-- dump date 20120504_133003 -- class Genbank::misc_feature -- table misc_feature_note -- id note 455488000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 455488000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 455488000003 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 455488000004 Walker A motif; other site 455488000005 ATP binding site [chemical binding]; other site 455488000006 Walker B motif; other site 455488000007 arginine finger; other site 455488000008 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 455488000009 DnaA box-binding interface [nucleotide binding]; other site 455488000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 455488000011 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 455488000012 putative DNA binding surface [nucleotide binding]; other site 455488000013 dimer interface [polypeptide binding]; other site 455488000014 beta-clamp/clamp loader binding surface; other site 455488000015 beta-clamp/translesion DNA polymerase binding surface; other site 455488000016 recombination protein F; Reviewed; Region: recF; PRK00064 455488000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488000018 Walker A/P-loop; other site 455488000019 ATP binding site [chemical binding]; other site 455488000020 Q-loop/lid; other site 455488000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488000022 ABC transporter signature motif; other site 455488000023 Walker B; other site 455488000024 D-loop; other site 455488000025 H-loop/switch region; other site 455488000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 455488000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000028 ATP binding site [chemical binding]; other site 455488000029 Mg2+ binding site [ion binding]; other site 455488000030 G-X-G motif; other site 455488000031 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 455488000032 anchoring element; other site 455488000033 dimer interface [polypeptide binding]; other site 455488000034 ATP binding site [chemical binding]; other site 455488000035 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 455488000036 active site 455488000037 putative metal-binding site [ion binding]; other site 455488000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 455488000039 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 455488000040 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 455488000041 dimer interface [polypeptide binding]; other site 455488000042 active site 455488000043 CoA binding pocket [chemical binding]; other site 455488000044 Peptidase family M54; Region: Peptidase_M54; cl00835 455488000045 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 455488000046 Cysteine-rich domain; Region: CCG; pfam02754 455488000047 Cysteine-rich domain; Region: CCG; pfam02754 455488000048 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 455488000049 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488000050 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 455488000051 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488000052 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 455488000053 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455488000054 active site 455488000055 HIGH motif; other site 455488000056 nucleotide binding site [chemical binding]; other site 455488000057 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 455488000058 active site 455488000059 KMSKS motif; other site 455488000060 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 455488000061 tRNA binding surface [nucleotide binding]; other site 455488000062 anticodon binding site; other site 455488000063 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 455488000064 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 455488000065 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 455488000066 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 455488000067 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 455488000068 DNA binding site [nucleotide binding] 455488000069 Int/Topo IB signature motif; other site 455488000070 active site 455488000071 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 455488000072 catalytic residues [active] 455488000073 catalytic nucleophile [active] 455488000074 Presynaptic Site I dimer interface [polypeptide binding]; other site 455488000075 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 455488000076 Synaptic Flat tetramer interface [polypeptide binding]; other site 455488000077 Synaptic Site I dimer interface [polypeptide binding]; other site 455488000078 DNA binding site [nucleotide binding] 455488000079 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 455488000080 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 455488000081 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 455488000082 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 455488000083 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 455488000084 Integrase core domain; Region: rve; cl01316 455488000085 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 455488000086 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 455488000087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488000088 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488000089 dimer interface [polypeptide binding]; other site 455488000090 phosphorylation site [posttranslational modification] 455488000091 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000092 ATP binding site [chemical binding]; other site 455488000093 Mg2+ binding site [ion binding]; other site 455488000094 G-X-G motif; other site 455488000095 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488000096 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 455488000097 active site 455488000098 metal binding site [ion binding]; metal-binding site 455488000099 prolyl-tRNA synthetase; Provisional; Region: PRK08661 455488000100 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 455488000101 dimer interface [polypeptide binding]; other site 455488000102 motif 1; other site 455488000103 active site 455488000104 motif 2; other site 455488000105 motif 3; other site 455488000106 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 455488000107 anticodon binding site; other site 455488000108 zinc-binding site [ion binding]; other site 455488000109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000110 NAD(P) binding site [chemical binding]; other site 455488000111 active site 455488000112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488000113 Helix-turn-helix domains; Region: HTH; cl00088 455488000114 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 455488000115 dimerization interface [polypeptide binding]; other site 455488000116 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488000117 dimer interface [polypeptide binding]; other site 455488000118 putative CheW interface [polypeptide binding]; other site 455488000119 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 455488000120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000121 NAD(P) binding site [chemical binding]; other site 455488000122 active site 455488000123 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 455488000124 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 455488000125 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 455488000126 Sodium:solute symporter family; Region: SSF; cl00456 455488000127 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 455488000128 AMP-binding enzyme; Region: AMP-binding; cl15778 455488000129 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 455488000130 ACT domain-containing protein [General function prediction only]; Region: COG4747 455488000131 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 455488000132 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 455488000133 AMP-binding enzyme; Region: AMP-binding; cl15778 455488000134 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 455488000135 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 455488000136 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 455488000137 PYR/PP interface [polypeptide binding]; other site 455488000138 TPP binding site [chemical binding]; other site 455488000139 dimer interface [polypeptide binding]; other site 455488000140 substrate binding site [chemical binding]; other site 455488000141 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 455488000142 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 455488000143 TPP-binding site; other site 455488000144 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 455488000145 Acetokinase family; Region: Acetate_kinase; cl01029 455488000146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 455488000147 DNA-binding site [nucleotide binding]; DNA binding site 455488000148 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 455488000149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488000150 homodimer interface [polypeptide binding]; other site 455488000151 catalytic residue [active] 455488000152 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488000153 Predicted acetyltransferase [General function prediction only]; Region: COG3153 455488000154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 455488000155 Coenzyme A binding pocket [chemical binding]; other site 455488000156 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 455488000157 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 455488000158 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 455488000159 Ligand binding site [chemical binding]; other site 455488000160 Electron transfer flavoprotein domain; Region: ETF; pfam01012 455488000161 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 455488000162 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 455488000163 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 455488000164 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488000165 Integral membrane protein TerC family; Region: TerC; cl10468 455488000166 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 455488000167 EamA-like transporter family; Region: EamA; cl01037 455488000168 EamA-like transporter family; Region: EamA; cl01037 455488000169 MltA specific insert domain; Region: MltA; cl08398 455488000170 3D domain; Region: 3D; cl01439 455488000171 uracil transporter; Provisional; Region: PRK10720 455488000172 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 455488000173 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 455488000174 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488000175 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 455488000176 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 455488000177 RNA binding surface [nucleotide binding]; other site 455488000178 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 455488000179 active site 455488000180 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 455488000181 Transglycosylase; Region: Transgly; cl07896 455488000182 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488000183 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 455488000184 dimerization interface [polypeptide binding]; other site 455488000185 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488000186 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488000187 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488000188 dimer interface [polypeptide binding]; other site 455488000189 putative CheW interface [polypeptide binding]; other site 455488000190 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488000191 dimer interface [polypeptide binding]; other site 455488000192 putative CheW interface [polypeptide binding]; other site 455488000193 EVE domain; Region: EVE; cl00728 455488000194 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 455488000195 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 455488000196 putative acyltransferase; Provisional; Region: PRK05790 455488000197 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 455488000198 dimer interface [polypeptide binding]; other site 455488000199 active site 455488000200 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 455488000201 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 455488000202 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 455488000203 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 455488000204 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 455488000205 active site 455488000206 oxyanion hole [active] 455488000207 catalytic triad [active] 455488000208 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 455488000209 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 455488000210 inhibitor-cofactor binding pocket; inhibition site 455488000211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488000212 catalytic residue [active] 455488000213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488000214 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 455488000215 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 455488000216 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488000217 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 455488000218 protein binding site [polypeptide binding]; other site 455488000219 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 455488000220 active site 455488000221 thiamine phosphate binding site [chemical binding]; other site 455488000222 pyrophosphate binding site [ion binding]; other site 455488000223 Peptidase C26; Region: Peptidase_C26; pfam07722 455488000224 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 455488000225 catalytic triad [active] 455488000226 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 455488000227 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 455488000228 replicative DNA helicase; Region: DnaB; TIGR00665 455488000229 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 455488000230 Walker A motif; other site 455488000231 ATP binding site [chemical binding]; other site 455488000232 Walker B motif; other site 455488000233 DNA binding loops [nucleotide binding] 455488000234 Late embryogenesis abundant protein; Region: LEA_2; cl12118 455488000235 Late embryogenesis abundant protein; Region: LEA_2; cl12118 455488000236 LrgB-like family; Region: LrgB; cl00596 455488000237 LrgA family; Region: LrgA; cl00608 455488000238 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 455488000239 Helix-turn-helix domains; Region: HTH; cl00088 455488000240 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 455488000241 dimerization interface [polypeptide binding]; other site 455488000242 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 455488000243 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 455488000244 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 455488000245 substrate binding pocket [chemical binding]; other site 455488000246 dimer interface [polypeptide binding]; other site 455488000247 inhibitor binding site; inhibition site 455488000248 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 455488000249 B12 binding site [chemical binding]; other site 455488000250 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 455488000251 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 455488000252 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 455488000253 FeS/SAM binding site; other site 455488000254 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 455488000255 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 455488000256 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 455488000257 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488000258 dimer interface [polypeptide binding]; other site 455488000259 phosphorylation site [posttranslational modification] 455488000260 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000261 ATP binding site [chemical binding]; other site 455488000262 Mg2+ binding site [ion binding]; other site 455488000263 G-X-G motif; other site 455488000264 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 455488000265 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488000266 octamerization interface [polypeptide binding]; other site 455488000267 diferric-oxygen binding site [ion binding]; other site 455488000268 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 455488000269 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 455488000270 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 455488000271 FeS/SAM binding site; other site 455488000272 TRAM domain; Region: TRAM; cl01282 455488000273 Protein of unknown function (DUF520); Region: DUF520; cl00723 455488000274 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 455488000275 