypeptide binding]; other site 404589010105 GSH binding site (G-site) [chemical binding]; other site 404589010106 dimer interface [polypeptide binding]; other site 404589010107 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 404589010108 putative substrate binding pocket (H-site) [chemical binding]; other site 404589010109 N-terminal domain interface [polypeptide binding]; other site 404589010110 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 404589010111 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 404589010112 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589010113 dimer interface [polypeptide binding]; other site 404589010114 putative CheW interface [polypeptide binding]; other site 404589010115 Protein of unknown function, DUF481; Region: DUF481; pfam04338 404589010116 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 404589010117 ATP binding site [chemical binding]; other site 404589010118 putative Mg++ binding site [ion binding]; other site 404589010119 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 404589010120 nucleotide binding region [chemical binding]; other site 404589010121 ATP-binding site [chemical binding]; other site 404589010122 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 404589010123 Protein of unknown function, DUF488; Region: DUF488; pfam04343 404589010124 RF-1 domain; Region: RF-1; pfam00472 404589010125 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 404589010126 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 404589010127 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 404589010128 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 404589010129 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 404589010130 TPR motif; other site 404589010131 binding surface 404589010132 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 404589010133 TPR motif; other site 404589010134 binding surface 404589010135 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589010136 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 404589010137 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 404589010138 Protein of unknown function, DUF482; Region: DUF482; pfam04339 404589010139 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 404589010140 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 404589010141 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 404589010142 C-terminal domain interface [polypeptide binding]; other site 404589010143 GSH binding site (G-site) [chemical binding]; other site 404589010144 putative dimer interface [polypeptide binding]; other site 404589010145 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 404589010146 dimer interface [polypeptide binding]; other site 404589010147 N-terminal domain interface [polypeptide binding]; other site 404589010148 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 404589010149 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 404589010150 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 404589010151 dimer interface [polypeptide binding]; other site 404589010152 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 404589010153 active site 404589010154 Fe binding site [ion binding]; other site 404589010155 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 404589010156 alanine racemase; Reviewed; Region: alr; PRK00053 404589010157 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 404589010158 active site 404589010159 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 404589010160 dimer interface [polypeptide binding]; other site 404589010161 substrate binding site [chemical binding]; other site 404589010162 catalytic residues [active] 404589010163 FOG: CBS domain [General function prediction only]; Region: COG0517 404589010164 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_9; cd04622 404589010165 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589010166 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 404589010167 active site 404589010168 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 404589010169 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589010170 CoA binding domain; Region: CoA_binding_2; pfam13380 404589010171 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 404589010172 DEAD-like helicases superfamily; Region: DEXDc; smart00487 404589010173 ATP binding site [chemical binding]; other site 404589010174 Mg++ binding site [ion binding]; other site 404589010175 motif III; other site 404589010176 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 404589010177 nucleotide binding region [chemical binding]; other site 404589010178 ATP-binding site [chemical binding]; other site 404589010179 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 404589010180 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 404589010181 CotH protein; Region: CotH; pfam08757 404589010182 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 404589010183 dinuclear metal binding motif [ion binding]; other site 404589010184 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 404589010185 putative catalytic site [active] 404589010186 putative phosphate binding site [ion binding]; other site 404589010187 putative metal binding site [ion binding]; other site 404589010188 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 404589010189 Hemerythrin-like domain; Region: Hr-like; cd12108 404589010190 Fe binding site [ion binding]; other site 404589010191 Uncharacterized conserved protein [Function unknown]; Region: COG4850 404589010192 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 404589010193 Asparaginase; Region: Asparaginase; pfam00710 404589010194 active site 404589010195 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 404589010196 glutathione s-transferase; Provisional; Region: PTZ00057 404589010197 GSH binding site (G-site) [chemical binding]; other site 404589010198 C-terminal domain interface [polypeptide binding]; other site 404589010199 dimer interface [polypeptide binding]; other site 404589010200 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 404589010201 dimer interface [polypeptide binding]; other site 404589010202 N-terminal domain interface [polypeptide binding]; other site 404589010203 substrate binding pocket (H-site) [chemical binding]; other site 404589010204 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 404589010205 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 404589010206 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 404589010207 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 404589010208 TAP-like protein; Region: Abhydrolase_4; pfam08386 404589010209 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 404589010210 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 404589010211 hydrogenase 2 large subunit; Provisional; Region: PRK10467 404589010212 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 404589010213 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 404589010214 hydrogenase 2 small subunit; Provisional; Region: PRK10468 404589010215 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 404589010216 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 404589010217 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 404589010218 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589010219 ligand binding site [chemical binding]; other site 404589010220 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 404589010221 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 404589010222 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 404589010223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010224 active site 404589010225 phosphorylation site [posttranslational modification] 404589010226 intermolecular recognition site; other site 404589010227 dimerization interface [polypeptide binding]; other site 404589010228 CheB methylesterase; Region: CheB_methylest; pfam01339 404589010229 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 404589010230 putative binding surface; other site 404589010231 active site 404589010232 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589010233 ATP binding site [chemical binding]; other site 404589010234 Mg2+ binding site [ion binding]; other site 404589010235 G-X-G motif; other site 404589010236 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 404589010237 Response regulator receiver domain; Region: Response_reg; pfam00072 404589010238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010239 active site 404589010240 phosphorylation site [posttranslational modification] 404589010241 intermolecular recognition site; other site 404589010242 dimerization interface [polypeptide binding]; other site 404589010243 CheW-like domain; Region: CheW; pfam01584 404589010244 Response regulator receiver domain; Region: Response_reg; pfam00072 404589010245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010246 active site 404589010247 phosphorylation site [posttranslational modification] 404589010248 intermolecular recognition site; other site 404589010249 dimerization interface [polypeptide binding]; other site 404589010250 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589010251 dimer interface [polypeptide binding]; other site 404589010252 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 404589010253 putative CheW interface [polypeptide binding]; other site 404589010254 CheW-like domain; Region: CheW; pfam01584 404589010255 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 404589010256 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 404589010257 dimerization interface [polypeptide binding]; other site 404589010258 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 404589010259 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589010260 dimer interface [polypeptide binding]; other site 404589010261 putative CheW interface [polypeptide binding]; other site 404589010262 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589010263 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 404589010264 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589010265 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 404589010266 Walker A motif; other site 404589010267 ATP binding site [chemical binding]; other site 404589010268 Walker B motif; other site 404589010269 arginine finger; other site 404589010270 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 404589010271 TPR repeat; Region: TPR_11; pfam13414 404589010272 binding surface 404589010273 TPR motif; other site 404589010274 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 404589010275 TPR motif; other site 404589010276 binding surface 404589010277 TPR repeat; Region: TPR_11; pfam13414 404589010278 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 404589010279 active site 404589010280 catalytic triad [active] 404589010281 CARDB; Region: CARDB; pfam07705 404589010282 CARDB; Region: CARDB; pfam07705 404589010283 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 404589010284 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 404589010285 DNA binding site [nucleotide binding] 404589010286 active site 404589010287 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 404589010288 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 404589010289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 404589010290 AlkA N-terminal domain; Region: AlkA_N; pfam06029 404589010291 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 404589010292 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 404589010293 minor groove reading motif; other site 404589010294 helix-hairpin-helix signature motif; other site 404589010295 active site 404589010296 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 404589010297 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 404589010298 active site 404589010299 PHP Thumb interface [polypeptide binding]; other site 404589010300 metal binding site [ion binding]; metal-binding site 404589010301 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 404589010302 generic binding surface I; other site 404589010303 generic binding surface II; other site 404589010304 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589010305 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 404589010306 DNA binding residues [nucleotide binding] 404589010307 dimerization interface [polypeptide binding]; other site 404589010308 threonine dehydratase; Provisional; Region: PRK08198 404589010309 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 404589010310 tetramer interface [polypeptide binding]; other site 404589010311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589010312 catalytic residue [active] 404589010313 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 404589010314 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589010315 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589010316 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589010317 active site 404589010318 ATP binding site [chemical binding]; other site 404589010319 substrate binding site [chemical binding]; other site 404589010320 activation loop (A-loop); other site 404589010321 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 404589010322 FOG: WD40 repeat [General function prediction only]; Region: COG2319 404589010323 WD40 repeats; Region: WD40; smart00320 404589010324 WD40 repeats; Region: WD40; smart00320 404589010325 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 404589010326 structural tetrad; other site 404589010327 FOG: WD40 repeat [General function prediction only]; Region: COG2319 404589010328 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 404589010329 structural tetrad; other site 404589010330 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 404589010331 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 404589010332 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 404589010333 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589010334 catalytic residue [active] 404589010335 biotin synthase; Region: bioB; TIGR00433 404589010336 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 404589010337 FeS/SAM binding site; other site 404589010338 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 404589010339 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 404589010340 DNA repair protein RadA; Provisional; Region: PRK11823 404589010341 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 404589010342 Walker A motif; other site 404589010343 ATP binding site [chemical binding]; other site 404589010344 Walker B motif; other site 404589010345 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 404589010346 glycerol kinase; Provisional; Region: glpK; PRK00047 404589010347 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 404589010348 N- and C-terminal domain interface [polypeptide binding]; other site 404589010349 active site 404589010350 MgATP binding site [chemical binding]; other site 404589010351 catalytic site [active] 404589010352 metal binding site [ion binding]; metal-binding site 404589010353 glycerol binding site [chemical binding]; other site 404589010354 homotetramer interface [polypeptide binding]; other site 404589010355 homodimer interface [polypeptide binding]; other site 404589010356 FBP binding site [chemical binding]; other site 404589010357 protein IIAGlc interface [polypeptide binding]; other site 404589010358 Esterase/lipase [General function prediction only]; Region: COG1647 404589010359 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 404589010360 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 404589010361 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 404589010362 intersubunit interface [polypeptide binding]; other site 404589010363 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 404589010364 Helix-hairpin-helix motif; Region: HHH; pfam00633 404589010365 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 404589010366 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 404589010367 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 404589010368 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 404589010369 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 404589010370 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 404589010371 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 404589010372 intersubunit interface [polypeptide binding]; other site 404589010373 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 404589010374 dimer interface [polypeptide binding]; other site 404589010375 putative PBP binding regions; other site 404589010376 ABC-ATPase subunit interface; other site 404589010377 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 404589010378 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 404589010379 Walker A/P-loop; other site 404589010380 ATP binding site [chemical binding]; other site 404589010381 Q-loop/lid; other site 404589010382 ABC transporter signature motif; other site 404589010383 Walker B; other site 404589010384 D-loop; other site 404589010385 H-loop/switch region; other site 404589010386 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 404589010387 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 404589010388 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 404589010389 active site 404589010390 tetramer interface; other site 404589010391 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589010392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010393 active site 404589010394 phosphorylation site [posttranslational modification] 404589010395 intermolecular recognition site; other site 404589010396 dimerization interface [polypeptide binding]; other site 404589010397 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 404589010398 Walker A motif; other site 404589010399 ATP binding site [chemical binding]; other site 404589010400 Walker B motif; other site 404589010401 arginine finger; other site 404589010402 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 404589010403 Response regulator receiver domain; Region: Response_reg; pfam00072 404589010404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010405 active site 404589010406 phosphorylation site [posttranslational modification] 404589010407 intermolecular recognition site; other site 404589010408 dimerization interface [polypeptide binding]; other site 404589010409 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 404589010410 dimer interface [polypeptide binding]; other site 404589010411 phosphorylation site [posttranslational modification] 404589010412 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589010413 ATP binding site [chemical binding]; other site 404589010414 Mg2+ binding site [ion binding]; other site 404589010415 G-X-G motif; other site 404589010416 Response regulator receiver domain; Region: Response_reg; pfam00072 404589010417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010418 active site 404589010419 phosphorylation site [posttranslational modification] 404589010420 intermolecular recognition site; other site 404589010421 dimerization interface [polypeptide binding]; other site 404589010422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589010423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589010424 metal binding site [ion binding]; metal-binding site 404589010425 active site 404589010426 I-site; other site 404589010427 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 404589010428 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 404589010429 trimer interface [polypeptide binding]; other site 404589010430 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 404589010431 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 404589010432 pteridine reductase; Provisional; Region: PRK09135 404589010433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589010434 NAD(P) binding site [chemical binding]; other site 404589010435 active site 404589010436 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 404589010437 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 404589010438 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 404589010439 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 404589010440 NAD binding site [chemical binding]; other site 404589010441 homotetramer interface [polypeptide binding]; other site 404589010442 homodimer interface [polypeptide binding]; other site 404589010443 substrate binding site [chemical binding]; other site 404589010444 active site 404589010445 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 404589010446 TPR motif; other site 404589010447 Tetratricopeptide repeat; Region: TPR_12; pfam13424 404589010448 binding surface 404589010449 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 404589010450 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 404589010451 GTP binding site; other site 404589010452 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 404589010453 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 404589010454 [4Fe-4S] binding site [ion binding]; other site 404589010455 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 404589010456 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 404589010457 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 404589010458 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 404589010459 molybdopterin cofactor binding site; other site 404589010460 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 404589010461 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 404589010462 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 404589010463 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 404589010464 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 404589010465 camphor resistance protein CrcB; Provisional; Region: PRK14208 404589010466 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 404589010467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589010468 NAD(P) binding site [chemical binding]; other site 404589010469 