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488000276 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 455488000277 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 455488000278 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488000279 Family description; Region: UvrD_C_2; cl15862 455488000280 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 455488000281 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 455488000282 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 455488000283 active site 455488000284 purine riboside binding site [chemical binding]; other site 455488000285 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 455488000286 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 455488000287 DNA binding site [nucleotide binding] 455488000288 active site 455488000289 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 455488000290 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 455488000291 ligand binding site; other site 455488000292 oligomer interface; other site 455488000293 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 455488000294 dimer interface [polypeptide binding]; other site 455488000295 N-terminal domain interface [polypeptide binding]; other site 455488000296 sulfate 1 binding site; other site 455488000297 Response regulator receiver domain; Region: Response_reg; pfam00072 455488000298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488000299 active site 455488000300 phosphorylation site [posttranslational modification] 455488000301 intermolecular recognition site; other site 455488000302 dimerization interface [polypeptide binding]; other site 455488000303 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488000304 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488000305 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488000306 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488000307 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488000308 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488000309 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 455488000310 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488000311 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488000312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488000313 active site 455488000314 phosphorylation site [posttranslational modification] 455488000315 intermolecular recognition site; other site 455488000316 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 455488000317 Walker A motif; other site 455488000318 ATP binding site [chemical binding]; other site 455488000319 Walker B motif; other site 455488000320 Helix-turn-helix domains; Region: HTH; cl00088 455488000321 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 455488000322 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488000323 dimer interface [polypeptide binding]; other site 455488000324 phosphorylation site [posttranslational modification] 455488000325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000326 ATP binding site [chemical binding]; other site 455488000327 Mg2+ binding site [ion binding]; other site 455488000328 G-X-G motif; other site 455488000329 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488000330 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 455488000331 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 455488000332 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 455488000333 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 455488000334 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 455488000335 active site 455488000336 Zn binding site [ion binding]; other site 455488000337 rod shape-determining protein MreB; Provisional; Region: PRK13927 455488000338 Cell division protein FtsA; Region: FtsA; cl11496 455488000339 rod shape-determining protein MreB; Provisional; Region: PRK13927 455488000340 Cell division protein FtsA; Region: FtsA; cl11496 455488000341 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 455488000342 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488000343 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488000344 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488000345 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488000346 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488000347 active site 455488000348 ATP binding site [chemical binding]; other site 455488000349 substrate binding site [chemical binding]; other site 455488000350 activation loop (A-loop); other site 455488000351 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 455488000352 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 455488000353 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 455488000354 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 455488000355 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 455488000356 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 455488000357 putative active site [active] 455488000358 catalytic residue [active] 455488000359 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 455488000360 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 455488000361 5S rRNA interface [nucleotide binding]; other site 455488000362 CTC domain interface [polypeptide binding]; other site 455488000363 L16 interface [polypeptide binding]; other site 455488000364 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 455488000365 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 455488000366 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488000367 active site 455488000368 SpoVG; Region: SpoVG; cl00915 455488000369 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 455488000370 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488000371 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 455488000372 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488000373 active site 455488000374 PilZ domain; Region: PilZ; cl01260 455488000375 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 455488000376 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 455488000377 phosphopeptide binding site; other site 455488000378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488000379 metal binding site [ion binding]; metal-binding site 455488000380 active site 455488000381 I-site; other site 455488000382 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 455488000383 putative substrate translocation pore; other site 455488000384 ADP-glucose phosphorylase; Region: PLN02643 455488000385 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 455488000386 nucleotide binding site/active site [active] 455488000387 HIT family signature motif; other site 455488000388 catalytic residue [active] 455488000389 glycogen synthase; Provisional; Region: glgA; PRK00654 455488000390 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 455488000391 ADP-binding pocket [chemical binding]; other site 455488000392 homodimer interface [polypeptide binding]; other site 455488000393 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 455488000394 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 455488000395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000396 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 455488000397 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 455488000398 Helix-turn-helix domains; Region: HTH; cl00088 455488000399 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 455488000400 active site 455488000401 DNA polymerase IV; Validated; Region: PRK02406 455488000402 DNA binding site [nucleotide binding] 455488000403 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488000404 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488000405 active site 455488000406 metal binding site [ion binding]; metal-binding site 455488000407 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 455488000408 Response regulator receiver domain; Region: Response_reg; pfam00072 455488000409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488000410 active site 455488000411 phosphorylation site [posttranslational modification] 455488000412 intermolecular recognition site; other site 455488000413 dimerization interface [polypeptide binding]; other site 455488000414 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 455488000415 DHHA1 domain; Region: DHHA1; pfam02272 455488000416 HPr kinase/phosphorylase; Provisional; Region: PRK05428 455488000417 DRTGG domain; Region: DRTGG; cl12147 455488000418 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 455488000419 Hpr binding site; other site 455488000420 active site 455488000421 homohexamer subunit interaction site [polypeptide binding]; other site 455488000422 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 455488000423 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 455488000424 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 455488000425 active pocket/dimerization site; other site 455488000426 active site 455488000427 phosphorylation site [posttranslational modification] 455488000428 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 455488000429 active site 455488000430 phosphorylation site [posttranslational modification] 455488000431 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 455488000432 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 455488000433 dimerization domain swap beta strand [polypeptide binding]; other site 455488000434 regulatory protein interface [polypeptide binding]; other site 455488000435 active site 455488000436 regulatory phosphorylation site [posttranslational modification]; other site 455488000437 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 455488000438 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 455488000439 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 455488000440 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 455488000441 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 455488000442 S-adenosylmethionine synthetase; Validated; Region: PRK05250 455488000443 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 455488000444 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 455488000445 Helix-turn-helix domains; Region: HTH; cl00088 455488000446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000447 Adenosylhomocysteinase; Provisional; Region: PTZ00075 455488000448 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 455488000449 oligomerization interface [polypeptide binding]; other site 455488000450 active site 455488000451 NAD+ binding site [chemical binding]; other site 455488000452 Bacitracin resistance protein BacA; Region: BacA; cl00858 455488000453 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 455488000454 putative active site [active] 455488000455 putative CoA binding site [chemical binding]; other site 455488000456 nudix motif; other site 455488000457 metal binding site [ion binding]; metal-binding site 455488000458 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 455488000459 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 455488000460 Substrate binding site; other site 455488000461 Cupin domain; Region: Cupin_2; cl09118 455488000462 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 455488000463 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 455488000464 active site 455488000465 substrate binding site [chemical binding]; other site 455488000466 metal binding site [ion binding]; metal-binding site 455488000467 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 455488000468 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 455488000469 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 455488000470 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 455488000471 Domain of unknown function (DUF814); Region: DUF814; pfam05670 455488000472 SprT-like family; Region: SprT-like; pfam10263 455488000473 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488000474 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488000475 Surface antigen; Region: Bac_surface_Ag; cl03097 455488000476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 455488000477 Family of unknown function (DUF490); Region: DUF490; pfam04357 455488000478 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 455488000479 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 455488000480 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 455488000481 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 455488000482 metal binding site [ion binding]; metal-binding site 455488000483 dimer interface [polypeptide binding]; other site 455488000484 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 455488000485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000486 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 455488000487 nucleotide binding site [chemical binding]; other site 455488000488 N-acetyl-L-glutamate binding site [chemical binding]; other site 455488000489 Sulfatase; Region: Sulfatase; cl10460 455488000490 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488000491 dimer interface [polypeptide binding]; other site 455488000492 phosphorylation site [posttranslational modification] 455488000493 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000494 ATP binding site [chemical binding]; other site 455488000495 Mg2+ binding site [ion binding]; other site 455488000496 G-X-G motif; other site 455488000497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000498 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 455488000499 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 455488000500 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cl00253 455488000501 putative active site [active] 455488000502 dimerization interface [polypeptide binding]; other site 455488000503 putative tRNAtyr binding site [nucleotide binding]; other site 455488000504 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 455488000505 nucleotide binding site/active site [active] 455488000506 HIT family signature motif; other site 455488000507 catalytic residue [active] 455488000508 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 455488000509 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 455488000510 homotrimer interaction site [polypeptide binding]; other site 455488000511 active site 455488000512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000513 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 455488000514 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 455488000515 hinge; other site 455488000516 active site 455488000517 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 455488000518 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 455488000519 NAD(P) binding site [chemical binding]; other site 455488000520 shikimate binding site; other site 455488000521 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 455488000522 Tetramer interface [polypeptide binding]; other site 455488000523 active site 455488000524 FMN-binding site [chemical binding]; other site 455488000525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488000526 shikimate kinase; Reviewed; Region: aroK; PRK00131 455488000527 active site 455488000528 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 455488000529 active site 455488000530 dimer interface [polypeptide binding]; other site 455488000531 metal binding site [ion binding]; metal-binding site 455488000532 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 455488000533 active site 455488000534 trimer interface [polypeptide binding]; other site 455488000535 dimer interface [polypeptide binding]; other site 455488000536 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 455488000537 active site 455488000538 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 455488000539 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 455488000540 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 455488000541 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 455488000542 heme binding site [chemical binding]; other site 455488000543 ferroxidase pore; other site 455488000544 ferroxidase diiron center [ion binding]; other site 455488000545 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 455488000546 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 455488000547 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 455488000548 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 455488000549 RNA binding surface [nucleotide binding]; other site 455488000550 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 455488000551 active site 455488000552 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 455488000553 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 455488000554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000555 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 455488000556 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 455488000557 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 455488000558 HflX GTPase family; Region: HflX; cd01878 455488000559 G1 box; other site 455488000560 GTP/Mg2+ binding site [chemical binding]; other site 455488000561 Switch I region; other site 455488000562 G2 box; other site 455488000563 G3 box; other site 455488000564 Switch II region; other site 455488000565 G4 box; other site 455488000566 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 455488000567 benzoate transport; Region: 2A0115; TIGR00895 455488000568 putative sialic acid transporter; Region: 2A0112; TIGR00891 455488000569 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 455488000570 active site 455488000571 catalytic site [active] 455488000572 substrate binding site [chemical binding]; other site 455488000573 Peptidase family M48; Region: Peptidase_M48; cl12018 455488000574 gamma-glutamyl kinase; Provisional; Region: PRK05429 455488000575 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 455488000576 nucleotide binding site [chemical binding]; other site 455488000577 homotetrameric interface [polypeptide binding]; other site 455488000578 putative phosphate binding site [ion binding]; other site 455488000579 putative allosteric binding site; other site 455488000580 PUA domain; Region: PUA; cl00607 455488000581 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 455488000582 putative catalytic cysteine [active] 455488000583 Oligomerisation domain; Region: Oligomerisation; cl00519 455488000584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000585 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 455488000586 EamA-like transporter family; Region: EamA; cl01037 455488000587 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488000588 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488000589 active site 455488000590 ATP binding site [chemical binding]; other site 455488000591 substrate binding site [chemical binding]; other site 455488000592 activation loop (A-loop); other site 455488000593 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 455488000594 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 455488000595 dimer interface [polypeptide binding]; other site 455488000596 PYR/PP interface [polypeptide binding]; other site 455488000597 TPP binding site [chemical binding]; other site 455488000598 substrate binding site [chemical binding]; other site 455488000599 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 455488000600 Domain of unknown function; Region: EKR; cl11037 455488000601 4Fe-4S binding domain; Region: Fer4; cl02805 455488000602 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 455488000603 TPP-binding site [chemical binding]; other site 455488000604 dimer interface [polypeptide binding]; other site 455488000605 Transposase IS200 like; Region: Y1_Tnp; cl00848 455488000606 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488000607 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 455488000608 putative NAD(P) binding site [chemical binding]; other site 455488000609 active site 455488000610 putative substrate binding site [chemical binding]; other site 455488000611 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 455488000612 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 455488000613 putative catalytic site [active] 455488000614 putative phosphate binding site [ion binding]; other site 455488000615 putative metal binding site [ion binding]; other site 455488000616 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488000617 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488000618 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 455488000619 DsrE/DsrF-like family; Region: DrsE; cl00672 455488000620 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 455488000621 Helix-turn-helix domains; Region: HTH; cl00088 455488000622 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 455488000623 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 455488000624 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488000625 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488000626 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488000627 Putative zinc-finger; Region: zf-HC2; cl15806 455488000628 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 455488000629 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 455488000630 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 455488000631 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 455488000632 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 455488000633 active site 455488000634 catalytic residues [active] 455488000635 Sulfatase; Region: Sulfatase; cl10460 455488000636 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 455488000637 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 455488000638 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 455488000639 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 455488000640 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 455488000641 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 455488000642 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 455488000643 TfoX N-terminal domain; Region: TfoX_N; cl01167 455488000644 coproporphyrinogen III oxidase; Validated; Region: PRK05628 455488000645 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 455488000646 FeS/SAM binding site; other site 455488000647 HemN C-terminal domain; Region: HemN_C; pfam06969 455488000648 OPT oligopeptide transporter protein; Region: OPT; cl14607 455488000649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488000650 active site 455488000651 phosphorylation site [posttranslational modification] 455488000652 intermolecular recognition site; other site 455488000653 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 455488000654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000655 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 455488000656 S-adenosylmethionine binding site [chemical binding]; other site 455488000657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 455488000658 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 455488000659 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488000660 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 455488000661 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488000662 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488000663 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 protein; Region: CSP_CDS; cd04458 455488000664 DNA-binding site [nucleotide binding]; DNA binding site 455488000665 RNA-binding motif; other site 455488000666 hypothetical protein; Validated; Region: PRK07586 455488000667 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 455488000668 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 455488000669 FMN binding site [chemical binding]; other site 455488000670 substrate binding site [chemical binding]; other site 455488000671 putative catalytic residue [active] 455488000672 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 455488000673 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 455488000674 putative acyl-acceptor binding pocket; other site 455488000675 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 455488000676 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488000677 dimer interface [polypeptide binding]; other site 455488000678 phosphorylation site [posttranslational modification] 455488000679 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000680 ATP binding site [chemical binding]; other site 455488000681 Mg2+ binding site [ion binding]; other site 455488000682 G-X-G motif; other site 455488000683 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 455488000684 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488000685 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 455488000686 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 455488000687 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 455488000688 carboxyltransferase (CT) interaction site; other site 455488000689 biotinylation site [posttranslational modification]; other site 455488000690 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 455488000691 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 455488000692 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 455488000693 HSP70 interaction site [polypeptide binding]; other site 455488000694 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488000695 binding surface 455488000696 TPR motif; other site 455488000697 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 455488000698 Fumarase C-terminus; Region: Fumerase_C; cl00795 455488000699 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 455488000700 active site 455488000701 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 455488000702 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 455488000703 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 455488000704 Gram-negative bacterial tonB protein; Region: TonB; cl10048 455488000705 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488000706 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 455488000707 elongation factor Ts; Reviewed; Region: tsf; PRK12332 455488000708 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 455488000709 Elongation factor TS; Region: EF_TS; pfam00889 455488000710 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 455488000711 rRNA interaction site [nucleotide binding]; other site 455488000712 S8 interaction site; other site 455488000713 putative laminin-1 binding site; other site 455488000714 Competence protein CoiA-like family; Region: CoiA; cl11541 455488000715 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 455488000716 catalytic triad [active] 455488000717 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; cl15754 455488000718 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 455488000719 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 455488000720 DNA binding site [nucleotide binding] 455488000721 catalytic residue [active] 455488000722 H2TH interface [polypeptide binding]; other site 455488000723 putative catalytic residues [active] 455488000724 turnover-facilitating residue; other site 455488000725 intercalation triad [nucleotide binding]; other site 455488000726 8OG recognition residue [nucleotide binding]; other site 455488000727 putative reading head residues; other site 455488000728 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 455488000729 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 455488000730 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 455488000731 RNA/DNA hybrid binding site [nucleotide binding]; other site 455488000732 active site 455488000733 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 455488000734 active site 455488000735 NTP binding site [chemical binding]; other site 455488000736 metal binding triad [ion binding]; metal-binding site 455488000737 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 455488000738 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 455488000739 putative nucleotide binding site [chemical binding]; other site 455488000740 uridine monophosphate binding site [chemical binding]; other site 455488000741 homohexameric interface [polypeptide binding]; other site 455488000742 ribosome recycling factor; Reviewed; Region: frr; PRK00083 455488000743 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 455488000744 hinge region; other site 455488000745 NAD synthetase; Provisional; Region: PRK13981 455488000746 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 455488000747 multimer interface [polypeptide binding]; other site 455488000748 active site 455488000749 catalytic triad [active] 455488000750 protein interface 1 [polypeptide binding]; other site 455488000751 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 455488000752 homodimer interface [polypeptide binding]; other site 455488000753 NAD binding pocket [chemical binding]; other site 455488000754 ATP binding pocket [chemical binding]; other site 455488000755 Mg binding site [ion binding]; other site 455488000756 active-site loop [active] 455488000757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488000758 metal binding site [ion binding]; metal-binding site 455488000759 active site 455488000760 I-site; other site 455488000761 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 455488000762 DNA binding residues [nucleotide binding] 455488000763 transketolase; Reviewed; Region: PRK05899 455488000764 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 455488000765 TPP-binding site [chemical binding]; other site 455488000766 dimer interface [polypeptide binding]; other site 455488000767 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 455488000768 PYR/PP interface [polypeptide binding]; other site 455488000769 dimer interface [polypeptide binding]; other site 455488000770 TPP binding site [chemical binding]; other site 455488000771 Ycf46; Provisional; Region: ycf46; CHL00195 455488000772 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 455488000773 ATP binding site [chemical binding]; other site 455488000774 Walker A motif; other site 455488000775 Walker B motif; other site 455488000776 arginine finger; other site 455488000777 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 455488000778 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 455488000779 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 455488000780 active site 455488000781 catalytic site [active] 455488000782 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 455488000783 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 455488000784 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455488000785 active site 455488000786 HIGH motif; other site 455488000787 nucleotide binding site [chemical binding]; other site 455488000788 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455488000789 active site 455488000790 KMSKS motif; other site 455488000791 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 455488000792 active site 455488000793 dinuclear metal binding site [ion binding]; other site 455488000794 dimerization interface [polypeptide binding]; other site 455488000795 CHASE domain; Region: CHASE; cl01369 455488000796 sensor protein ZraS; Provisional; Region: PRK10364 455488000797 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000798 ATP binding site [chemical binding]; other site 455488000799 Mg2+ binding site [ion binding]; other site 455488000800 G-X-G motif; other site 455488000801 Response regulator receiver domain; Region: Response_reg; pfam00072 455488000802 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488000803 active site 455488000804 phosphorylation site [posttranslational modification] 455488000805 intermolecular recognition site; other site 455488000806 dimerization interface [polypeptide binding]; other site 455488000807 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488000808 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488000809 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488000810 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488000811 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 455488000812 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 455488000813 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 455488000814 FAD binding pocket [chemical binding]; other site 455488000815 FAD binding motif [chemical binding]; other site 455488000816 phosphate binding motif [ion binding]; other site 455488000817 beta-alpha-beta structure motif; other site 455488000818 NAD binding pocket [chemical binding]; other site 455488000819 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488000820 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 455488000821 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488000822 dimer interface [polypeptide binding]; other site 455488000823 phosphorylation site [posttranslational modification] 455488000824 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488000825 ATP binding site [chemical binding]; other site 455488000826 Mg2+ binding site [ion binding]; other site 455488000827 G-X-G motif; other site 455488000828 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488000829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488000830 active site 455488000831 phosphorylation site [posttranslational modification] 455488000832 intermolecular recognition site; other site 455488000833 dimerization interface [polypeptide binding]; other site 455488000834 