active site 404589010470 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 404589010471 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 404589010472 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 404589010473 active site 404589010474 SAM binding site [chemical binding]; other site 404589010475 homodimer interface [polypeptide binding]; other site 404589010476 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 404589010477 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 404589010478 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 404589010479 threonine synthase; Validated; Region: PRK06260 404589010480 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 404589010481 homodimer interface [polypeptide binding]; other site 404589010482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589010483 catalytic residue [active] 404589010484 Molybdopterin converting factor, small subunit [Coenzyme metabolism]; Region: MoaD; COG1977 404589010485 charged pocket; other site 404589010486 hydrophobic patch; other site 404589010487 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 404589010488 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 404589010489 ATP binding site [chemical binding]; other site 404589010490 substrate interface [chemical binding]; other site 404589010491 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 404589010492 active site residue [active] 404589010493 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 404589010494 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 404589010495 dimer interface [polypeptide binding]; other site 404589010496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589010497 catalytic residue [active] 404589010498 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 404589010499 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 404589010500 dimer interface [polypeptide binding]; other site 404589010501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589010502 catalytic residue [active] 404589010503 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 404589010504 MPN+ (JAMM) motif; other site 404589010505 Zinc-binding site [ion binding]; other site 404589010506 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 404589010507 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 404589010508 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 404589010509 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 404589010510 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 404589010511 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 404589010512 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589010513 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 404589010514 S-adenosylmethionine binding site [chemical binding]; other site 404589010515 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 404589010516 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 404589010517 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 404589010518 active site 404589010519 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 404589010520 Putative zinc-finger; Region: zf-HC2; pfam13490 404589010521 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 404589010522 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589010523 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 404589010524 DNA binding residues [nucleotide binding] 404589010525 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 404589010526 mercuric reductase; Validated; Region: PRK06370 404589010527 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589010528 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 404589010529 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 404589010530 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589010531 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 404589010532 DNA binding residues [nucleotide binding] 404589010533 methionine sulfoxide reductase B; Provisional; Region: PRK00222 404589010534 SelR domain; Region: SelR; pfam01641 404589010535 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 404589010536 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 404589010537 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 404589010538 Moco binding site; other site 404589010539 metal coordination site [ion binding]; other site 404589010540 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 404589010541 Protein of unknown function, DUF417; Region: DUF417; cl01162 404589010542 Response regulator receiver domain; Region: Response_reg; pfam00072 404589010543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010544 active site 404589010545 phosphorylation site [posttranslational modification] 404589010546 intermolecular recognition site; other site 404589010547 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 404589010548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589010549 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 404589010550 dimer interface [polypeptide binding]; other site 404589010551 phosphorylation site [posttranslational modification] 404589010552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589010553 ATP binding site [chemical binding]; other site 404589010554 Mg2+ binding site [ion binding]; other site 404589010555 G-X-G motif; other site 404589010556 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 404589010557 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 404589010558 ligand binding site; other site 404589010559 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 404589010560 Nitrogen regulatory protein P-II; Region: P-II; smart00938 404589010561 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 404589010562 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 404589010563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589010564 Uncharacterized conserved protein [Function unknown]; Region: COG2353 404589010565 Uncharacterized conserved protein [Function unknown]; Region: COG2353 404589010566 Transcriptional regulator [Transcription]; Region: LysR; COG0583 404589010567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589010568 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 404589010569 putative effector binding pocket; other site 404589010570 dimerization interface [polypeptide binding]; other site 404589010571 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 404589010572 Low molecular weight phosphatase family; Region: LMWPc; cl00105 404589010573 active site 404589010574 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 404589010575 arsenical-resistance protein; Region: acr3; TIGR00832 404589010576 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 404589010577 putative DNA binding site [nucleotide binding]; other site 404589010578 putative Zn2+ binding site [ion binding]; other site 404589010579 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 404589010580 catalytic residues [active] 404589010581 Predicted permeases [General function prediction only]; Region: COG0701 404589010582 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 404589010583 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 404589010584 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 404589010585 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 404589010586 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 404589010587 cyclase homology domain; Region: CHD; cd07302 404589010588 nucleotidyl binding site; other site 404589010589 metal binding site [ion binding]; metal-binding site 404589010590 dimer interface [polypeptide binding]; other site 404589010591 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 404589010592 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589010593 active site 404589010594 metal binding site [ion binding]; metal-binding site 404589010595 homotetramer interface [polypeptide binding]; other site 404589010596 short chain dehydrogenase; Provisional; Region: PRK07041 404589010597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589010598 NAD(P) binding site [chemical binding]; other site 404589010599 active site 404589010600 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589010601 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589010602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 404589010603 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589010604 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 404589010605 putative effector binding pocket; other site 404589010606 putative dimerization interface [polypeptide binding]; other site 404589010607 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589010608 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589010609 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 404589010610 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 404589010611 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 404589010612 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589010613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 404589010614 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 404589010615 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 404589010616 putative hydrophobic ligand binding site [chemical binding]; other site 404589010617 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 404589010618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 404589010619 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 404589010620 dimerization interface [polypeptide binding]; other site 404589010621 GYD domain; Region: GYD; pfam08734 404589010622 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 404589010623 AAA ATPase domain; Region: AAA_16; pfam13191 404589010624 Predicted ATPase [General function prediction only]; Region: COG3903 404589010625 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589010626 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 404589010627 DNA binding residues [nucleotide binding] 404589010628 dimerization interface [polypeptide binding]; other site 404589010629 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 404589010630 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589010631 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 404589010632 catalytic triad [active] 404589010633 Helix-turn-helix domain; Region: HTH_31; pfam13560 404589010634 non-specific DNA binding site [nucleotide binding]; other site 404589010635 salt bridge; other site 404589010636 sequence-specific DNA binding site [nucleotide binding]; other site 404589010637 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 404589010638 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 404589010639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 404589010640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 404589010641 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 404589010642 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 404589010643 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 404589010644 Part of AAA domain; Region: AAA_19; pfam13245 404589010645 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 404589010646 AAA domain; Region: AAA_30; pfam13604 404589010647 AAA domain; Region: AAA_12; pfam13087 404589010648 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 404589010649 putative active site [active] 404589010650 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 404589010651 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 404589010652 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 404589010653 putative active site [active] 404589010654 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 404589010655 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 404589010656 binding surface 404589010657 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589010658 TPR motif; other site 404589010659 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 404589010660 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 404589010661 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 404589010662 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 404589010663 N-acetyl-D-glucosamine binding site [chemical binding]; other site 404589010664 catalytic residue [active] 404589010665 L-aspartate oxidase; Provisional; Region: PRK09077 404589010666 L-aspartate oxidase; Provisional; Region: PRK06175 404589010667 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 404589010668 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589010669 active site 404589010670 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 404589010671 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 404589010672 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 404589010673 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 404589010674 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589010675 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 404589010676 TPR motif; other site 404589010677 binding surface 404589010678 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 404589010679 DNA binding residues [nucleotide binding] 404589010680 nitrilase; Region: PLN02798 404589010681 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 404589010682 putative active site [active] 404589010683 catalytic triad [active] 404589010684 dimer interface [polypeptide binding]; other site 404589010685 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 404589010686 Interdomain contacts; other site 404589010687 Cytokine receptor motif; other site 404589010688 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 404589010689 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 404589010690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589010691 TIGR01777 family protein; Region: yfcH 404589010692 NAD(P) binding site [chemical binding]; other site 404589010693 active site 404589010694 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 404589010695 Peptidase family M50; Region: Peptidase_M50; pfam02163 404589010696 active site 404589010697 putative substrate binding region [chemical binding]; other site 404589010698 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 404589010699 Glycoprotease family; Region: Peptidase_M22; pfam00814 404589010700 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 404589010701 active site 404589010702 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 404589010703 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 404589010704 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 404589010705 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 404589010706 putative substrate binding region [chemical binding]; other site 404589010707 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 404589010708 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 404589010709 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 404589010710 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 404589010711 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 404589010712 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 404589010713 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 404589010714 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 404589010715 catalytic residue [active] 404589010716 putative FPP diphosphate binding site; other site 404589010717 putative FPP binding hydrophobic cleft; other site 404589010718 dimer interface [polypeptide binding]; other site 404589010719 putative IPP diphosphate binding site; other site 404589010720 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589010721 active site 404589010722 ATP binding site [chemical binding]; other site 404589010723 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589010724 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 404589010725 substrate binding site [chemical binding]; other site 404589010726 activation loop (A-loop); other site 404589010727 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 404589010728 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 404589010729 Walker A motif; other site 404589010730 ATP binding site [chemical binding]; other site 404589010731 Walker B motif; other site 404589010732 arginine finger; other site 404589010733 aspartate kinase; Reviewed; Region: PRK06635 404589010734 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 404589010735 putative nucleotide binding site [chemical binding]; other site 404589010736 putative catalytic residues [active] 404589010737 putative Mg ion binding site [ion binding]; other site 404589010738 putative aspartate binding site [chemical binding]; other site 404589010739 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 404589010740 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 404589010741 oligomerisation interface [polypeptide binding]; other site 404589010742 mobile loop; other site 404589010743 roof hairpin; other site 404589010744 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 404589010745 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 404589010746 ring oligomerisation interface [polypeptide binding]; other site 404589010747 ATP/Mg binding site [chemical binding]; other site 404589010748 stacking interactions; other site 404589010749 hinge regions; other site 404589010750 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 404589010751 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 404589010752 TPR motif; other site 404589010753 binding surface 404589010754 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 404589010755 CoenzymeA binding site [chemical binding]; other site 404589010756 subunit interaction site [polypeptide binding]; other site 404589010757 PHB binding site; other site 404589010758 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 404589010759 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 404589010760 PLD-like domain; Region: PLDc_2; pfam13091 404589010761 putative active site [active] 404589010762 catalytic site [active] 404589010763 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 404589010764 PLD-like domain; Region: PLDc_2; pfam13091 404589010765 putative active site [active] 404589010766 catalytic site [active] 404589010767 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 404589010768 CoA binding domain; Region: CoA_binding; smart00881 404589010769 CoA-ligase; Region: Ligase_CoA; pfam00549 404589010770 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 404589010771 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 404589010772 CoA-ligase; Region: Ligase_CoA; pfam00549 404589010773 Propionate catabolism activator; Region: PrpR_N; pfam06506 404589010774 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 404589010775 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 404589010776 Walker A motif; other site 404589010777 ATP binding site [chemical binding]; other site 404589010778 Walker B motif; other site 404589010779 arginine finger; other site 404589010780 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589010781 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589010782 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 404589010783 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 404589010784 ligand binding site [chemical binding]; other site 404589010785 flexible hinge region; other site 404589010786 HEAT repeats; Region: HEAT_2; pfam13646 404589010787 TLC ATP/ADP transporter; Region: TLC; cl03940 404589010788 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589010789 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589010790 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 404589010791 putative NAD(P) binding site [chemical binding]; other site 404589010792 putative substrate binding site [chemical binding]; other site 404589010793 catalytic Zn binding site [ion binding]; other site 404589010794 structural Zn binding site [ion binding]; other site 404589010795 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 404589010796 LrgB-like family; Region: LrgB; pfam04172 404589010797 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 404589010798 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 404589010799 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 404589010800 minor groove reading motif; other site 404589010801 helix-hairpin-helix signature motif; other site 404589010802 substrate binding pocket [chemical binding]; other site 404589010803 active site 404589010804 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 404589010805 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 404589010806 active site 404589010807 SUMO-1 interface [polypeptide binding]; other site 404589010808 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 404589010809 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 404589010810 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589010811 catalytic residue [active] 404589010812 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 404589010813 Peptidase family M23; Region: Peptidase_M23; pfam01551 404589010814 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 404589010815 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 404589010816 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 404589010817 tetramer interfaces [polypeptide binding]; other site 404589010818 binuclear metal-binding site [ion binding]; other site 404589010819 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 404589010820 competence damage-inducible protein A; Provisional; Region: PRK00549 404589010821 putative MPT binding site; other site 404589010822 Competence-damaged protein; Region: CinA; pfam02464 404589010823 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 404589010824 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 404589010825 Surface antigen; Region: Bac_surface_Ag; pfam01103 404589010826 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 404589010827 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 404589010828 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 404589010829 recombinase