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 455488000835 ATP binding site [chemical binding]; other site 455488000836 Walker B motif; other site 455488000837 arginine finger; other site 455488000838 Helix-turn-helix domains; Region: HTH; cl00088 455488000839 Protein of unknown function (DUF456); Region: DUF456; cl01069 455488000840 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 455488000841 Ligand binding site; other site 455488000842 metal-binding site 455488000843 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 455488000844 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 455488000845 Transposase IS200 like; Region: Y1_Tnp; cl00848 455488000846 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 455488000847 active site 1 [active] 455488000848 dimer interface [polypeptide binding]; other site 455488000849 hexamer interface [polypeptide binding]; other site 455488000850 active site 2 [active] 455488000851 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; cl15754 455488000852 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 455488000853 Helix-turn-helix domains; Region: HTH; cl00088 455488000854 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 455488000855 dimerization interface [polypeptide binding]; other site 455488000856 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 455488000857 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 455488000858 dimer interface [polypeptide binding]; other site 455488000859 decamer (pentamer of dimers) interface [polypeptide binding]; other site 455488000860 catalytic triad [active] 455488000861 peroxidatic and resolving cysteines [active] 455488000862 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 455488000863 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 455488000864 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 455488000865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488000866 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 455488000867 DNA binding residues [nucleotide binding] 455488000868 dimerization interface [polypeptide binding]; other site 455488000869 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 455488000870 DNA binding residues [nucleotide binding] 455488000871 dimerization interface [polypeptide binding]; other site 455488000872 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 455488000873 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 455488000874 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488000875 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 455488000876 Bacterial Ig-like domain; Region: Big_5; cl01012 455488000877 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 455488000878 Peptidase family M1; Region: Peptidase_M1; pfam01433 455488000879 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488000880 Zn binding site [ion binding]; other site 455488000881 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 455488000882 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 455488000883 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 455488000884 SelR domain; Region: SelR; pfam01641 455488000885 Activator of aromatic catabolism; Region: XylR_N; pfam06505 455488000886 Heme NO binding; Region: HNOB; cl15268 455488000887 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 455488000888 Walker B motif; other site 455488000889 arginine finger; other site 455488000890 Helix-turn-helix domains; Region: HTH; cl00088 455488000891 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 455488000892 eyelet of channel; other site 455488000893 trimer interface [polypeptide binding]; other site 455488000894 Domain of unknown function DUF59; Region: DUF59; cl00941 455488000895 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 455488000896 reductive dehalogenase; Region: RDH; TIGR02486 455488000897 reductive dehalogenase; Region: RDH; TIGR02486 455488000898 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 455488000899 putative selenate reductase, YgfK subunit; Region: Se_ygfK; TIGR03315 455488000900 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 455488000901 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 455488000902 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; cl00284 455488000903 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; cl00284 455488000904 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 455488000905 Activator of aromatic catabolism; Region: XylR_N; pfam06505 455488000906 Heme NO binding; Region: HNOB; cl15268 455488000907 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 455488000908 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 455488000909 Walker A motif; other site 455488000910 ATP binding site [chemical binding]; other site 455488000911 Walker B motif; other site 455488000912 arginine finger; other site 455488000913 Helix-turn-helix domains; Region: HTH; cl00088 455488000914 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 455488000915 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 455488000916 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 455488000917 catalytic residues [active] 455488000918 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 455488000919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488000920 dimer interface [polypeptide binding]; other site 455488000921 putative CheW interface [polypeptide binding]; other site 455488000922 UbiA prenyltransferase family; Region: UbiA; cl00337 455488000923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488000924 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 455488000925 dimerization interface [polypeptide binding]; other site 455488000926 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 455488000927 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488000928 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488000929 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 455488000930 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488000931 Helix-turn-helix domains; Region: HTH; cl00088 455488000932 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 455488000933 putative dimerization interface [polypeptide binding]; other site 455488000934 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488000935 DoxX; Region: DoxX; cl00976 455488000936 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 455488000937 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488000938 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488000939 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 455488000940 Divergent AAA domain; Region: AAA_4; pfam04326 455488000941 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 455488000942 Propionate catabolism activator; Region: PrpR_N; pfam06506 455488000943 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 455488000944 PAS domain; Region: PAS_10; pfam13596 455488000945 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 455488000946 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 455488000947 Walker A motif; other site 455488000948 ATP binding site [chemical binding]; other site 455488000949 Walker B motif; other site 455488000950 arginine finger; other site 455488000951 Helix-turn-helix domains; Region: HTH; cl00088 455488000952 3-hydroxybutyryl-CoA dehydrogenase; Region: PLN02545 455488000953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000954 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 455488000955 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 455488000956 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 455488000957 substrate binding site [chemical binding]; other site 455488000958 oxyanion hole (OAH) forming residues; other site 455488000959 trimer interface [polypeptide binding]; other site 455488000960 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 455488000961 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 455488000962 dimer interface [polypeptide binding]; other site 455488000963 active site 455488000964 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 455488000965 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488000966 active site 455488000967 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 455488000968 Moco binding site; other site 455488000969 metal coordination site [ion binding]; other site 455488000970 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 455488000971 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 455488000972 ATP phosphoribosyltransferase; Region: HisG; cl15266 455488000973 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 455488000974 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 455488000975 hinge; other site 455488000976 active site 455488000977 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 455488000978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488000979 peptide chain release factor 1; Validated; Region: prfA; PRK00591 455488000980 RF-1 domain; Region: RF-1; cl02875 455488000981 RF-1 domain; Region: RF-1; cl02875 455488000982 Predicted transcriptional regulators [Transcription]; Region: COG1510 455488000983 UbiA prenyltransferase family; Region: UbiA; cl00337 455488000984 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 455488000985 active site 455488000986 NMT1-like family; Region: NMT1_2; cl15260 455488000987 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 455488000988 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 455488000989 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 455488000990 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 455488000991 FeS/SAM binding site; other site 455488000992 aromatic acid decarboxylase; Validated; Region: PRK05920 455488000993 Flavoprotein; Region: Flavoprotein; cl08021 455488000994 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 455488000995 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 455488000996 S-adenosylmethionine binding site [chemical binding]; other site 455488000997 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 455488000998 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488000999 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488001000 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 455488001001 substrate binding pocket [chemical binding]; other site 455488001002 chain length determination region; other site 455488001003 substrate-Mg2+ binding site; other site 455488001004 catalytic residues [active] 455488001005 aspartate-rich region 1; other site 455488001006 active site lid residues [active] 455488001007 aspartate-rich region 2; other site 455488001008 large tegument protein UL36; Provisional; Region: PHA03247 455488001009 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 455488001010 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 455488001011 dimerization interface 3.5A [polypeptide binding]; other site 455488001012 active site 455488001013 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 455488001014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001015 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 455488001016 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488001017 octamerization interface [polypeptide binding]; other site 455488001018 diferric-oxygen binding site [ion binding]; other site 455488001019 Late embryogenesis abundant protein; Region: LEA_2; cl12118 455488001020 Late embryogenesis abundant protein; Region: LEA_2; cl12118 455488001021 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 455488001022 Clp amino terminal domain; Region: Clp_N; pfam02861 455488001023 Clp amino terminal domain; Region: Clp_N; pfam02861 455488001024 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 455488001025 Walker A motif; other site 455488001026 ATP binding site [chemical binding]; other site 455488001027 Walker B motif; other site 455488001028 arginine finger; other site 455488001029 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 455488001030 Walker A motif; other site 455488001031 ATP binding site [chemical binding]; other site 455488001032 Walker B motif; other site 455488001033 arginine finger; other site 455488001034 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 455488001035 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 455488001036 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488001037 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 455488001038 protein binding site [polypeptide binding]; other site 455488001039 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 455488001040 protein binding site [polypeptide binding]; other site 455488001041 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 455488001042 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 455488001043 malonyl-CoA binding site [chemical binding]; other site 455488001044 dimer interface [polypeptide binding]; other site 455488001045 active site 455488001046 product binding site; other site 455488001047 acyl-CoA synthetase; Validated; Region: PRK09192 455488001048 AMP-binding enzyme; Region: AMP-binding; cl15778 455488001049 TolB amino-terminal domain; Region: TolB_N; cl00639 455488001050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 455488001051 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 455488001052 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 455488001053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001054 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 455488001055 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488001056 Zn binding site [ion binding]; other site 455488001057 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 455488001058 FAD binding pocket [chemical binding]; other site 455488001059 FAD binding motif [chemical binding]; other site 455488001060 phosphate binding motif [ion binding]; other site 455488001061 beta-alpha-beta structure motif; other site 455488001062 NAD(p) ribose binding residues [chemical binding]; other site 455488001063 NAD binding pocket [chemical binding]; other site 455488001064 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 455488001065 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 455488001066 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 455488001067 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 455488001068 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488001069 Cupin domain; Region: Cupin_2; cl09118 455488001070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001071 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 455488001072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001073 Walker A/P-loop; other site 455488001074 ATP binding site [chemical binding]; other site 455488001075 Q-loop/lid; other site 455488001076 ABC transporter signature motif; other site 455488001077 Walker B; other site 455488001078 D-loop; other site 455488001079 H-loop/switch region; other site 455488001080 ParB-like nuclease domain; Region: ParBc; cl02129 455488001081 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 455488001082 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 455488001083 dimer interface [polypeptide binding]; other site 455488001084 active site 455488001085 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 455488001086 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 455488001087 substrate binding site [chemical binding]; other site 455488001088 oxyanion hole (OAH) forming residues; other site 455488001089 trimer interface [polypeptide binding]; other site 455488001090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001091 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 455488001092 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488001093 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488001094 dimer interface [polypeptide binding]; other site 455488001095 phosphorylation site [posttranslational modification] 455488001096 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001097 ATP binding site [chemical binding]; other site 455488001098 G-X-G motif; other site 455488001099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 455488001100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001101 active site 455488001102 phosphorylation site [posttranslational modification] 455488001103 intermolecular recognition site; other site 455488001104 dimerization interface [polypeptide binding]; other site 455488001105 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 455488001106 DNA binding site [nucleotide binding] 455488001107 selenocysteine synthase; Provisional; Region: PRK04311 455488001108 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 455488001109 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 455488001110 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 455488001111 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 455488001112 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488001113 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 455488001114 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488001115 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 455488001116 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488001117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001118 active site 455488001119 phosphorylation site [posttranslational modification] 455488001120 intermolecular recognition site; other site 455488001121 dimerization interface [polypeptide binding]; other site 455488001122 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488001123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001124 active site 455488001125 phosphorylation site [posttranslational modification] 455488001126 intermolecular recognition site; other site 455488001127 dimerization interface [polypeptide binding]; other site 455488001128 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 455488001129 Walker A motif; other site 455488001130 ATP binding site [chemical binding]; other site 455488001131 Walker B motif; other site 455488001132 arginine finger; other site 455488001133 Helix-turn-helix domains; Region: HTH; cl00088 455488001134 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 455488001135 PAS domain; Region: PAS_9; pfam13426 455488001136 putative active site [active] 455488001137 heme pocket [chemical binding]; other site 455488001138 GAF domain; Region: GAF; cl15785 455488001139 GAF domain; Region: GAF_2; pfam13185 455488001140 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 455488001141 GAF domain; Region: GAF; cl15785 455488001142 GAF domain; Region: GAF; cl15785 455488001143 GAF domain; Region: GAF; cl15785 455488001144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488001145 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488001146 dimer interface [polypeptide binding]; other site 455488001147 phosphorylation site [posttranslational modification] 455488001148 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001149 ATP binding site [chemical binding]; other site 455488001150 G-X-G motif; other site 455488001151 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 455488001152 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 455488001153 G1 box; other site 455488001154 putative GEF interaction site [polypeptide binding]; other site 455488001155 GTP/Mg2+ binding site [chemical binding]; other site 455488001156 Switch I region; other site 455488001157 G2 box; other site 455488001158 G3 box; other site 455488001159 Switch II region; other site 455488001160 G4 box; other site 455488001161 G5 box; other site 455488001162 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 455488001163 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 455488001164 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 455488001165 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 455488001166 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488001167 active site 455488001168 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 455488001169 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 455488001170 dimerization interface [polypeptide binding]; other site 455488001171 domain crossover interface; other site 455488001172 redox-dependent activation switch; other site 455488001173 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 455488001174 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488001175 putative NAD(P) binding site [chemical binding]; other site 455488001176 active site 455488001177 putative substrate binding site [chemical binding]; other site 455488001178 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 455488001179 putative acyl-acceptor binding pocket; other site 455488001180 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 455488001181 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488001182 binding surface 455488001183 TPR motif; other site 455488001184 TPR repeat; Region: TPR_11; pfam13414 455488001185 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488001186 TPR motif; other site 455488001187 binding surface 455488001188 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 455488001189 Helix-turn-helix domains; Region: HTH; cl00088 455488001190 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 455488001191 GAF domain; Region: GAF; cl15785 455488001192 GAF domain; Region: GAF; cl15785 455488001193 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 455488001194 phosphopeptide binding site; other site 455488001195 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488001196 metal binding site [ion binding]; metal-binding site 455488001197 active site 455488001198 I-site; other site 455488001199 Protein of unknown function DUF72; Region: DUF72; cl00777 455488001200 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 455488001201 putative catalytic site [active] 455488001202 putative metal binding site [ion binding]; other site 455488001203 putative phosphate binding site [ion binding]; other site 455488001204 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 455488001205 active site 455488001206 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 455488001207 exonuclease subunit SbcC; Provisional; Region: PRK10246 455488001208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001209 Walker A/P-loop; other site 455488001210 ATP binding site [chemical binding]; other site 455488001211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001212 Q-loop/lid; other site 455488001213 ABC transporter signature motif; other site 455488001214 Walker B; other site 455488001215 D-loop; other site 455488001216 H-loop/switch region; other site 455488001217 exonuclease subunit SbcD; Provisional; Region: PRK10966 455488001218 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488001219 active site 455488001220 metal binding site [ion binding]; metal-binding site 455488001221 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 455488001222 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 455488001223 active site residue [active] 455488001224 Chromate transporter; Region: Chromate_transp; pfam02417 455488001225 Chromate transporter; Region: Chromate_transp; pfam02417 455488001226 NosL; Region: NosL; cl01769 455488001227 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 455488001228 FtsX-like permease family; Region: FtsX; cl15850 455488001229 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488001230 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488001231 Walker A/P-loop; other site 455488001232 ATP binding site [chemical binding]; other site 455488001233 Q-loop/lid; other site 455488001234 ABC transporter signature motif; other site 455488001235 Walker B; other site 455488001236 D-loop; other site 455488001237 H-loop/switch region; other site 455488001238 Cation efflux family; Region: Cation_efflux; cl00316 455488001239 Cation efflux family; Region: Cation_efflux; cl00316 455488001240 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 455488001241 Helix-turn-helix domains; Region: HTH; cl00088 455488001242 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 455488001243 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 455488001244 active site 455488001245 homotetramer interface [polypeptide binding]; other site 455488001246 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488001247 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 455488001248 dinuclear metal binding motif [ion binding]; other site 455488001249 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 455488001250 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 455488001251 active site 455488001252 catalytic tetrad [active] 455488001253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001254 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 455488001255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001256 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 455488001257 Walker A/P-loop; other site 455488001258 ATP binding site [chemical binding]; other site 455488001259 Q-loop/lid; other site 455488001260 ABC transporter signature motif; other site 455488001261 Walker B; other site 455488001262 D-loop; other site 455488001263 H-loop/switch region; other site 455488001264 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 455488001265 dimerization interface [polypeptide binding]; other site 455488001266 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 455488001267 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 455488001268 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 455488001269 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 455488001270 substrate binding pocket [chemical binding]; other site 455488001271 membrane-bound complex binding site; other site 455488001272 hinge residues; other site 455488001273 Transposase IS200 like; Region: Y1_Tnp; cl00848 455488001274 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 455488001275 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488001276 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488001277 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488001278 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 455488001279 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 455488001280 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 455488001281 carboxyltransferase (CT) interaction site; other site 455488001282 biotinylation site [posttranslational modification]; other site 455488001283 RNA polymerase sigma factor; Provisional; Region: PRK11922 455488001284 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488001285 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488001286 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 455488001287 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 455488001288 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 455488001289 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 455488001290 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488001291 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 455488001292 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 455488001293 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 455488001294 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 455488001295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488001296 homodimer interface [polypeptide binding]; other site 455488001297 catalytic residue [active] 455488001298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001299 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 455488001300 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 455488001301 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 455488001302 dimerization interface [polypeptide binding]; other site 455488001303 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 455488001304 ATP binding site [chemical binding]; other site 455488001305 Hydrogenase formation hypA family; Region: HypD; cl12072 455488001306 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 455488001307 HupF/HypC family; Region: HupF_HypC; cl00394 455488001308 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 455488001309 Acylphosphatase; Region: Acylphosphatase; cl00551 455488001310 HypF finger; Region: zf-HYPF; pfam07503 455488001311 HypF finger; Region: zf-HYPF; pfam07503 455488001312 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 455488001313 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; cd00518 455488001314 nickel binding site [ion binding]; other site 455488001315 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 455488001316 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488001317 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 455488001318 hydrogenase 2 small subunit; Provisional; Region: PRK10468 455488001319 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 455488001320 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 455488001321 Helix-turn-helix domains; Region: HTH; cl00088 455488001322 Nudix hydrolase homolog; Region: PLN02791 455488001323 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 455488001324 N-terminal plug; other site 455488001325 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 455488001326 ligand-binding site [chemical binding]; other site 455488001327 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 455488001328 TPR repeat; Region: TPR_11; pfam13414 455488001329 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488001330 MgtC family; Region: MgtC; pfam02308 455488001331 Predicted membrane protein [Function unknown]; Region: COG2119 455488001332 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 455488001333 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 455488001334 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 455488001335 YwiC-like protein; Region: YwiC; pfam14256 455488001336 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488001337 octamerization interface [polypeptide binding]; other site 455488001338 diferric-oxygen binding site [ion binding]; other site 455488001339 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 455488001340 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 455488001341 Walker A/P-loop; other site 455488001342 ATP binding site [chemical binding]; other site 455488001343 Q-loop/lid; other site 455488001344 ABC transporter signature motif; other site 455488001345 Walker B; other site 455488001346 D-loop; other site 455488001347 cobalt transport protein CbiM; Provisional; Region: PRK07331 455488001348 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 455488001349 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488001350 nickel responsive regulator; Provisional; Region: PRK04460 455488001351 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 455488001352 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 455488001353 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 455488001354 substrate binding site [chemical binding]; other site 455488001355 ATP binding site [chemical binding]; other site 455488001356 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 455488001357 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488001358 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488001359 dimer interface [polypeptide binding]; other site 455488001360 phosphorylation site [posttranslational modification] 455488001361 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001362 ATP binding site [chemical binding]; other site 455488001363 G-X-G motif; other site 455488001364 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488001365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001366 active site 455488001367 phosphorylation site [posttranslational modification] 455488001368 intermolecular recognition site; other site 455488001369 dimerization interface [polypeptide binding]; other site 455488001370 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 455488001371 Walker A motif; other site 455488001372 ATP binding site [chemical binding]; other site 455488001373 Walker B motif; other site 455488001374 arginine finger; other site 455488001375 Helix-turn-helix domains; Region: HTH; cl00088 455488001376 Vitamin K epoxide reductase family; Region: VKOR; cl01729 455488001377 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488001378 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 455488001379 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 455488001380 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 455488001381 putative active site [active] 455488001382 heme pocket [chemical binding]; other site 455488001383 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488001384 dimer interface [polypeptide binding]; other site 455488001385 phosphorylation site [posttranslational modification] 455488001386 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001387 ATP binding site [chemical binding]; other site 455488001388 Mg2+ binding site [ion binding]; other site 455488001389 G-X-G motif; other site 455488001390 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 455488001391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001392 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 455488001393 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 455488001394 dimerization interface [polypeptide binding]; other site 455488001395 active site 455488001396 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 455488001397 