A; Provisional; Region: recA; PRK09354 404589010830 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 404589010831 hexamer interface [polypeptide binding]; other site 404589010832 Walker A motif; other site 404589010833 ATP binding site [chemical binding]; other site 404589010834 Walker B motif; other site 404589010835 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 404589010836 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 404589010837 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 404589010838 Walker A motif; other site 404589010839 ATP binding site [chemical binding]; other site 404589010840 Walker B motif; other site 404589010841 arginine finger; other site 404589010842 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 404589010843 HTH domain; Region: HTH_11; cl17392 404589010844 WYL domain; Region: WYL; pfam13280 404589010845 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 404589010846 RibD C-terminal domain; Region: RibD_C; cl17279 404589010847 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 404589010848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589010849 NAD(P) binding site [chemical binding]; other site 404589010850 active site 404589010851 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 404589010852 ligand binding site [chemical binding]; other site 404589010853 active site 404589010854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 404589010855 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 404589010856 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 404589010857 G1 box; other site 404589010858 GTP/Mg2+ binding site [chemical binding]; other site 404589010859 G2 box; other site 404589010860 Switch I region; other site 404589010861 G3 box; other site 404589010862 Switch II region; other site 404589010863 G4 box; other site 404589010864 G5 box; other site 404589010865 Roadblock/LC7 domain; Region: Robl_LC7; pfam03259 404589010866 recombination protein RecR; Reviewed; Region: recR; PRK00076 404589010867 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 404589010868 RecR protein; Region: RecR; pfam02132 404589010869 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 404589010870 putative active site [active] 404589010871 putative metal-binding site [ion binding]; other site 404589010872 tetramer interface [polypeptide binding]; other site 404589010873 hypothetical protein; Provisional; Region: PRK14622 404589010874 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 404589010875 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 404589010876 Walker A motif; other site 404589010877 ATP binding site [chemical binding]; other site 404589010878 Walker B motif; other site 404589010879 arginine finger; other site 404589010880 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 404589010881 nucleoside/Zn binding site; other site 404589010882 dimer interface [polypeptide binding]; other site 404589010883 catalytic motif [active] 404589010884 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 404589010885 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 404589010886 B12 binding site [chemical binding]; other site 404589010887 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 404589010888 FeS/SAM binding site; other site 404589010889 Thioredoxin; Region: Thioredoxin_4; pfam13462 404589010890 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 404589010891 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589010892 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 404589010893 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 404589010894 Permutation of conserved domain; other site 404589010895 active site 404589010896 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 404589010897 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 404589010898 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 404589010899 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 404589010900 ligand binding site [chemical binding]; other site 404589010901 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 404589010902 Right handed beta helix region; Region: Beta_helix; pfam13229 404589010903 TPR repeat; Region: TPR_11; pfam13414 404589010904 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 404589010905 binding surface 404589010906 TPR motif; other site 404589010907 PEGA domain; Region: PEGA; pfam08308 404589010908 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589010909 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589010910 active site 404589010911 ATP binding site [chemical binding]; other site 404589010912 substrate binding site [chemical binding]; other site 404589010913 activation loop (A-loop); other site 404589010914 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 404589010915 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589010916 phosphopeptide binding site; other site 404589010917 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 404589010918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 404589010919 active site 404589010920 dimerization interface [polypeptide binding]; other site 404589010921 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 404589010922 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589010923 Walker A motif; other site 404589010924 ATP binding site [chemical binding]; other site 404589010925 Walker B motif; other site 404589010926 arginine finger; other site 404589010927 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 404589010928 DNA binding residues [nucleotide binding] 404589010929 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 404589010930 active site 404589010931 phosphorylation site [posttranslational modification] 404589010932 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589010933 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589010934 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 404589010935 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 404589010936 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589010937 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 404589010938 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 404589010939 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 404589010940 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 404589010941 4Fe-4S binding domain; Region: Fer4; pfam00037 404589010942 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 404589010943 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 404589010944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589010945 Coenzyme A binding pocket [chemical binding]; other site 404589010946 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 404589010947 S-adenosylmethionine binding site [chemical binding]; other site 404589010948 PspC domain; Region: PspC; pfam04024 404589010949 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589010950 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 404589010951 active site 404589010952 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 404589010953 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 404589010954 active site 404589010955 aconitate hydratase; Validated; Region: PRK09277 404589010956 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 404589010957 substrate binding site [chemical binding]; other site 404589010958 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 404589010959 ligand binding site [chemical binding]; other site 404589010960 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 404589010961 substrate binding site [chemical binding]; other site 404589010962 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589010963 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 404589010964 dimer interface [polypeptide binding]; other site 404589010965 phosphorylation site [posttranslational modification] 404589010966 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589010967 ATP binding site [chemical binding]; other site 404589010968 Mg2+ binding site [ion binding]; other site 404589010969 G-X-G motif; other site 404589010970 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589010971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589010972 active site 404589010973 phosphorylation site [posttranslational modification] 404589010974 intermolecular recognition site; other site 404589010975 dimerization interface [polypeptide binding]; other site 404589010976 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 404589010977 type I citrate synthase; Reviewed; Region: PRK09569 404589010978 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 404589010979 oxalacetate binding site [chemical binding]; other site 404589010980 citrylCoA binding site [chemical binding]; other site 404589010981 coenzyme A binding site [chemical binding]; other site 404589010982 catalytic triad [active] 404589010983 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 404589010984 Peptidase family M23; Region: Peptidase_M23; pfam01551 404589010985 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 404589010986 RNA binding site [nucleotide binding]; other site 404589010987 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 404589010988 RNA binding site [nucleotide binding]; other site 404589010989 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 404589010990 RNA binding site [nucleotide binding]; other site 404589010991 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 404589010992 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 404589010993 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 404589010994 catalytic site [active] 404589010995 active site 404589010996 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 404589010997 active site 404589010998 substrate-binding site [chemical binding]; other site 404589010999 metal-binding site [ion binding] 404589011000 GTP binding site [chemical binding]; other site 404589011001 NRDE protein; Region: NRDE; cl01315 404589011002 Protein of unknown function (DUF971); Region: DUF971; pfam06155 404589011003 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 404589011004 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 404589011005 SmpB-tmRNA interface; other site 404589011006 Pantoate-beta-alanine ligase; Region: PanC; cd00560 404589011007 pantoate--beta-alanine ligase; Region: panC; TIGR00018 404589011008 active site 404589011009 ATP-binding site [chemical binding]; other site 404589011010 pantoate-binding site; other site 404589011011 HXXH motif; other site 404589011012 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 404589011013 oligomerization interface [polypeptide binding]; other site 404589011014 active site 404589011015 metal binding site [ion binding]; metal-binding site 404589011016 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 404589011017 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 404589011018 Substrate-binding site [chemical binding]; other site 404589011019 Substrate specificity [chemical binding]; other site 404589011020 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 404589011021 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 404589011022 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 404589011023 UGMP family protein; Validated; Region: PRK09604 404589011024 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 404589011025 Response regulator receiver domain; Region: Response_reg; pfam00072 404589011026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589011027 active site 404589011028 phosphorylation site [posttranslational modification] 404589011029 intermolecular recognition site; other site 404589011030 dimerization interface [polypeptide binding]; other site 404589011031 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589011032 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 404589011033 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 404589011034 HSP70 interaction site [polypeptide binding]; other site 404589011035 Protein phosphatase 2C; Region: PP2C; pfam00481 404589011036 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 404589011037 active site 404589011038 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 404589011039 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 404589011040 Substrate binding site; other site 404589011041 metal-binding site 404589011042 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 404589011043 MFS_1 like family; Region: MFS_1_like; pfam12832 404589011044 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 404589011045 BON domain; Region: BON; pfam04972 404589011046 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 404589011047 active site 404589011048 catalytic site [active] 404589011049 substrate binding site [chemical binding]; other site 404589011050 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 404589011051 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 404589011052 ligand binding site [chemical binding]; other site 404589011053 flexible hinge region; other site 404589011054 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 404589011055 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589011056 metal binding triad; other site 404589011057 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 404589011058 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 404589011059 ligand binding site [chemical binding]; other site 404589011060 flexible hinge region; other site 404589011061 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 404589011062 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589011063 metal binding triad; other site 404589011064 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 404589011065 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589011066 metal binding triad; other site 404589011067 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 404589011068 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 404589011069 Ligand Binding Site [chemical binding]; other site 404589011070 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 404589011071 Ligand Binding Site [chemical binding]; other site 404589011072 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 404589011073 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 404589011074 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 404589011075 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 404589011076 Na binding site [ion binding]; other site 404589011077 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 404589011078 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 404589011079 Protein of unknown function, DUF485; Region: DUF485; pfam04341 404589011080 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 404589011081 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 404589011082 Na binding site [ion binding]; other site 404589011083 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 404589011084 dimerization interface [polypeptide binding]; other site 404589011085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589011086 dimer interface [polypeptide binding]; other site 404589011087 putative CheW interface [polypeptide binding]; other site 404589011088 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 404589011089 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589011090 active site 404589011091 metal binding site [ion binding]; metal-binding site 404589011092 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 404589011093 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 404589011094 active site 404589011095 FMN binding site [chemical binding]; other site 404589011096 substrate binding site [chemical binding]; other site 404589011097 homotetramer interface [polypeptide binding]; other site 404589011098 catalytic residue [active] 404589011099 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 404589011100 Zn binding site [ion binding]; other site 404589011101 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 404589011102 putative substrate translocation pore; other site 404589011103 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 404589011104 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 404589011105 homodimer interface [polypeptide binding]; other site 404589011106 substrate-cofactor binding pocket; other site 404589011107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589011108 catalytic residue [active] 404589011109 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 404589011110 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 404589011111 dimer interface [polypeptide binding]; other site 404589011112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589011113 catalytic residue [active] 404589011114 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 404589011115 Phosphotransferase enzyme family; Region: APH; pfam01636 404589011116 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 404589011117 active site 404589011118 ATP binding site [chemical binding]; other site 404589011119 substrate binding site [chemical binding]; other site 404589011120 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 404589011121 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 404589011122 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589011123 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 404589011124 active site 404589011125 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 404589011126 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 404589011127 putative RNA binding site [nucleotide binding]; other site 404589011128 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 404589011129 S-adenosylmethionine binding site [chemical binding]; other site 404589011130 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 404589011131 ligand binding site [chemical binding]; other site 404589011132 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 404589011133 active site 404589011134 PAS domain S-box; Region: sensory_box; TIGR00229 404589011135 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 404589011136 putative active site [active] 404589011137 heme pocket [chemical binding]; other site 404589011138 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 404589011139 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589011140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589011141 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 404589011142 dimer interface [polypeptide binding]; other site 404589011143 phosphorylation site [posttranslational modification] 404589011144 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589011145 ATP binding site [chemical binding]; other site 404589011146 Mg2+ binding site [ion binding]; other site 404589011147 G-X-G motif; other site 404589011148 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 404589011149 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 404589011150 motif 1; other site 404589011151 dimer interface [polypeptide binding]; other site 404589011152 active site 404589011153 motif 2; other site 404589011154 motif 3; other site 404589011155 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 404589011156 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 404589011157 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 404589011158 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 404589011159 PAS domain; Region: PAS_9; pfam13426 404589011160 putative active site [active] 404589011161 heme pocket [chemical binding]; other site 404589011162 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589011163 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589011164 active site 404589011165 ATP binding site [chemical binding]; other site 404589011166 substrate binding site [chemical binding]; other site 404589011167 activation loop (A-loop); other site 404589011168 PEGA domain; Region: PEGA; pfam08308 404589011169 PEGA domain; Region: PEGA; pfam08308 404589011170 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 404589011171 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589011172 phosphopeptide binding site; other site 404589011173 enoyl-CoA hydratase; Provisional; Region: PRK06127 404589011174 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 404589011175 substrate binding site [chemical binding]; other site 404589011176 oxyanion hole (OAH) forming residues; other site 404589011177 trimer interface [polypeptide binding]; other site 404589011178 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 404589011179 carboxyltransferase (CT) interaction site; other site 404589011180 biotinylation site [posttranslational modification]; other site 404589011181 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589011182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589011183 active site 404589011184 phosphorylation site [posttranslational modification] 404589011185 intermolecular recognition site; other site 404589011186 dimerization interface [polypeptide binding]; other site 404589011187 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 404589011188 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 404589011189 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 404589011190 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 404589011191 Soluble P-type ATPase [General function prediction only]; Region: COG4087 404589011192 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 404589011193 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 404589011194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589011195 NAD(P) binding site [chemical binding]; other site 404589011196 active site 404589011197 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 404589011198 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 404589011199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589011200 catalytic residue [active] 404589011201 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 404589011202 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 404589011203 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 404589011204 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 404589011205 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 404589011206 putative PBP binding loops; other site 404589011207 dimer interface [polypeptide binding]; other site 404589011208 ABC-ATPase subunit interface; other site 404589011209 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 404589011210 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 404589011211 Walker A/P-loop; other site 404589011212 ATP binding site [chemical binding]; other site 404589011213 Q-loop/lid; other site 404589011214 ABC transporter signature motif; other site 404589011215 Walker B; other site 404589011216 D-loop; other site 404589011217 H-loop/switch region; other site 404589011218 Transposase IS200 like; Region: Y1_Tnp; cl00848 404589011219 short chain dehydrogenase; Provisional; Region: PRK08278 404589011220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589011221 NAD(P) binding site [chemical binding]; other site 404589011222 active site 404589011223 cell division protein MraZ; Reviewed; Region: PRK00326 404589011224 MraZ protein; Region: MraZ; pfam02381 404589011225 MraZ protein; Region: MraZ; pfam02381 404589011226 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 404589011227 MraW methylase family; Region: Methyltransf_5; cl17771 404589011228 Cell division protein FtsL; Region: FtsL; cl11433 404589011229 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 404589011230 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 404589011231 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 404589011232 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 404589011233 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 404589011234 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 404589011235 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 404589011236 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 404589011237 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 404589011238 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 404589011239 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 404589011240 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 404589011241 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 404589011242 Mg++ binding site [ion binding]; other site 404589011243 putative catalytic motif [active] 404589011244 putative substrate binding site [chemical binding]; other site 404589011245 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 404589011246 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 404589011247 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 404589011248 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 404589011249 cell division protein FtsW; Region: ftsW; TIGR02614 404589011250 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 404589011251 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 404589011252 active site 404589011253 homodimer interface [polypeptide binding]; other site 404589011254 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 404589011255 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 404589011256 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 404589011257 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 404589011258 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: PRK14652 404589011259 FAD binding domain; Region: FAD_binding_4; pfam01565 404589011260 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 404589011261 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 404589011262 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 404589011263 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589011264 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 404589011265 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 404589011266 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 404589011267 Multicopper oxidase; Region: Cu-oxidase; pfam00394 404589011268 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 404589011269 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 404589011270 Cell division protein FtsQ; Region: FtsQ; pfam03799 404589011271 cell division protein FtsA; Region: ftsA; TIGR01174 404589011272 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 404589011273 nucleotide binding site [chemical binding]; other site 404589011274 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 404589011275 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 404589011276 Cell division protein FtsA; Region: FtsA; pfam14450 404589011277 cell division protein FtsZ; Validated; Region: PRK09330 404589011278 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 404589011279 nucleotide binding site [chemical binding]; other site 404589011280 SulA interaction site; other site 404589011281 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 404589011282 Zn2+ binding site [ion binding]; other site 404589011283 Mg2+ binding site [ion binding]; other site 404589011284 Hemerythrin; Region: Hemerythrin; cd12107 404589011285 Fe binding site [ion binding]; other site 404589011286 Putative esterase; Region: Esterase; pfam00756 404589011287 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 404589011288 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 404589011289 motif 1; other site 404589011290 active site 404589011291 motif 2; other site 404589011292 motif 3; other site 404589011293 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 404589011294 DHHA1 domain; Region: DHHA1; pfam02272 404589011295 Putative methyltransferase; Region: Methyltransf_4; cl17290 404589011296 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 404589011297 N-acetyl-D-glucosamine binding site [chemical binding]; other site 404589011298 catalytic residue [active] 404589011299 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 404589011300 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 404589011301 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 404589011302 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 404589011303 FMN binding site [chemical binding]; other site 404589011304 active site 404589011305 catalytic residues [active] 404589011306 substrate binding site [chemical binding]; other site 404589011307 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 404589011308 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 404589011309 ZIP Zinc transporter; Region: Zip; pfam02535 404589011310 PAS fold; Region: PAS_4; pfam08448 404589011311 GAF domain; Region: GAF; pfam01590 404589011312 GAF domain; Region: GAF_2; pfam13185 404589011313 GAF domain; Region: GAF; pfam01590 404589011314 GAF domain; Region: GAF_2; pfam13185 404589011315 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 404589011316 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 404589011317 dimer interface [polypeptide binding]; other site 404589011318 phosphorylation site [posttranslational modification] 404589011319 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589011320 ATP binding site [chemical binding]; other site 404589011321 Mg2+ binding site [ion binding]; other site 404589011322 G-X-G motif; other site 404589011323 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 404589011324 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 404589011325 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 404589011326 DNA binding residues [nucleotide binding] 404589011327 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 404589011328 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 404589011329 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 404589011330 protein binding site [polypeptide binding]; other site 404589011331 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 404589011332 Catalytic dyad [active] 404589011333 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 404589011334 Ligand Binding Site [chemical binding]; other site 404589011335 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 404589011336 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 404589011337 metal binding site 2 [ion binding]; metal-binding site 404589011338 putative DNA binding helix; other site 404589011339 metal binding site 1 [ion binding]; metal-binding site 404589011340 dimer interface [polypeptide binding]; other site 404589011341 structural Zn2+ binding site [ion binding]; other site 404589011342 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 404589011343 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 404589011344 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 404589011345 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 404589011346 dimer interface [polypeptide binding]; other site 404589011347 ssDNA binding site [nucleotide binding]; other site 404589011348 tetramer (dimer of dimers) interface [polypeptide binding]; other site 404589011349 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589011350 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 404589011351 S-adenosylmethionine binding site [chemical binding]; other site 404589011352 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589011353 Methyltransferase domain; Region: Methyltransf_12; pfam08242 404589011354 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 404589011355 hydrophobic ligand binding site; other site 404589011356 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 404589011357 binding surface 404589011358 TPR motif; other site 404589011359 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589011360 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589011361 Predicted transcriptional regulator [Transcription]; Region: COG1959 404589011362 Transcriptional regulator; Region: Rrf2; pfam02082 404589011363 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 404589011364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589011365 NAD(P) binding site [chemical binding]; other site 404589011366 active site 404589011367 hypothetical protein; Reviewed; Region: PRK00024 404589011368 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 404589011369 MPN+ (JAMM) motif; other site 404589011370 Zinc-binding site [ion binding]; other site 404589011371 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589011372 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 404589011373 hypothetical protein; Reviewed; Region: PRK00024 404589011374 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 404589011375 MPN+ (JAMM) motif; other site 404589011376 Zinc-binding site [ion binding]; other site 404589011377 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 404589011378 Uncharacterized conserved protein [Function unknown]; Region: COG2353 404589011379 succinyl-diaminopimelate desuccinylase; Region: dapE-gram_pos; TIGR01900 404589011380 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 404589011381 metal binding site [ion binding]; metal-binding site 404589011382 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 404589011383 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 404589011384 trimer interface [polypeptide binding]; other site 404589011385 active site 404589011386 substrate binding site [chemical binding]; other site 404589011387 CoA binding site [chemical binding]; other site 404589011388 succinyldiaminopimelate transaminase; Region: DapC; TIGR03537 404589011389 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 404589011390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589011391 homodimer interface [polypeptide binding]; other site 404589011392 catalytic residue [active] 404589011393 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 404589011394 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 404589011395 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 404589011396 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 404589011397 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 404589011398 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 404589011399 Magnesium ion binding site [ion binding]; other site 404589011400 HEAT repeats; Region: HEAT_2; pfam13646 404589011401 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 404589011402 Major Facilitator Superfamily; Region: MFS_1; pfam07690 404589011403 putative substrate translocation pore; other site 404589011404 FOG: CBS domain [General function prediction only]; Region: COG0517 404589011405 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 404589011406 Transporter associated domain; Region: CorC_HlyC; smart01091 404589011407 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 404589011408 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 404589011409 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 404589011410 putative active site [active] 404589011411 catalytic triad [active] 404589011412 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 404589011413 Response regulator receiver domain; Region: Response_reg; pfam00072 404589011414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589011415 active site 404589011416 phosphorylation site [posttranslational modification] 404589011417 intermolecular recognition site; other site 404589011418 dimerization interface [polypeptide binding]; other site 404589011419 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 404589011420 protease TldD; Provisional; Region: tldD; PRK10735 404589011421 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589011422 BtpA family; Region: BtpA; cl00440 404589011423 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 404589011424 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 404589011425 TPR repeat; Region: TPR_11; pfam13414 404589011426 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 404589011427 binding surface 404589011428 TPR motif; other site 404589011429 TPR repeat; Region: TPR_11; pfam13414 404589011430 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 404589011431 TPR motif; other site 404589011432 binding surface 404589011433 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 404589011434 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 404589011435 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 404589011436 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 404589011437 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 404589011438 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 404589011439 ATP binding site [chemical binding]; other site 404589011440 Walker A motif; other site 404589011441 hexamer interface [polypeptide binding]; other site 404589011442 Walker B motif; other site 404589011443 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 404589011444 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 404589011445 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 404589011446 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 404589011447 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 404589011448 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 404589011449 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 404589011450 TadE-like protein; Region: TadE; pfam07811 404589011451 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 404589011452 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 404589011453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589011454 NAD(P) binding site [chemical binding]; other site 404589011455 active site 404589011456 Putative zinc-finger; Region: zf-HC2; pfam13490 404589011457 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589011458 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589011459 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 404589011460 DNA binding residues [nucleotide binding] 404589011461 seryl-tRNA synthetase; Provisional; Region: PRK05431 404589011462 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 404589011463 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 404589011464 dimer interface [polypeptide binding]; other site 404589011465 active site 404589011466 motif 1; other site 404589011467 motif 2; other site 404589011468 motif 3; other site 404589011469 Bacterial Ig-like domain; Region: Big_5; pfam13205 404589011470 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 404589011471 active site 404589011472 DNA binding site [nucleotide binding] 404589011473 Int/Topo IB signature motif; other site 404589011474 Helix-turn-helix domain; Region: HTH_17; pfam12728 404589011475 EVE domain; Region: EVE; cl00728 404589011476 HNH endonuclease; Region: HNH_2; pfam13391 404589011477 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 404589011478 nucleotide binding site/active site [active] 404589011479 HIT family signature motif; other site 404589011480 catalytic residue [active] 404589011481 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 404589011482 PLD-like domain; Region: PLDc_2; pfam13091 404589011483 putative homodimer interface [polypeptide binding]; other site 404589011484 putative active site [active] 404589011485 catalytic site [active] 404589011486 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 404589011487 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 404589011488 ATP binding site [chemical binding]; other site 404589011489 putative Mg++ binding site [ion binding]; other site 404589011490 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 404589011491 nucleotide binding region [chemical binding]; other site 404589011492 ATP-binding site [chemical binding]; other site 404589011493 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 404589011494 Catalytic site [active] 404589011495 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 404589011496 Protein of unknown function (DUF499); Region: DUF499; pfam04465 404589011497 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 404589011498 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 404589011499 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 404589011500 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 404589011501 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 404589011502 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 404589011503 DEAD-like helicases superfamily; Region: DEXDc; smart00487 404589011504 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 404589011505 ATP binding site [chemical binding]; other site 404589011506 putative Mg++ binding site [ion binding]; other site 404589011507 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 404589011508 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 404589011509 nucleotide binding region [chemical binding]; other site 404589011510 ATP-binding site [chemical binding]; other site 404589011511 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 404589011512 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 404589011513 putative homodimer interface [polypeptide binding]; other site 404589011514 putative active site [active] 404589011515 catalytic site [active] 404589011516 DEAD-like helicases superfamily; Region: DEXDc; smart00487 404589011517 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 404589011518 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 404589011519 nucleotide binding site/active site [active] 404589011520 HIT family signature motif; other site 404589011521 catalytic residue [active] 404589011522 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 404589011523 PLD-like domain; Region: PLDc_2; pfam13091 404589011524 putative homodimer interface [polypeptide binding]; other site 404589011525 putative active site [active] 404589011526 catalytic site [active] 404589011527 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 404589011528 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 404589011529 ATP binding site [chemical binding]; other site 404589011530 putative Mg++ binding site [ion binding]; other site 404589011531 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 404589011532 nucleotide binding region [chemical binding]; other site 404589011533 ATP-binding site [chemical binding]; other site 404589011534 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 404589011535 Catalytic site [active] 404589011536 Protein of unknown function (DUF429); Region: DUF429; pfam04250 404589011537 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 404589011538 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 404589011539 Ligand Binding Site [chemical binding]; other site 404589011540 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 404589011541 minor groove reading motif; other site 404589011542 helix-hairpin-helix signature motif; other site 404589011543 substrate binding pocket [chemical binding]; other site 404589011544 active site 404589011545 TIR domain; Region: TIR_2; pfam13676 404589011546 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 404589011547 TIR domain; Region: TIR_2; pfam13676 404589011548 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 404589011549 putative active site [active] 404589011550 putative metal binding site [ion binding]; other site 404589011551 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 404589011552 TIR domain; Region: TIR_2; pfam13676 404589011553 Transposase, Mutator family; Region: Transposase_mut; pfam00872 404589011554 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 404589011555 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 404589011556 Family description; Region: UvrD_C_2; pfam13538 404589011557 Predicted transcriptional regulator [Transcription]; Region: COG2378 404589011558 WYL domain; Region: WYL; pfam13280 404589011559 WYL domain; Region: WYL; pfam13280 404589011560 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 404589011561 active site 404589011562 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 404589011563 HD domain; Region: HD_4; pfam13328 404589011564 SEC-C motif; Region: SEC-C; pfam02810 404589011565 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 404589011566 Putative glucoamylase; Region: Glycoamylase; pfam10091 404589011567 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 404589011568 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 404589011569 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 404589011570 helicase-primase primase subunit; Provisional; Region: PHA03140 404589011571 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 404589011572 active site 404589011573 catalytic site [active] 404589011574 substrate binding site [chemical binding]; other site 404589011575 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 404589011576 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 404589011577 ligand binding site [chemical binding]; other site 404589011578 flexible hinge region; other site 404589011579 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 404589011580 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 404589011581 metal binding triad; other site 404589011582 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 404589011583 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 404589011584 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 404589011585 dimerization interface [polypeptide binding]; other site 404589011586 PAS fold; Region: PAS_4; pfam08448 404589011587 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 404589011588 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 404589011589 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 404589011590 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 404589011591 nucleotide binding site [chemical binding]; other site 404589011592 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 404589011593 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589011594 RNA polymerase factor sigma-70; Validated; Region: PRK08241 404589011595 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589011596 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 404589011597 DNA binding residues [nucleotide binding] 404589011598 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 404589011599 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 404589011600 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 404589011601 active site 404589011602 DNA binding site [nucleotide binding] 404589011603 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 404589011604 DNA binding site [nucleotide binding] 404589011605 Methyltransferase domain; Region: Methyltransf_23; pfam13489 404589011606 Methyltransferase domain; Region: Methyltransf_12; pfam08242 404589011607 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 404589011608 catalytic residues [active] 404589011609 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 404589011610 DNA-binding site [nucleotide binding]; DNA binding site 404589011611 RNA-binding motif; other site 404589011612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 404589011613 FIST N domain; Region: FIST; pfam08495 404589011614 FIST C domain; Region: FIST_C; pfam10442 404589011615 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 404589011616 PLD-like domain; Region: PLDc_2; pfam13091 404589011617 putative active site [active] 404589011618 catalytic site [active] 404589011619 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 404589011620 PLD-like domain; Region: PLDc_2; pfam13091 404589011621 putative active site [active] 404589011622 catalytic site [active] 404589011623 UreD urease accessory protein; Region: UreD; pfam01774 404589011624 bifunctional urease subunit gamma/beta; Reviewed; Region: PRK13192 404589011625 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 404589011626 alpha-gamma subunit interface [polypeptide binding]; other site 404589011627 beta-gamma subunit interface [polypeptide binding]; other site 404589011628 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 404589011629 alpha-beta subunit interface [polypeptide binding]; other site 404589011630 urease subunit alpha; Reviewed; Region: ureC; PRK13207 404589011631 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 404589011632 subunit interactions [polypeptide binding]; other site 404589011633 active site 404589011634 flap region; other site 404589011635 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 404589011636 UreF; Region: UreF; pfam01730 404589011637 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 404589011638 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 404589011639 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 404589011640 putative dimer interface [polypeptide binding]; other site 404589011641 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 404589011642 Sensory domain found in PocR; Region: PocR; pfam10114 404589011643 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 404589011644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589011645 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 404589011646 dimer interface [polypeptide binding]; other site 404589011647 phosphorylation site [posttranslational modification] 404589011648 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589011649 ATP binding site [chemical binding]; other site 404589011650 Mg2+ binding site [ion binding]; other site 404589011651 G-X-G motif; other site 404589011652 Response regulator receiver domain; Region: Response_reg; pfam00072 404589011653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589011654 active site 404589011655 phosphorylation site [posttranslational modification] 404589011656 intermolecular recognition site; other site 404589011657 dimerization interface [polypeptide binding]; other site 404589011658 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 404589011659 SNF2 Helicase protein; Region: DUF3670; pfam12419 404589011660 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 404589011661 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 404589011662 putative Mg++ binding site [ion binding]; other site 404589011663 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 404589011664 nucleotide binding region [chemical binding]; other site 404589011665 ATP-binding site [chemical binding]; other site 404589011666 Uncharacterized conserved protein [Function unknown]; Region: COG4279 404589011667 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589011668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589011669 NAD(P) binding site [chemical binding]; other site 404589011670 active site 404589011671 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 404589011672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589011673 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 404589011674 DNA binding residues [nucleotide binding] 404589011675 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 404589011676 active site 404589011677 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 404589011678 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589011679 Walker A/P-loop; other site 404589011680 ATP binding site [chemical binding]; other site 404589011681 Q-loop/lid; other site 404589011682 ABC transporter signature motif; other site 404589011683 Walker B; other site 404589011684 D-loop; other site 404589011685 H-loop/switch region; other site 404589011686 ABC transporter; Region: ABC_tran_2; pfam12848 404589011687 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 404589011688 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 404589011689 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 404589011690 acyl-activating enzyme (AAE) consensus motif; other site 404589011691 active site 404589011692 AMP binding site [chemical binding]; other site 404589011693 CoA binding site [chemical binding]; other site 404589011694 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589011695 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589011696 active site 404589011697 ATP binding site [chemical binding]; other site 404589011698 substrate binding site [chemical binding]; other site 404589011699 activation loop (A-loop); other site 404589011700 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 404589011701 TPR motif; other site 404589011702 binding surface 404589011703 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 404589011704 TPR motif; other site 404589011705 binding surface 404589011706 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 404589011707 NmrA-like family; Region: NmrA; pfam05368 404589011708 NADP binding site [chemical binding]; other site 404589011709 active site 404589011710 regulatory binding site [polypeptide binding]; other site 404589011711 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 404589011712 Ligand Binding Site [chemical binding]; other site 404589011713 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 404589011714 Ligand Binding Site [chemical binding]; other site 404589011715 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 404589011716 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 404589011717 E-class dimer interface [polypeptide binding]; other site 404589011718 P-class dimer interface [polypeptide binding]; other site 404589011719 active site 404589011720 Cu2+ binding site [ion binding]; other site 404589011721 Zn2+ binding site [ion binding]; other site 404589011722 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 404589011723 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 404589011724 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 404589011725 heme binding site [chemical binding]; other site 404589011726 ferroxidase pore; other site 404589011727 ferroxidase diiron center [ion binding]; other site 404589011728 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 404589011729 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 404589011730 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589011731 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589011732 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 404589011733 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 404589011734 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 404589011735 non-specific DNA binding site [nucleotide binding]; other site 404589011736 salt bridge; other site 404589011737 sequence-specific DNA binding site [nucleotide binding]; other site 404589011738 Protein of unknown function (DUF422); Region: DUF422; cl00991 404589011739 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 404589011740 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 404589011741 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 404589011742 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 404589011743 active site lid residues [active] 404589011744 substrate binding pocket [chemical binding]; other site 404589011745 catalytic residues [active] 404589011746 substrate-Mg2+ binding site; other site 404589011747 aspartate-rich region 1; other site 404589011748 aspartate-rich region 2; other site 404589011749 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 404589011750 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 404589011751 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 404589011752 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 404589011753 homotetramer interface [polypeptide binding]; other site 404589011754 FMN binding site [chemical binding]; other site 404589011755 homodimer contacts [polypeptide binding]; other site 404589011756 putative active site [active] 404589011757 putative substrate binding site [chemical binding]; other site 404589011758 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 404589011759 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 404589011760 FeS/SAM binding site; other site 404589011761 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 404589011762 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 404589011763 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 404589011764 putative NADP binding site [chemical binding]; other site 404589011765 putative substrate binding site [chemical binding]; other site 404589011766 active site 404589011767 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 404589011768 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 404589011769 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589011770 catalytic residue [active] 404589011771 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 404589011772 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 404589011773 Ligand Binding Site [chemical binding]; other site 404589011774 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 404589011775 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 404589011776 putative acyl-acceptor binding pocket; other site 404589011777 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 404589011778 ATP-grasp domain; Region: ATP-grasp_4; cl17255 404589011779 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 404589011780 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 404589011781 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 404589011782 carboxyltransferase (CT) interaction site; other site 404589011783 biotinylation site [posttranslational modification]; other site 404589011784 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 404589011785 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 404589011786 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 404589011787 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 404589011788 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 404589011789 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589011790 Penicillinase repressor; Region: Pencillinase_R; pfam03965 404589011791 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 404589011792 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589011793 YHS domain; Region: YHS; pfam04945 404589011794 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 404589011795 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 404589011796 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 404589011797 Methyltransferase domain; Region: Methyltransf_31; pfam13847 404589011798 FeoA domain; Region: FeoA; pfam04023 404589011799 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 404589011800 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 404589011801 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 404589011802 G1 box; other site 404589011803 GTP/Mg2+ binding site [chemical binding]; other site 404589011804 Switch I region; other site 404589011805 G2 box; other site 404589011806 G3 box; other site 404589011807 Switch II region; other site 404589011808 G4 box; other site 404589011809 G5 box; other site 404589011810 Nucleoside recognition; Region: Gate; pfam07670 404589011811 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 404589011812 Nucleoside recognition; Region: Gate; pfam07670 404589011813 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 404589011814 Sulphur transport; Region: Sulf_transp; pfam04143 404589011815 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 404589011816 thiosulfate reductase PhsA; Provisional; Region: PRK15488 404589011817 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 404589011818 putative [Fe4-S4] binding site [ion binding]; other site 404589011819 putative molybdopterin cofactor binding site [chemical binding]; other site 404589011820 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 404589011821 molybdopterin cofactor binding site; other site 404589011822 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 404589011823 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 404589011824 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589011825 Walker A motif; other site 404589011826 ATP binding site [chemical binding]; other site 404589011827 Walker B motif; other site 404589011828 arginine finger; other site 404589011829 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589011830 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 404589011831 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 404589011832 TPP-binding site [chemical binding]; other site 404589011833 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 404589011834 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 404589011835 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 404589011836 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 404589011837 dimer interface [polypeptide binding]; other site 404589011838 PYR/PP interface [polypeptide binding]; other site 404589011839 TPP binding site [chemical binding]; other site 404589011840 substrate binding site [chemical binding]; other site 404589011841 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 404589011842 DNA-binding site [nucleotide binding]; DNA binding site 404589011843 RNA-binding motif; other site 404589011844 Hemerythrin; Region: Hemerythrin; cd12107 404589011845 Fe binding site [ion binding]; other site 404589011846 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 404589011847 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 404589011848 FeS/SAM binding site; other site 404589011849 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 404589011850 Methyltransferase domain; Region: Methyltransf_18; pfam12847 404589011851 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 404589011852 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 404589011853 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589011854 active site 404589011855 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 404589011856 DNA binding residues [nucleotide binding] 404589011857 dimerization interface [polypeptide binding]; other site 404589011858 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 404589011859 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 404589011860 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 404589011861 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 404589011862 catalytic residues [active] 404589011863 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 404589011864 Active site serine [active] 404589011865 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 404589011866 E3 interaction surface; other site 404589011867 lipoyl attachment site [posttranslational modification]; other site 404589011868 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 404589011869 E3 interaction surface; other site 404589011870 lipoyl attachment site [posttranslational modification]; other site 404589011871 e3 binding domain; Region: E3_binding; pfam02817 404589011872 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 404589011873 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 404589011874 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 404589011875 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 404589011876 dimer interface [polypeptide binding]; other site 404589011877 TPP-binding site [chemical binding]; other site 404589011878 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 404589011879 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 404589011880 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 404589011881 putative NAD(P) binding site [chemical binding]; other site 404589011882 putative substrate binding site [chemical binding]; other site 404589011883 catalytic Zn binding site [ion binding]; other site 404589011884 structural Zn binding site [ion binding]; other site 404589011885 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 404589011886 RES domain; Region: RES; smart00953 404589011887 EcsC protein family; Region: EcsC; pfam12787 404589011888 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589011889 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 404589011890 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 404589011891 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 404589011892 active site 404589011893 metal binding site [ion binding]; metal-binding site 404589011894 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 404589011895 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 404589011896 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 404589011897 metal ion-dependent adhesion site (MIDAS); other site 404589011898 HTH domain; Region: HTH_11; cl17392 404589011899 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 404589011900 putative catalytic site [active] 404589011901 putative metal binding site [ion binding]; other site 404589011902 putative phosphate binding site [ion binding]; other site 404589011903 Protein of unknown function DUF72; Region: DUF72; pfam01904 404589011904 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 404589011905 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 404589011906 phosphopeptide binding site; other site 404589011907 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 404589011908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 404589011909 metal binding site [ion binding]; metal-binding site 404589011910 active site 404589011911 I-site; other site 404589011912 Outer membrane efflux protein; Region: OEP; pfam02321 404589011913 Outer membrane efflux protein; Region: OEP; pfam02321 404589011914 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 404589011915 MarR family; Region: MarR; pfam01047 404589011916 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 404589011917 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 404589011918 TPR motif; other site 404589011919 binding surface 404589011920 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 404589011921 TPR motif; other site 404589011922 binding surface 404589011923 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589011924 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 404589011925 binding surface 404589011926 TPR motif; other site 404589011927 TPR repeat; Region: TPR_11; pfam13414 404589011928 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589011929 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 404589011930 putative acyl-acceptor binding pocket; other site 404589011931 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589011932 