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 455488001398 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 455488001399 Integral membrane protein TerC family; Region: TerC; cl10468 455488001400 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 455488001401 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 455488001402 Protein export membrane protein; Region: SecD_SecF; cl14618 455488001403 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 455488001404 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488001405 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488001406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 455488001407 Helix-turn-helix domains; Region: HTH; cl00088 455488001408 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 455488001409 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 455488001410 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 455488001411 Ca binding site [ion binding]; other site 455488001412 active site 455488001413 catalytic site [active] 455488001414 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488001415 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 455488001416 Protein of unknown function (DUF454); Region: DUF454; cl01063 455488001417 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 455488001418 Helix-turn-helix domains; Region: HTH; cl00088 455488001419 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 455488001420 dimerization interface [polypeptide binding]; other site 455488001421 aspartate racemase; Region: asp_race; TIGR00035 455488001422 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 455488001423 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 455488001424 putative dimer interface [polypeptide binding]; other site 455488001425 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488001426 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 455488001427 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 455488001428 aspartate aminotransferase; Provisional; Region: PRK06836 455488001429 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 455488001430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488001431 homodimer interface [polypeptide binding]; other site 455488001432 catalytic residue [active] 455488001433 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 455488001434 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 455488001435 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 455488001436 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488001437 dimer interface [polypeptide binding]; other site 455488001438 phosphorylation site [posttranslational modification] 455488001439 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001440 ATP binding site [chemical binding]; other site 455488001441 Mg2+ binding site [ion binding]; other site 455488001442 G-X-G motif; other site 455488001443 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 455488001444 Walker A/P-loop; other site 455488001445 ATP binding site [chemical binding]; other site 455488001446 ABC transporter; Region: ABC_tran; pfam00005 455488001447 Q-loop/lid; other site 455488001448 ABC transporter signature motif; other site 455488001449 Walker B; other site 455488001450 D-loop; other site 455488001451 H-loop/switch region; other site 455488001452 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 455488001453 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488001454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488001455 Helix-turn-helix domains; Region: HTH; cl00088 455488001456 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 455488001457 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 455488001458 DsrE/DsrF-like family; Region: DrsE; cl00672 455488001459 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 455488001460 Helix-turn-helix domain; Region: HTH_18; pfam12833 455488001461 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488001462 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488001463 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488001464 Helix-turn-helix domains; Region: HTH; cl00088 455488001465 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 455488001466 dimerization interface [polypeptide binding]; other site 455488001467 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 455488001468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001469 NAD(P) binding site [chemical binding]; other site 455488001470 active site 455488001471 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 455488001472 putative substrate translocation pore; other site 455488001473 Major Facilitator Superfamily; Region: MFS_1; pfam07690 455488001474 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 455488001475 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 455488001476 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488001477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488001478 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 455488001479 DNA binding residues [nucleotide binding] 455488001480 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 455488001481 Predicted ATPase [General function prediction only]; Region: COG4637 455488001482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001483 Walker A/P-loop; other site 455488001484 ATP binding site [chemical binding]; other site 455488001485 Fic/DOC family; Region: Fic; cl00960 455488001486 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 455488001487 DEAD-like helicases superfamily; Region: DEXDc; smart00487 455488001488 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 455488001489 ATP binding site [chemical binding]; other site 455488001490 putative Mg++ binding site [ion binding]; other site 455488001491 ATP-dependent helicase HepA; Validated; Region: PRK04914 455488001492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001493 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 455488001494 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 455488001495 metal binding site [ion binding]; metal-binding site 455488001496 putative dimer interface [polypeptide binding]; other site 455488001497 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 455488001498 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 455488001499 active site 455488001500 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 455488001501 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 455488001502 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 455488001503 Response regulator receiver domain; Region: Response_reg; pfam00072 455488001504 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001505 active site 455488001506 phosphorylation site [posttranslational modification] 455488001507 intermolecular recognition site; other site 455488001508 dimerization interface [polypeptide binding]; other site 455488001509 GAF domain; Region: GAF; cl15785 455488001510 GAF domain; Region: GAF_2; pfam13185 455488001511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488001512 metal binding site [ion binding]; metal-binding site 455488001513 active site 455488001514 I-site; other site 455488001515 Tellurium resistance protein; Region: Tellurium_res; pfam10138 455488001516 Response regulator receiver domain; Region: Response_reg; pfam00072 455488001517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001518 active site 455488001519 phosphorylation site [posttranslational modification] 455488001520 intermolecular recognition site; other site 455488001521 dimerization interface [polypeptide binding]; other site 455488001522 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488001523 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 455488001524 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 455488001525 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455488001526 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488001527 octamerization interface [polypeptide binding]; other site 455488001528 diferric-oxygen binding site [ion binding]; other site 455488001529 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488001530 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488001531 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488001532 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 455488001533 dimerization interface [polypeptide binding]; other site 455488001534 sensory histidine kinase AtoS; Provisional; Region: PRK11360 455488001535 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001536 ATP binding site [chemical binding]; other site 455488001537 Mg2+ binding site [ion binding]; other site 455488001538 G-X-G motif; other site 455488001539 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 455488001540 WYL domain; Region: WYL; cl14852 455488001541 WYL domain; Region: WYL; cl14852 455488001542 Response regulator receiver domain; Region: Response_reg; pfam00072 455488001543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001544 active site 455488001545 phosphorylation site [posttranslational modification] 455488001546 intermolecular recognition site; other site 455488001547 dimerization interface [polypeptide binding]; other site 455488001548 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 455488001549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001550 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 455488001551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001552 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 455488001553 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 455488001554 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 455488001555 heterotetramer interface [polypeptide binding]; other site 455488001556 active site pocket [active] 455488001557 cleavage site 455488001558 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 455488001559 feedback inhibition sensing region; other site 455488001560 homohexameric interface [polypeptide binding]; other site 455488001561 nucleotide binding site [chemical binding]; other site 455488001562 N-acetyl-L-glutamate binding site [chemical binding]; other site 455488001563 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 455488001564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001565 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 455488001566 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 455488001567 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 455488001568 DsbD alpha interface [polypeptide binding]; other site 455488001569 catalytic residues [active] 455488001570 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 455488001571 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 455488001572 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488001573 catalytic residue [active] 455488001574 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 455488001575 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 455488001576 trimerization site [polypeptide binding]; other site 455488001577 active site 455488001578 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 455488001579 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 455488001580 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 455488001581 Fe-S protein assembly chaperone HscA; Region: HscA; TIGR01991 455488001582 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 455488001583 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 455488001584 catalytic loop [active] 455488001585 iron binding site [ion binding]; other site 455488001586 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 455488001587 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 455488001588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001589 active site 455488001590 phosphorylation site [posttranslational modification] 455488001591 intermolecular recognition site; other site 455488001592 dimerization interface [polypeptide binding]; other site 455488001593 CheB methylesterase; Region: CheB_methylest; pfam01339 455488001594 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 455488001595 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 455488001596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001597 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 455488001598 putative CheA interaction surface; other site 455488001599 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 455488001600 putative binding surface; other site 455488001601 active site 455488001602 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 455488001603 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001604 ATP binding site [chemical binding]; other site 455488001605 Mg2+ binding site [ion binding]; other site 455488001606 G-X-G motif; other site 455488001607 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 455488001608 CheD chemotactic sensory transduction; Region: CheD; cl00810 455488001609 GAF domain; Region: GAF; cl15785 455488001610 Response regulator receiver domain; Region: Response_reg; pfam00072 455488001611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001612 active site 455488001613 phosphorylation site [posttranslational modification] 455488001614 intermolecular recognition site; other site 455488001615 dimerization interface [polypeptide binding]; other site 455488001616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001617 active site 455488001618 phosphorylation site [posttranslational modification] 455488001619 intermolecular recognition site; other site 455488001620 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 455488001621 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488001622 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488001623 dimer interface [polypeptide binding]; other site 455488001624 putative CheW interface [polypeptide binding]; other site 455488001625 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 455488001626 putative binding surface; other site 455488001627 active site 455488001628 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 455488001629 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001630 ATP binding site [chemical binding]; other site 455488001631 Mg2+ binding site [ion binding]; other site 455488001632 G-X-G motif; other site 455488001633 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 455488001634 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001635 active site 455488001636 phosphorylation site [posttranslational modification] 455488001637 intermolecular recognition site; other site 455488001638 dimerization interface [polypeptide binding]; other site 455488001639 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 455488001640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001641 active site 455488001642 phosphorylation site [posttranslational modification] 455488001643 intermolecular recognition site; other site 455488001644 dimerization interface [polypeptide binding]; other site 455488001645 CheB methylesterase; Region: CheB_methylest; pfam01339 455488001646 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 455488001647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001648 Response regulator receiver domain; Region: Response_reg; pfam00072 455488001649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001650 active site 455488001651 phosphorylation site [posttranslational modification] 455488001652 intermolecular recognition site; other site 455488001653 dimerization interface [polypeptide binding]; other site 455488001654 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 455488001655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001657 MatE; Region: MatE; cl10513 455488001658 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 455488001659 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 455488001660 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 455488001661 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 455488001662 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 455488001663 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 455488001664 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 455488001665 PilZ domain; Region: PilZ; cl01260 455488001666 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 455488001667 active site 455488001668 catalytic motif [active] 455488001669 Zn binding site [ion binding]; other site 455488001670 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 455488001671 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 455488001672 active site 455488001673 Riboflavin kinase; Region: Flavokinase; cl03312 455488001674 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 455488001675 