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 404589011933 putative NAD(P) binding site [chemical binding]; other site 404589011934 active site 404589011935 putative substrate binding site [chemical binding]; other site 404589011936 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 404589011937 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 404589011938 dimerization interface [polypeptide binding]; other site 404589011939 domain crossover interface; other site 404589011940 redox-dependent activation switch; other site 404589011941 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 404589011942 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 404589011943 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 404589011944 G1 box; other site 404589011945 putative GEF interaction site [polypeptide binding]; other site 404589011946 GTP/Mg2+ binding site [chemical binding]; other site 404589011947 Switch I region; other site 404589011948 G2 box; other site 404589011949 G3 box; other site 404589011950 Switch II region; other site 404589011951 G4 box; other site 404589011952 G5 box; other site 404589011953 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 404589011954 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 404589011955 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 404589011956 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 404589011957 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 404589011958 putative active site [active] 404589011959 heme pocket [chemical binding]; other site 404589011960 GAF domain; Region: GAF_3; pfam13492 404589011961 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 404589011962 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589011963 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 404589011964 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 404589011965 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 404589011966 dimer interface [polypeptide binding]; other site 404589011967 phosphorylation site [posttranslational modification] 404589011968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589011969 ATP binding site [chemical binding]; other site 404589011970 G-X-G motif; other site 404589011971 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589011972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589011973 active site 404589011974 phosphorylation site [posttranslational modification] 404589011975 intermolecular recognition site; other site 404589011976 dimerization interface [polypeptide binding]; other site 404589011977 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 404589011978 Walker A motif; other site 404589011979 ATP binding site [chemical binding]; other site 404589011980 Walker B motif; other site 404589011981 arginine finger; other site 404589011982 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589011983 cheY-homologous receiver domain; Region: REC; smart00448 404589011984 phosphorylation site [posttranslational modification] 404589011985 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 404589011986 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589011987 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00200 404589011988 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589011989 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 404589011990 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 404589011991 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 404589011992 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 404589011993 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 404589011994 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589011995 catalytic residue [active] 404589011996 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 404589011997 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 404589011998 active site 404589011999 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 404589012000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012001 active site 404589012002 phosphorylation site [posttranslational modification] 404589012003 intermolecular recognition site; other site 404589012004 dimerization interface [polypeptide binding]; other site 404589012005 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 404589012006 DNA binding site [nucleotide binding] 404589012007 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 404589012008 dimer interface [polypeptide binding]; other site 404589012009 phosphorylation site [posttranslational modification] 404589012010 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012011 ATP binding site [chemical binding]; other site 404589012012 Mg2+ binding site [ion binding]; other site 404589012013 G-X-G motif; other site 404589012014 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 404589012015 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 404589012016 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 404589012017 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 404589012018 substrate binding site [chemical binding]; other site 404589012019 oxyanion hole (OAH) forming residues; other site 404589012020 trimer interface [polypeptide binding]; other site 404589012021 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 404589012022 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 404589012023 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 404589012024 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 404589012025 dimer interface [polypeptide binding]; other site 404589012026 active site 404589012027 ParB-like nuclease domain; Region: ParB; smart00470 404589012028 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 404589012029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589012030 Walker A/P-loop; other site 404589012031 ATP binding site [chemical binding]; other site 404589012032 Q-loop/lid; other site 404589012033 ABC transporter signature motif; other site 404589012034 Walker B; other site 404589012035 D-loop; other site 404589012036 H-loop/switch region; other site 404589012037 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 404589012038 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 404589012039 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 404589012040 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 404589012041 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 404589012042 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 404589012043 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 404589012044 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 404589012045 FAD binding pocket [chemical binding]; other site 404589012046 FAD binding motif [chemical binding]; other site 404589012047 phosphate binding motif [ion binding]; other site 404589012048 beta-alpha-beta structure motif; other site 404589012049 NAD binding pocket [chemical binding]; other site 404589012050 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 404589012051 Catalytic domain of Protein Kinases; Region: PKc; cd00180 404589012052 active site 404589012053 ATP binding site [chemical binding]; other site 404589012054 substrate binding site [chemical binding]; other site 404589012055 activation loop (A-loop); other site 404589012056 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 404589012057 TPR repeat; Region: TPR_11; pfam13414 404589012058 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 404589012059 TPR motif; other site 404589012060 binding surface 404589012061 Phospholipid methyltransferase; Region: PEMT; cl17370 404589012062 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 404589012063 serpin-like protein; Provisional; Region: PHA02660 404589012064 reactive center loop; other site 404589012065 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 404589012066 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 404589012067 Coenzyme A binding pocket [chemical binding]; other site 404589012068 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 404589012069 Zn binding site [ion binding]; other site 404589012070 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 404589012071 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 404589012072 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 404589012073 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 404589012074 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 404589012075 AMP-binding enzyme; Region: AMP-binding; pfam00501 404589012076 acyl-activating enzyme (AAE) consensus motif; other site 404589012077 active site 404589012078 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 404589012079 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 404589012080 malonyl-CoA binding site [chemical binding]; other site 404589012081 dimer interface [polypeptide binding]; other site 404589012082 active site 404589012083 product binding site; other site 404589012084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 404589012085 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 404589012086 dimer interface [polypeptide binding]; other site 404589012087 phosphorylation site [posttranslational modification] 404589012088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012089 ATP binding site [chemical binding]; other site 404589012090 Mg2+ binding site [ion binding]; other site 404589012091 G-X-G motif; other site 404589012092 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 404589012093 Clp amino terminal domain; Region: Clp_N; pfam02861 404589012094 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 404589012095 Walker A motif; other site 404589012096 ATP binding site [chemical binding]; other site 404589012097 Walker B motif; other site 404589012098 arginine finger; other site 404589012099 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 404589012100 Walker A motif; other site 404589012101 ATP binding site [chemical binding]; other site 404589012102 Walker B motif; other site 404589012103 arginine finger; other site 404589012104 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 404589012105 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589012106 Predicted membrane protein [Function unknown]; Region: COG2259 404589012107 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 404589012108 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 404589012109 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 404589012110 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 404589012111 dimerization interface 3.5A [polypeptide binding]; other site 404589012112 active site 404589012113 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 404589012114 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 404589012115 substrate binding pocket [chemical binding]; other site 404589012116 chain length determination region; other site 404589012117 substrate-Mg2+ binding site; other site 404589012118 catalytic residues [active] 404589012119 aspartate-rich region 1; other site 404589012120 active site lid residues [active] 404589012121 aspartate-rich region 2; other site 404589012122 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 404589012123 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 404589012124 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 404589012125 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 404589012126 putative NAD(P) binding site [chemical binding]; other site 404589012127 active site 404589012128 putative substrate binding site [chemical binding]; other site 404589012129 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 404589012130 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 404589012131 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 404589012132 Ligand binding site; other site 404589012133 Putative Catalytic site; other site 404589012134 DXD motif; other site 404589012135 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 404589012136 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 404589012137 SPFH domain / Band 7 family; Region: Band_7; pfam01145 404589012138 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 404589012139 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 404589012140 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 404589012141 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 404589012142 S-adenosylmethionine binding site [chemical binding]; other site 404589012143 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 404589012144 Flavoprotein; Region: Flavoprotein; pfam02441 404589012145 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 404589012146 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 404589012147 FeS/SAM binding site; other site 404589012148 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 404589012149 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 404589012150 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 404589012151 active site 404589012152 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 404589012153 UbiA prenyltransferase family; Region: UbiA; pfam01040 404589012154 Predicted transcriptional regulators [Transcription]; Region: COG1510 404589012155 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589012156 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 404589012157 dimer interface [polypeptide binding]; other site 404589012158 phosphorylation site [posttranslational modification] 404589012159 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012160 ATP binding site [chemical binding]; other site 404589012161 Mg2+ binding site [ion binding]; other site 404589012162 G-X-G motif; other site 404589012163 peptide chain release factor 1; Validated; Region: prfA; PRK00591 404589012164 This domain is found in peptide chain release factors; Region: PCRF; smart00937 404589012165 RF-1 domain; Region: RF-1; pfam00472 404589012166 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 404589012167 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 404589012168 S-adenosylmethionine binding site [chemical binding]; other site 404589012169 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 404589012170 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 404589012171 hinge; other site 404589012172 active site 404589012173 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 404589012174 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 404589012175 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 404589012176 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 404589012177 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 404589012178 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 404589012179 Moco binding site; other site 404589012180 metal coordination site [ion binding]; other site 404589012181 integrase; Provisional; Region: int; PHA02601 404589012182 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 404589012183 active site 404589012184 DNA binding site [nucleotide binding] 404589012185 Int/Topo IB signature motif; other site 404589012186 DNA methylase; Region: N6_N4_Mtase; cl17433 404589012187 DNA methylase; Region: N6_N4_Mtase; cl17433 404589012188 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 404589012189 S-adenosylmethionine binding site [chemical binding]; other site 404589012190 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 404589012191 PLD-like domain; Region: PLDc_2; pfam13091 404589012192 homodimer interface [polypeptide binding]; other site 404589012193 putative active site [active] 404589012194 catalytic site [active] 404589012195 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 404589012196 DNA binding residues [nucleotide binding] 404589012197 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 404589012198 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 404589012199 Helix-turn-helix domain; Region: HTH_17; pfam12728 404589012200 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 404589012201 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 404589012202 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 404589012203 Walker A motif; other site 404589012204 ATP binding site [chemical binding]; other site 404589012205 Walker B motif; other site 404589012206 arginine finger; other site 404589012207 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 404589012208 active site 404589012209 catalytic triad [active] 404589012210 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 404589012211 active site 404589012212 nucleophile elbow; other site 404589012213 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 404589012214 Carbon starvation protein CstA; Region: CstA; pfam02554 404589012215 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 404589012216 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 404589012217 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 404589012218 (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 404589012219 dimer interaction site [polypeptide binding]; other site 404589012220 substrate-binding tunnel; other site 404589012221 active site 404589012222 catalytic site [active] 404589012223 substrate binding site [chemical binding]; other site 404589012224 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 404589012225 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 404589012226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 404589012227 OsmC-like protein; Region: OsmC; pfam02566 404589012228 GAF domain; Region: GAF; pfam01590 404589012229 PAS domain S-box; Region: sensory_box; TIGR00229 404589012230 PAS domain; Region: PAS; smart00091 404589012231 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 404589012232 Walker A motif; other site 404589012233 ATP binding site [chemical binding]; other site 404589012234 Walker B motif; other site 404589012235 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 404589012236 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 404589012237 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 404589012238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589012239 homodimer interface [polypeptide binding]; other site 404589012240 catalytic residue [active] 404589012241 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 404589012242 HAMP domain; Region: HAMP; pfam00672 404589012243 PAS fold; Region: PAS_4; pfam08448 404589012244 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 404589012245 putative active site [active] 404589012246 heme pocket [chemical binding]; other site 404589012247 PAS domain; Region: PAS_9; pfam13426 404589012248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589012249 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 404589012250 dimer interface [polypeptide binding]; other site 404589012251 phosphorylation site [posttranslational modification] 404589012252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012253 ATP binding site [chemical binding]; other site 404589012254 Mg2+ binding site [ion binding]; other site 404589012255 G-X-G motif; other site 404589012256 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 404589012257 PAS domain; Region: PAS_9; pfam13426 404589012258 putative active site [active] 404589012259 heme pocket [chemical binding]; other site 404589012260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589012261 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012262 ATP binding site [chemical binding]; other site 404589012263 Mg2+ binding site [ion binding]; other site 404589012264 G-X-G motif; other site 404589012265 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589012266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012267 active site 404589012268 phosphorylation site [posttranslational modification] 404589012269 intermolecular recognition site; other site 404589012270 dimerization interface [polypeptide binding]; other site 404589012271 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 404589012272 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 404589012273 Interdomain contacts; other site 404589012274 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 404589012275 Interdomain contacts; other site 404589012276 Cytokine receptor motif; other site 404589012277 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 404589012278 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 404589012279 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 404589012280 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 404589012281 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589012282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012283 active site 404589012284 phosphorylation site [posttranslational modification] 404589012285 intermolecular recognition site; other site 404589012286 dimerization interface [polypeptide binding]; other site 404589012287 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 404589012288 Walker A motif; other site 404589012289 ATP binding site [chemical binding]; other site 404589012290 Walker B motif; other site 404589012291 arginine finger; other site 404589012292 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 404589012293 dimer interface [polypeptide binding]; other site 404589012294 phosphorylation site [posttranslational modification] 404589012295 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012296 ATP binding site [chemical binding]; other site 404589012297 Mg2+ binding site [ion binding]; other site 404589012298 G-X-G motif; other site 404589012299 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 404589012300 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 404589012301 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 404589012302 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 404589012303 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 404589012304 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589012305 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 404589012306 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 404589012307 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 404589012308 Multicopper oxidase; Region: Cu-oxidase; pfam00394 404589012309 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 404589012310 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 404589012311 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 404589012312 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 404589012313 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 404589012314 putative active site [active] 404589012315 putative CoA binding site [chemical binding]; other site 404589012316 nudix motif; other site 404589012317 metal binding site [ion binding]; metal-binding site 404589012318 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 404589012319 active site 404589012320 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 404589012321 Response regulator receiver domain; Region: Response_reg; pfam00072 404589012322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012323 active site 404589012324 phosphorylation site [posttranslational modification] 404589012325 intermolecular recognition site; other site 404589012326 dimerization interface [polypeptide binding]; other site 404589012327 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 404589012328 NnrS protein; Region: NnrS; pfam05940 404589012329 NnrS protein; Region: NnrS; cl01258 404589012330 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 404589012331 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 404589012332 active site 404589012333 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 404589012334 lipoyl attachment site [posttranslational modification]; other site 404589012335 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 404589012336 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 404589012337 dinuclear metal binding motif [ion binding]; other site 404589012338 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 404589012339 Response regulator receiver domain; Region: Response_reg; pfam00072 404589012340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012341 active site 404589012342 phosphorylation site [posttranslational modification] 404589012343 intermolecular recognition site; other site 404589012344 dimerization interface [polypeptide binding]; other site 404589012345 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 404589012346 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 404589012347 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 404589012348 putative active site [active] 404589012349 putative metal binding site [ion binding]; other site 404589012350 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589012351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 404589012352 putative acyl-acceptor binding pocket; other site 404589012353 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589012354 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 404589012355 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 404589012356 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 404589012357 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 404589012358 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 404589012359 HlyD family secretion protein; Region: HlyD_3; pfam13437 404589012360 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 404589012361 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 404589012362 Walker A/P-loop; other site 404589012363 ATP binding site [chemical binding]; other site 404589012364 Q-loop/lid; other site 404589012365 ABC transporter signature motif; other site 404589012366 Walker B; other site 404589012367 D-loop; other site 404589012368 H-loop/switch region; other site 404589012369 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 404589012370 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 404589012371 FtsX-like permease family; Region: FtsX; pfam02687 404589012372 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 404589012373 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 404589012374 FtsX-like permease family; Region: FtsX; pfam02687 404589012375 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 404589012376 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 404589012377 Catalytic site [active] 404589012378 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 404589012379 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 404589012380 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK03180 404589012381 Adenylation domain of archaeal and bacterial LigB-like DNA ligases; Region: Adenylation_DNA_ligase_Arch_LigB; cd07901 404589012382 active site 404589012383 DNA binding site [nucleotide binding] 404589012384 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 404589012385 DNA binding site [nucleotide binding] 404589012386 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 404589012387 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 404589012388 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 404589012389 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 404589012390 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 404589012391 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 404589012392 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 404589012393 4Fe-4S binding domain; Region: Fer4; pfam00037 404589012394 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 404589012395 CPxP motif; other site 404589012396 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 404589012397 active site 404589012398 phosphorylation site [posttranslational modification] 404589012399 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 404589012400 30S subunit binding site; other site 404589012401 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 404589012402 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 404589012403 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 404589012404 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 404589012405 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 404589012406 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 404589012407 Walker A/P-loop; other site 404589012408 ATP binding site [chemical binding]; other site 404589012409 Q-loop/lid; other site 404589012410 ABC transporter signature motif; other site 404589012411 Walker B; other site 404589012412 D-loop; other site 404589012413 H-loop/switch region; other site 404589012414 OstA-like protein; Region: OstA; pfam03968 404589012415 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 404589012416 CTP synthetase; Validated; Region: pyrG; PRK05380 404589012417 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 404589012418 Catalytic site [active] 404589012419 active site 404589012420 UTP binding site [chemical binding]; other site 404589012421 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 404589012422 active site 404589012423 putative oxyanion hole; other site 404589012424 catalytic triad [active] 404589012425 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 404589012426 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 404589012427 Ligand binding site; other site 404589012428 oligomer interface; other site 404589012429 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 404589012430 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 404589012431 active site 404589012432 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 404589012433 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 404589012434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589012435 homodimer interface [polypeptide binding]; other site 404589012436 catalytic residue [active] 404589012437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 404589012438 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 404589012439 putative acyl-acceptor binding pocket; other site 404589012440 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 404589012441 GTPase CgtA; Reviewed; Region: obgE; PRK12299 404589012442 GTP1/OBG; Region: GTP1_OBG; pfam01018 404589012443 Obg GTPase; Region: Obg; cd01898 404589012444 G1 box; other site 404589012445 GTP/Mg2+ binding site [chemical binding]; other site 404589012446 Switch I region; other site 404589012447 G2 box; other site 404589012448 G3 box; other site 404589012449 Switch II region; other site 404589012450 G4 box; other site 404589012451 G5 box; other site 404589012452 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 404589012453 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 404589012454 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 404589012455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589012456 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 404589012457 Inward rectifier potassium channel; Region: IRK; pfam01007 404589012458 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 404589012459 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 404589012460 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 404589012461 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 404589012462 GatB domain; Region: GatB_Yqey; smart00845 404589012463 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 404589012464 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 404589012465 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 404589012466 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 404589012467 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 404589012468 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 404589012469 TPR motif; other site 404589012470 TPR repeat; Region: TPR_11; pfam13414 404589012471 binding surface 404589012472 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 404589012473 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 404589012474 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 404589012475 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 404589012476 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 404589012477 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 404589012478 membrane protein; Provisional; Region: PRK14400 404589012479 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 404589012480 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 404589012481 Yip1 domain; Region: Yip1; pfam04893 404589012482 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 404589012483 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 404589012484 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 404589012485 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 404589012486 SLBB domain; Region: SLBB; pfam10531 404589012487 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 404589012488 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 404589012489 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 404589012490 putative dimer interface [polypeptide binding]; other site 404589012491 [2Fe-2S] cluster binding site [ion binding]; other site 404589012492 PilZ domain; Region: PilZ; cl01260 404589012493 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589012494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012495 active site 404589012496 phosphorylation site [posttranslational modification] 404589012497 intermolecular recognition site; other site 404589012498 dimerization interface [polypeptide binding]; other site 404589012499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 404589012500 Coenzyme A binding pocket [chemical binding]; other site 404589012501 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 404589012502 IHF - DNA interface [nucleotide binding]; other site 404589012503 IHF dimer interface [polypeptide binding]; other site 404589012504 amidophosphoribosyltransferase; Provisional; Region: PRK09123 404589012505 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 404589012506 active site 404589012507 tetramer interface [polypeptide binding]; other site 404589012508 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 404589012509 active site 404589012510 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 404589012511 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 404589012512 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 404589012513 active site 404589012514 FOG: WD40-like repeat [Function unknown]; Region: COG1520 404589012515 FOG: WD40-like repeat [Function unknown]; Region: COG1520 404589012516 PilZ domain; Region: PilZ; cl01260 404589012517 Response regulator receiver domain; Region: Response_reg; pfam00072 404589012518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012519 active site 404589012520 phosphorylation site [posttranslational modification] 404589012521 intermolecular recognition site; other site 404589012522 dimerization interface [polypeptide binding]; other site 404589012523 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 404589012524 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 404589012525 dimerization interface [polypeptide binding]; other site 404589012526 ATP binding site [chemical binding]; other site 404589012527 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 404589012528 dimerization interface [polypeptide binding]; other site 404589012529 ATP binding site [chemical binding]; other site 404589012530 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 404589012531 RNase_H superfamily; Region: RNase_H_2; pfam13482 404589012532 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 404589012533 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 404589012534 putative active site [active] 404589012535 heme pocket [chemical binding]; other site 404589012536 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 404589012537 dimer interface [polypeptide binding]; other site 404589012538 phosphorylation site [posttranslational modification] 404589012539 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012540 ATP binding site [chemical binding]; other site 404589012541 Mg2+ binding site [ion binding]; other site 404589012542 G-X-G motif; other site 404589012543 Part of AAA domain; Region: AAA_19; pfam13245 404589012544 AAA domain; Region: AAA_12; pfam13087 404589012545 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012546 ATP binding site [chemical binding]; other site 404589012547 Mg2+ binding site [ion binding]; other site 404589012548 G-X-G motif; other site 404589012549 Response regulator receiver domain; Region: Response_reg; pfam00072 404589012550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012551 active site 404589012552 phosphorylation site [posttranslational modification] 404589012553 intermolecular recognition site; other site 404589012554 dimerization interface [polypeptide binding]; other site 404589012555 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 404589012556 active site 404589012557 Smr domain; Region: Smr; pfam01713 404589012558 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 404589012559 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 404589012560 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 404589012561 30S subunit binding site; other site 404589012562 Response regulator receiver domain; Region: Response_reg; pfam00072 404589012563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012564 active site 404589012565 phosphorylation site [posttranslational modification] 404589012566 intermolecular recognition site; other site 404589012567 dimerization interface [polypeptide binding]; other site 404589012568 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 404589012569 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 404589012570 putative active site [active] 404589012571 heme pocket [chemical binding]; other site 404589012572 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 404589012573 dimer interface [polypeptide binding]; other site 404589012574 phosphorylation site [posttranslational modification] 404589012575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012576 ATP binding site [chemical binding]; other site 404589012577 G-X-G motif; other site 404589012578 Response regulator receiver domain; Region: Response_reg; pfam00072 404589012579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012580 active site 404589012581 phosphorylation site [posttranslational modification] 404589012582 intermolecular recognition site; other site 404589012583 dimerization interface [polypeptide binding]; other site 404589012584 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012585 ATP binding site [chemical binding]; other site 404589012586 Mg2+ binding site [ion binding]; other site 404589012587 G-X-G motif; other site 404589012588 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 404589012589 dimerization interface [polypeptide binding]; other site 404589012590 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 404589012591 dimer interface [polypeptide binding]; other site 404589012592 phosphorylation site [posttranslational modification] 404589012593 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012594 ATP binding site [chemical binding]; other site 404589012595 Mg2+ binding site [ion binding]; other site 404589012596 G-X-G motif; other site 404589012597 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 404589012598 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 404589012599 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14470 404589012600 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 404589012601 FeS/SAM binding site; other site 404589012602 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 404589012603 active site 404589012604 DNA binding site [nucleotide binding] 404589012605 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 404589012606 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 404589012607 domain interfaces; other site 404589012608 active site 404589012609 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 404589012610 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 404589012611 active site 404589012612 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 404589012613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 404589012614 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589012615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012616 active site 404589012617 phosphorylation site [posttranslational modification] 404589012618 intermolecular recognition site; other site 404589012619 dimerization interface [polypeptide binding]; other site 404589012620 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 404589012621 Walker A motif; other site 404589012622 ATP binding site [chemical binding]; other site 404589012623 Walker B motif; other site 404589012624 arginine finger; other site 404589012625 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589012626 FtsH Extracellular; Region: FtsH_ext; pfam06480 404589012627 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 404589012628 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 404589012629 Walker A motif; other site 404589012630 ATP binding site [chemical binding]; other site 404589012631 Walker B motif; other site 404589012632 arginine finger; other site 404589012633 Peptidase family M41; Region: Peptidase_M41; pfam01434 404589012634 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 404589012635 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 404589012636 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 404589012637 putative active site [active] 404589012638 catalytic site [active] 404589012639 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 404589012640 putative active site [active] 404589012641 catalytic site [active] 404589012642 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 404589012643 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 404589012644 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 404589012645 dimerization interface [polypeptide binding]; other site 404589012646 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012647 ATP binding site [chemical binding]; other site 404589012648 G-X-G motif; other site 404589012649 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 404589012650 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 404589012651 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 404589012652 catalytic site [active] 404589012653 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 404589012654 Nitrogen regulatory protein P-II; Region: P-II; smart00938 404589012655 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 404589012656 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 404589012657 putative active site [active] 404589012658 heme pocket [chemical binding]; other site 404589012659 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 404589012660 dimer interface [polypeptide binding]; other site 404589012661 phosphorylation site [posttranslational modification] 404589012662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012663 ATP binding site [chemical binding]; other site 404589012664 Mg2+ binding site [ion binding]; other site 404589012665 G-X-G motif; other site 404589012666 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 404589012667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012668 active site 404589012669 phosphorylation site [posttranslational modification] 404589012670 intermolecular recognition site; other site 404589012671 dimerization interface [polypeptide binding]; other site 404589012672 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 404589012673 Walker A motif; other site 404589012674 ATP binding site [chemical binding]; other site 404589012675 Walker B motif; other site 404589012676 arginine finger; other site 404589012677 Epoxide hydrolase N terminus; Region: EHN; pfam06441 404589012678 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 404589012679 glutamine synthetase, type I; Region: GlnA; TIGR00653 404589012680 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 404589012681 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 