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488001676 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 455488001677 Walker A motif; other site 455488001678 ATP binding site [chemical binding]; other site 455488001679 Walker B motif; other site 455488001680 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 455488001681 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 455488001682 Walker A motif; other site 455488001683 ATP binding site [chemical binding]; other site 455488001684 Walker B motif; other site 455488001685 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 455488001686 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 455488001687 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 455488001688 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 455488001689 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 455488001690 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488001691 dimer interface [polypeptide binding]; other site 455488001692 phosphorylation site [posttranslational modification] 455488001693 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001694 ATP binding site [chemical binding]; other site 455488001695 Mg2+ binding site [ion binding]; other site 455488001696 G-X-G motif; other site 455488001697 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488001698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001699 active site 455488001700 phosphorylation site [posttranslational modification] 455488001701 intermolecular recognition site; other site 455488001702 dimerization interface [polypeptide binding]; other site 455488001703 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 455488001704 Walker A motif; other site 455488001705 ATP binding site [chemical binding]; other site 455488001706 Walker B motif; other site 455488001707 arginine finger; other site 455488001708 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 455488001709 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 455488001710 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 455488001711 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 455488001712 Walker A/P-loop; other site 455488001713 ATP binding site [chemical binding]; other site 455488001714 Q-loop/lid; other site 455488001715 ABC transporter signature motif; other site 455488001716 Walker B; other site 455488001717 D-loop; other site 455488001718 H-loop/switch region; other site 455488001719 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 455488001720 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 455488001721 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488001722 dimer interface [polypeptide binding]; other site 455488001723 phosphorylation site [posttranslational modification] 455488001724 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488001725 ATP binding site [chemical binding]; other site 455488001726 Mg2+ binding site [ion binding]; other site 455488001727 G-X-G motif; other site 455488001728 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488001729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001730 active site 455488001731 phosphorylation site [posttranslational modification] 455488001732 intermolecular recognition site; other site 455488001733 dimerization interface [polypeptide binding]; other site 455488001734 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 455488001735 Walker A motif; other site 455488001736 ATP binding site [chemical binding]; other site 455488001737 Walker B motif; other site 455488001738 Helix-turn-helix domains; Region: HTH; cl00088 455488001739 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 455488001740 non-specific DNA binding site [nucleotide binding]; other site 455488001741 salt bridge; other site 455488001742 sequence-specific DNA binding site [nucleotide binding]; other site 455488001743 Competence protein A; Region: Competence_A; pfam11104 455488001744 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 455488001745 Pilus assembly protein, PilO; Region: PilO; cl01234 455488001746 Pilus assembly protein, PilP; Region: PilP; cl01235 455488001747 AMIN domain; Region: AMIN; pfam11741 455488001748 AMIN domain; Region: AMIN; pfam11741 455488001749 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 455488001750 Secretin and TonB N terminus short domain; Region: STN; cl06624 455488001751 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 455488001752 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 455488001753 elongation factor P; Validated; Region: PRK00529 455488001754 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 455488001755 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 455488001756 RNA binding site [nucleotide binding]; other site 455488001757 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 455488001758 RNA binding site [nucleotide binding]; other site 455488001759 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 455488001760 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 455488001761 carboxyltransferase (CT) interaction site; other site 455488001762 biotinylation site [posttranslational modification]; other site 455488001763 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 455488001764 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488001765 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488001766 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 455488001767 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 455488001768 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 455488001770 Family of unknown function (DUF490); Region: DUF490; pfam04357 455488001771 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 455488001772 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 455488001773 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 455488001774 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488001775 Surface antigen; Region: Bac_surface_Ag; cl03097 455488001776 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488001777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488001778 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 455488001779 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 455488001780 TolB amino-terminal domain; Region: TolB_N; cl00639 455488001781 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488001782 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488001783 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488001784 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488001785 Gram-negative bacterial tonB protein; Region: TonB; cl10048 455488001786 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 455488001787 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 455488001788 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 455488001789 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 455488001790 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488001791 Walker A/P-loop; other site 455488001792 ATP binding site [chemical binding]; other site 455488001793 Q-loop/lid; other site 455488001794 ABC transporter signature motif; other site 455488001795 Walker B; other site 455488001796 D-loop; other site 455488001797 H-loop/switch region; other site 455488001798 FtsX-like permease family; Region: FtsX; cl15850 455488001799 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 455488001800 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 455488001801 C-terminal peptidase (prc); Region: prc; TIGR00225 455488001802 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 455488001803 protein binding site [polypeptide binding]; other site 455488001804 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 455488001805 Catalytic dyad [active] 455488001806 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 455488001807 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488001808 DXD motif; other site 455488001809 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488001810 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 455488001811 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 455488001812 motif II; other site 455488001813 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 455488001814 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 455488001815 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 455488001816 P loop; other site 455488001817 GTP binding site [chemical binding]; other site 455488001818 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 455488001819 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 455488001820 Walker A/P-loop; other site 455488001821 ATP binding site [chemical binding]; other site 455488001822 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 455488001823 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 455488001824 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 455488001825 Q-loop/lid; other site 455488001826 ABC transporter signature motif; other site 455488001827 Walker B; other site 455488001828 D-loop; other site 455488001829 H-loop/switch region; other site 455488001830 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 455488001831 dimerization interface [polypeptide binding]; other site 455488001832 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488001833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488001834 dimer interface [polypeptide binding]; other site 455488001835 putative CheW interface [polypeptide binding]; other site 455488001836 Competence protein A; Region: Competence_A; pfam11104 455488001837 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 455488001838 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 455488001839 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 455488001840 general secretion pathway protein J; Region: gspJ; TIGR01711 455488001841 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 455488001842 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 455488001843 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 455488001844 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 455488001845 general secretion pathway protein F; Region: GspF; TIGR02120 455488001846 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 455488001847 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 455488001848 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488001849 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 455488001850 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 455488001851 Walker A motif; other site 455488001852 ATP binding site [chemical binding]; other site 455488001853 Walker B motif; other site 455488001854 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 455488001855 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 455488001856 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 455488001857 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 455488001858 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 455488001859 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 455488001860 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 455488001861 protein binding site [polypeptide binding]; other site 455488001862 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488001863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488001864 active site 455488001865 phosphorylation site [posttranslational modification] 455488001866 intermolecular recognition site; other site 455488001867 dimerization interface [polypeptide binding]; other site 455488001868 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 455488001869 Walker A motif; other site 455488001870 ATP binding site [chemical binding]; other site 455488001871 Walker B motif; other site 455488001872 Helix-turn-helix domains; Region: HTH; cl00088 455488001873 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 455488001874 transcription termination factor Rho; Provisional; Region: rho; PRK09376 455488001875 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 455488001876 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 455488001877 RNA binding site [nucleotide binding]; other site 455488001878 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 455488001879 multimer interface [polypeptide binding]; other site 455488001880 Walker A motif; other site 455488001881 ATP binding site [chemical binding]; other site 455488001882 Walker B motif; other site 455488001883 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 455488001884 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 455488001885 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 455488001886 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 455488001887 nucleotide binding pocket [chemical binding]; other site 455488001888 K-X-D-G motif; other site 455488001889 catalytic site [active] 455488001890 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 455488001891 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 455488001892 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 455488001893 Dimer interface [polypeptide binding]; other site 455488001894 BRCT sequence motif; other site 455488001895 Acylphosphatase; Region: Acylphosphatase; cl00551 455488001896 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 455488001897 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 455488001898 B12 binding site [chemical binding]; other site 455488001899 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 455488001900 FeS/SAM binding site; other site 455488001901 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 455488001902 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 455488001903 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 455488001904 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 455488001905 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 455488001906 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 455488001907 Rrf2 family protein; Region: rrf2_super; TIGR00738 455488001908 Helix-turn-helix domains; Region: HTH; cl00088 455488001909 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 455488001910 IHF dimer interface [polypeptide binding]; other site 455488001911 IHF - DNA interface [nucleotide binding]; other site 455488001912 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 455488001913 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 455488001914 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 455488001915 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 455488001916 FliP family; Region: FliP; cl00593 455488001917 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 455488001918 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 455488001919 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 455488001920 conserved hypothetical protein; Region: QEGLA; TIGR02421 455488001921 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 455488001922 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 455488001923 dinuclear metal binding motif [ion binding]; other site 455488001924 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 455488001925 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 455488001926 DNA binding residues [nucleotide binding] 455488001927 dimerization interface [polypeptide binding]; other site 455488001928 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 455488001929 histidinol dehydrogenase; Region: hisD; TIGR00069 455488001930 NAD binding site [chemical binding]; other site 455488001931 dimerization interface [polypeptide binding]; other site 455488001932 product binding site; other site 455488001933 substrate binding site [chemical binding]; other site 455488001934 zinc binding site [ion binding]; other site 455488001935 catalytic residues [active] 455488001936 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 455488001937 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 455488001938 putative active site pocket [active] 455488001939 4-fold oligomerization interface [polypeptide binding]; other site 455488001940 metal binding residues [ion binding]; metal-binding site 455488001941 3-fold/trimer interface [polypeptide binding]; other site 455488001942 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 455488001943 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 455488001944 putative active site [active] 455488001945 oxyanion strand; other site 455488001946 catalytic triad [active] 455488001947 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 455488001948 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 455488001949 catalytic residues [active] 455488001950 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 455488001951 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 