404589012682 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 404589012683 Major Facilitator Superfamily; Region: MFS_1; pfam07690 404589012684 putative substrate translocation pore; other site 404589012685 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 404589012686 PUA-like domain; Region: PUA_2; pfam14306 404589012687 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 404589012688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 404589012689 NAD(P) binding site [chemical binding]; other site 404589012690 active site 404589012691 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 404589012692 putative substrate translocation pore; other site 404589012693 SnoaL-like domain; Region: SnoaL_2; pfam12680 404589012694 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 404589012695 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 404589012696 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 404589012697 substrate binding pocket [chemical binding]; other site 404589012698 membrane-bound complex binding site; other site 404589012699 hinge residues; other site 404589012700 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 404589012701 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 404589012702 Walker A/P-loop; other site 404589012703 ATP binding site [chemical binding]; other site 404589012704 Q-loop/lid; other site 404589012705 ABC transporter signature motif; other site 404589012706 Walker B; other site 404589012707 D-loop; other site 404589012708 H-loop/switch region; other site 404589012709 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 404589012710 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 404589012711 Walker A/P-loop; other site 404589012712 ATP binding site [chemical binding]; other site 404589012713 Q-loop/lid; other site 404589012714 ABC transporter signature motif; other site 404589012715 Walker B; other site 404589012716 D-loop; other site 404589012717 H-loop/switch region; other site 404589012718 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 404589012719 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 404589012720 TM-ABC transporter signature motif; other site 404589012721 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 404589012722 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 404589012723 TM-ABC transporter signature motif; other site 404589012724 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 404589012725 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 404589012726 putative ligand binding site [chemical binding]; other site 404589012727 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 404589012728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012729 active site 404589012730 phosphorylation site [posttranslational modification] 404589012731 intermolecular recognition site; other site 404589012732 dimerization interface [polypeptide binding]; other site 404589012733 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 404589012734 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 404589012735 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 404589012736 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 404589012737 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 404589012738 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 404589012739 Protein of unknown function DUF58; Region: DUF58; pfam01882 404589012740 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 404589012741 metal ion-dependent adhesion site (MIDAS); other site 404589012742 MoxR-like ATPases [General function prediction only]; Region: COG0714 404589012743 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 404589012744 Walker A motif; other site 404589012745 ATP binding site [chemical binding]; other site 404589012746 Walker B motif; other site 404589012747 arginine finger; other site 404589012748 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 404589012749 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 404589012750 TPR motif; other site 404589012751 binding surface 404589012752 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 404589012753 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 404589012754 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 404589012755 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 404589012756 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 404589012757 DNA binding residues [nucleotide binding] 404589012758 tyrosine kinase; Provisional; Region: PRK11519 404589012759 Chain length determinant protein; Region: Wzz; pfam02706 404589012760 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 404589012761 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 404589012762 Nucleotide binding site [chemical binding]; other site 404589012763 P loop; other site 404589012764 DTAP/Switch II; other site 404589012765 Switch I; other site 404589012766 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 404589012767 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 404589012768 SLBB domain; Region: SLBB; pfam10531 404589012769 Low molecular weight phosphatase family; Region: LMWPc; cd00115 404589012770 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 404589012771 active site 404589012772 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 404589012773 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 404589012774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 404589012775 Walker A/P-loop; other site 404589012776 ATP binding site [chemical binding]; other site 404589012777 Q-loop/lid; other site 404589012778 ABC transporter signature motif; other site 404589012779 Walker B; other site 404589012780 D-loop; other site 404589012781 H-loop/switch region; other site 404589012782 precorrin-3B synthase; Region: CobG; TIGR02435 404589012783 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 404589012784 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 404589012785 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 404589012786 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 404589012787 Mg++ binding site [ion binding]; other site 404589012788 putative catalytic motif [active] 404589012789 substrate binding site [chemical binding]; other site 404589012790 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 404589012791 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 404589012792 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589012793 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 404589012794 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 404589012795 O-Antigen ligase; Region: Wzy_C; pfam04932 404589012796 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 404589012797 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 404589012798 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 404589012799 NADP binding site [chemical binding]; other site 404589012800 active site 404589012801 putative substrate binding site [chemical binding]; other site 404589012802 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 404589012803 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 404589012804 NADP-binding site; other site 404589012805 homotetramer interface [polypeptide binding]; other site 404589012806 substrate binding site [chemical binding]; other site 404589012807 homodimer interface [polypeptide binding]; other site 404589012808 active site 404589012809 Domain of unknown function (DUF222); Region: DUF222; pfam02720 404589012810 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 404589012811 active site 404589012812 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 404589012813 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 404589012814 NAD binding site [chemical binding]; other site 404589012815 substrate binding site [chemical binding]; other site 404589012816 homodimer interface [polypeptide binding]; other site 404589012817 active site 404589012818 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 404589012819 Ligand binding site; other site 404589012820 Putative Catalytic site; other site 404589012821 DXD motif; other site 404589012822 Methyltransferase domain; Region: Methyltransf_23; pfam13489 404589012823 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 404589012824 S-adenosylmethionine binding site [chemical binding]; other site 404589012825 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]; Region: eRF1; COG1503 404589012826 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 404589012827 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 404589012828 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 404589012829 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 404589012830 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 404589012831 active site 404589012832 Methyltransferase domain; Region: Methyltransf_23; pfam13489 404589012833 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 404589012834 S-adenosylmethionine binding site [chemical binding]; other site 404589012835 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 404589012836 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 404589012837 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 404589012838 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 404589012839 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 404589012840 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 404589012841 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 404589012842 GAF domain; Region: GAF; cl17456 404589012843 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 404589012844 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589012845 putative active site [active] 404589012846 heme pocket [chemical binding]; other site 404589012847 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 404589012848 dimer interface [polypeptide binding]; other site 404589012849 phosphorylation site [posttranslational modification] 404589012850 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012851 ATP binding site [chemical binding]; other site 404589012852 Mg2+ binding site [ion binding]; other site 404589012853 G-X-G motif; other site 404589012854 Protein of unknown function DUF111; Region: DUF111; pfam01969 404589012855 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 404589012856 AIR carboxylase; Region: AIRC; smart01001 404589012857 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 404589012858 CheC-like family; Region: CheC; pfam04509 404589012859 CheC-like family; Region: CheC; pfam04509 404589012860 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 404589012861 putative binding surface; other site 404589012862 active site 404589012863 P2 response regulator binding domain; Region: P2; pfam07194 404589012864 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 404589012865 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012866 ATP binding site [chemical binding]; other site 404589012867 Mg2+ binding site [ion binding]; other site 404589012868 G-X-G motif; other site 404589012869 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 404589012870 Response regulator receiver domain; Region: Response_reg; pfam00072 404589012871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 404589012872 active site 404589012873 phosphorylation site [posttranslational modification] 404589012874 intermolecular recognition site; other site 404589012875 dimerization interface [polypeptide binding]; other site 404589012876 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 404589012877 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589012878 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 404589012879 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 404589012880 dimer interface [polypeptide binding]; other site 404589012881 putative CheW interface [polypeptide binding]; other site 404589012882 thiamine monophosphate kinase; Provisional; Region: PRK05731 404589012883 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 404589012884 ATP binding site [chemical binding]; other site 404589012885 dimerization interface [polypeptide binding]; other site 404589012886 Sensory domain found in PocR; Region: PocR; pfam10114 404589012887 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 404589012888 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 404589012889 dimer interface [polypeptide binding]; other site 404589012890 phosphorylation site [posttranslational modification] 404589012891 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 404589012892 ATP binding site [chemical binding]; other site 404589012893 Mg2+ binding site [ion binding]; other site 404589012894 G-X-G motif; other site 404589012895 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 404589012896 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 404589012897 G1 box; other site 404589012898 GTP/Mg2+ binding site [chemical binding]; other site 404589012899 G2 box; other site 404589012900 Switch I region; other site 404589012901 G3 box; other site 404589012902 Switch II region; other site 404589012903 G4 box; other site 404589012904 G5 box; other site 404589012905 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 404589012906 DEAD/DEAH box helicase; Region: DEAD; pfam00270 404589012907 ATP binding site [chemical binding]; other site 404589012908 DEAD_2; Region: DEAD_2; pfam06733 404589012909 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 404589012910 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 404589012911 Peptidase family M50; Region: Peptidase_M50; pfam02163 404589012912 active site 404589012913 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 404589012914 putative substrate binding region [chemical binding]; other site 404589012915 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 404589012916 Tetratricopeptide repeat; Region: TPR_16; pfam13432 404589012917 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 404589012918 putative ligand binding site [chemical binding]; other site 404589012919 chaperone protein DnaJ; Provisional; Region: PRK10767 404589012920 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 404589012921 HSP70 interaction site [polypeptide binding]; other site 404589012922 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 404589012923 substrate binding site [polypeptide binding]; other site 404589012924 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 404589012925 Zn binding sites [ion binding]; other site 404589012926 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 404589012927 dimer interface [polypeptide binding]; other site 404589012928 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 404589012929 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 404589012930 nucleotide binding site [chemical binding]; other site 404589012931 NEF interaction site [polypeptide binding]; other site 404589012932 SBD interface [polypeptide binding]; other site 404589012933 GrpE; Region: GrpE; pfam01025 404589012934 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 404589012935 dimer interface [polypeptide binding]; other site 404589012936 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 404589012937 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 404589012938 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 404589012939 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 404589012940 binding surface 404589012941 TPR motif; other site 404589012942 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 404589012943 DEAD-like helicases superfamily; Region: DEXDc; smart00487 404589012944 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 404589012945 ATP binding site [chemical binding]; other site 404589012946 putative Mg++ binding site [ion binding]; other site 404589012947 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 404589012948 nucleotide binding region [chemical binding]; other site 404589012949 ATP-binding site [chemical binding]; other site 404589012950 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 404589012951 SurA N-terminal domain; Region: SurA_N_3; cl07813 404589012952 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 404589012953 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 404589012954 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 404589012955 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 404589012956 SurA N-terminal domain; Region: SurA_N; pfam09312 404589012957 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 404589012958 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 404589012959 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 404589012960 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 404589012961 active site 404589012962 GTP-binding protein YchF; Reviewed; Region: PRK09601 404589012963 YchF GTPase; Region: YchF; cd01900 404589012964 G1 box; other site 404589012965 GTP/Mg2+ binding site [chemical binding]; other site 404589012966 Switch I region; other site 404589012967 G2 box; other site 404589012968 Switch II region; other site 404589012969 G3 box; other site 404589012970 G4 box; other site 404589012971 G5 box; other site 404589012972 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 404589012973 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 404589012974 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 404589012975 ATP synthase subunit C; Region: ATP-synt_C; cl00466 404589012976 F0F1 ATP synthase subunit A; Provisional; Region: PRK13419 404589012977 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 404589012978 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 404589012979 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 404589012980 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 404589012981 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 404589012982 catalytic residue [active] 404589012983 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 404589012984 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 404589012985 inhibitor-cofactor binding pocket; inhibition site 404589012986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 404589012987 catalytic residue [active] 404589012988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 404589012989 DNA gyrase subunit A; Validated; Region: PRK05560 404589012990 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 404589012991 CAP-like domain; other site 404589012992 active site 404589012993 primary dimer interface [polypeptide binding]; other site 404589012994 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 404589012995 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 404589012996 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 404589012997 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 404589012998 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 404589012999 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 404589013000 gamma subunit interface [polypeptide binding]; other site 404589013001 epsilon subunit interface [polypeptide binding]; other site 404589013002 LBP interface [polypeptide binding]; other site 404589013003 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 404589013004 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 404589013005 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 404589013006 alpha subunit interaction interface [polypeptide binding]; other site 404589013007 Walker A motif; other site 404589013008 ATP binding site [chemical binding]; other site 404589013009 Walker B motif; other site 404589013010 inhibitor binding site; inhibition site 404589013011 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 404589013012 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 404589013013 core domain interface [polypeptide binding]; other site 404589013014 delta subunit interface [polypeptide binding]; other site 404589013015 epsilon subunit interface [polypeptide binding]; other site 404589013016 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 404589013017 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 404589013018 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 404589013019 beta subunit interaction interface [polypeptide binding]; other site 404589013020 Walker A motif; other site 404589013021 ATP binding site [chemical binding]; other site 404589013022 Walker B motif; other site 404589013023 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 404589013024 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 404589013025 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 404589013026 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 404589013027 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 404589013028 putative dimer interface [polypeptide binding]; other site 404589013029 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 404589013030 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 404589013031 ParB-like nuclease domain; Region: ParB; smart00470 404589013032 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 404589013033 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 404589013034 KorB domain; Region: KorB; pfam08535 404589013035 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 404589013036 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 404589013037 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 404589013038 Magnesium ion binding site [ion binding]; other site 404589013039 GYD domain; Region: GYD; pfam08734 404589013040 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 404589013041 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 404589013042 G-X-X-G motif; other site 404589013043 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 404589013044 RxxxH motif; other site 404589013045 membrane protein insertase; Provisional; Region: PRK01318 404589013046 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 404589013047 Haemolytic domain; Region: Haemolytic; pfam01809 404589013048 Ribonuclease P; Region: Ribonuclease_P; pfam00825