455488001952 substrate binding site [chemical binding]; other site 455488001953 glutamase interaction surface [polypeptide binding]; other site 455488001954 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 455488001955 GatB domain; Region: GatB_Yqey; cl11497 455488001956 DNA primase, catalytic core; Region: dnaG; TIGR01391 455488001957 CHC2 zinc finger; Region: zf-CHC2; cl15369 455488001958 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 455488001959 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 455488001960 active site 455488001961 metal binding site [ion binding]; metal-binding site 455488001962 interdomain interaction site; other site 455488001963 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 455488001964 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 455488001965 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 455488001966 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 455488001967 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488001968 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 455488001969 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 455488001970 DNA binding residues [nucleotide binding] 455488001971 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 455488001972 Putative zinc ribbon domain; Region: DUF164; pfam02591 455488001973 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 455488001974 RNA/DNA hybrid binding site [nucleotide binding]; other site 455488001975 active site 455488001976 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 455488001977 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 455488001978 active site 455488001979 catalytic residues [active] 455488001980 metal binding site [ion binding]; metal-binding site 455488001981 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 455488001982 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 455488001983 primosome assembly protein PriA; Validated; Region: PRK05580 455488001984 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 455488001985 ATP binding site [chemical binding]; other site 455488001986 putative Mg++ binding site [ion binding]; other site 455488001987 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 455488001988 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 455488001989 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488001990 recombination factor protein RarA; Reviewed; Region: PRK13342 455488001991 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 455488001992 Walker A motif; other site 455488001993 ATP binding site [chemical binding]; other site 455488001994 Walker B motif; other site 455488001995 arginine finger; other site 455488001996 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 455488001997 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 455488001998 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 455488001999 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 455488002000 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 455488002001 Walker A/P-loop; other site 455488002002 ATP binding site [chemical binding]; other site 455488002003 Q-loop/lid; other site 455488002004 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 455488002005 ABC transporter signature motif; other site 455488002006 Walker B; other site 455488002007 D-loop; other site 455488002008 H-loop/switch region; other site 455488002009 Protein phosphatase 2C; Region: PP2C; pfam00481 455488002010 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 455488002011 active site 455488002012 Peptidase family M23; Region: Peptidase_M23; pfam01551 455488002013 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 455488002014 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 455488002015 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 455488002016 nucleotide binding region [chemical binding]; other site 455488002017 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 455488002018 SEC-C motif; Region: SEC-C; pfam02810 455488002019 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 455488002020 Helix-turn-helix domains; Region: HTH; cl00088 455488002021 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 455488002022 active site 455488002023 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 455488002024 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 455488002025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002026 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 455488002027 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 455488002028 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 455488002029 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 455488002030 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 455488002031 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 455488002032 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 455488002033 transposase/IS protein; Provisional; Region: PRK09183 455488002034 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 455488002035 Walker A motif; other site 455488002036 ATP binding site [chemical binding]; other site 455488002037 Walker B motif; other site 455488002038 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 455488002039 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488002040 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488002041 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 455488002042 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 455488002043 active site 455488002044 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 455488002045 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 455488002046 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 455488002047 FAD binding pocket [chemical binding]; other site 455488002048 conserved FAD binding motif [chemical binding]; other site 455488002049 phosphate binding motif [ion binding]; other site 455488002050 beta-alpha-beta structure motif; other site 455488002051 NAD binding pocket [chemical binding]; other site 455488002052 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 455488002053 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 455488002054 active site 455488002055 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488002056 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488002057 active site 455488002058 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455488002059 putative peptidoglycan binding site; other site 455488002060 Peptidase family M23; Region: Peptidase_M23; pfam01551 455488002061 Survival protein SurE; Region: SurE; cl00448 455488002062 Helix-turn-helix domains; Region: HTH; cl00088 455488002063 GAF domain; Region: GAF_2; pfam13185 455488002064 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488002065 dimer interface [polypeptide binding]; other site 455488002066 phosphorylation site [posttranslational modification] 455488002067 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 455488002068 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488002069 ATP binding site [chemical binding]; other site 455488002070 Mg2+ binding site [ion binding]; other site 455488002071 G-X-G motif; other site 455488002072 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 455488002073 substrate binding site [chemical binding]; other site 455488002074 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 455488002075 putative deacylase active site [active] 455488002076 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 455488002077 4Fe-4S binding domain; Region: Fer4; cl02805 455488002078 Predicted permeases [General function prediction only]; Region: RarD; COG2962 455488002079 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 455488002080 Ligand Binding Site [chemical binding]; other site 455488002081 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 455488002082 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 455488002083 putative active site [active] 455488002084 putative FMN binding site [chemical binding]; other site 455488002085 putative substrate binding site [chemical binding]; other site 455488002086 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 455488002087 Ferritin-like domain; Region: Ferritin; pfam00210 455488002088 binuclear metal center [ion binding]; other site 455488002089 tricarballylate utilization protein B; Provisional; Region: PRK15033 455488002090 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 455488002091 Cysteine-rich domain; Region: CCG; pfam02754 455488002092 Cysteine-rich domain; Region: CCG; pfam02754 455488002093 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 455488002094 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 455488002095 active site 455488002096 substrate binding site [chemical binding]; other site 455488002097 catalytic site [active] 455488002098 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 455488002099 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 455488002100 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 455488002101 ligand binding site [chemical binding]; other site 455488002102 flexible hinge region; other site 455488002103 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 455488002104 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 455488002105 metal binding triad; other site 455488002106 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 455488002107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002108 active site 455488002109 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 455488002110 Response regulator receiver domain; Region: Response_reg; pfam00072 455488002111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002112 active site 455488002113 phosphorylation site [posttranslational modification] 455488002114 intermolecular recognition site; other site 455488002115 dimerization interface [polypeptide binding]; other site 455488002116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002117 NAD(P) binding site [chemical binding]; other site 455488002118 active site 455488002119 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 455488002120 Domain of unknown function DUF21; Region: DUF21; pfam01595 455488002121 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 455488002122 Transporter associated domain; Region: CorC_HlyC; cl08393 455488002123 hypothetical protein; Provisional; Region: PRK07877 455488002124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002125 Methyltransferase domain; Region: Methyltransf_31; pfam13847 455488002126 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 455488002127 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 455488002128 TPP-binding site [chemical binding]; other site 455488002129 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 455488002130 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 455488002131 E3 interaction surface; other site 455488002132 lipoyl attachment site [posttranslational modification]; other site 455488002133 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 455488002134 Protein of unknown function DUF72; Region: DUF72; cl00777 455488002135 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 455488002136 active site 455488002137 DNA binding site [nucleotide binding] 455488002138 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 455488002139 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 455488002140 DNA binding site [nucleotide binding] 455488002141 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 455488002142 nucleotide binding site [chemical binding]; other site 455488002143 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 455488002144 ATP binding site [chemical binding]; other site 455488002145 putative Mg++ binding site [ion binding]; other site 455488002146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002147 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 455488002148 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 455488002149 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 455488002150 putative dimer interface [polypeptide binding]; other site 455488002151 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 455488002152 Clp amino terminal domain; Region: Clp_N; pfam02861 455488002153 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 455488002154 Walker A motif; other site 455488002155 ATP binding site [chemical binding]; other site 455488002156 Walker B motif; other site 455488002157 arginine finger; other site 455488002158 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 455488002159 Walker A motif; other site 455488002160 ATP binding site [chemical binding]; other site 455488002161 Walker B motif; other site 455488002162 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 455488002163 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 455488002164 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 455488002165 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488002166 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488002167 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 455488002168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488002169 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 455488002170 DNA binding residues [nucleotide binding] 455488002171 Putative zinc-finger; Region: zf-HC2; cl15806 455488002172 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 455488002173 heme-binding residues [chemical binding]; other site 455488002174 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 455488002175 molybdopterin cofactor binding site; other site 455488002176 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 455488002177 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 455488002178 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 455488002179 4Fe-4S binding domain; Region: Fer4; cl02805 455488002180 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488002181 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 455488002182 Cytochrome c; Region: Cytochrom_C; cl11414 455488002183 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 455488002184 Cu(I) binding site [ion binding]; other site 455488002185 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 455488002186 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488002187 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 455488002188 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 455488002189 D-pathway; other site 455488002190 Low-spin heme binding site [chemical binding]; other site 455488002191 Putative water exit pathway; other site 455488002192 Binuclear center (active site) [active] 455488002193 K-pathway; other site 455488002194 Putative proton exit pathway; other site 455488002195 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 455488002196 Subunit I/III interface [polypeptide binding]; other site 455488002197 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 455488002198 Anabaena sensory rhodopsin transducer; Region: ASRT; cl01751 455488002199 thiamine pyrophosphate protein; Provisional; Region: PRK08273 455488002200 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 455488002201 PYR/PP interface [polypeptide binding]; other site 455488002202 tetramer interface [polypeptide binding]; other site 455488002203 dimer interface [polypeptide binding]; other site 455488002204 TPP binding site [chemical binding]; other site 455488002205 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 455488002206 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 455488002207 TPP-binding site [chemical binding]; other site 455488002208 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 455488002209 metal binding site [ion binding]; metal-binding site 455488002210 substrate binding pocket [chemical binding]; other site 455488002211 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 455488002212 FAD binding domain; Region: FAD_binding_4; pfam01565 455488002213 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 455488002214 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 455488002215 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 455488002216 putative ADP-ribose binding site [chemical binding]; other site 455488002217 putative active site [active] 455488002218 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488002219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002220 active site 455488002221 phosphorylation site [posttranslational modification] 455488002222 intermolecular recognition site; other site 455488002223 dimerization interface [polypeptide binding]; other site 455488002224 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 455488002225 Walker A motif; other site 455488002226 ATP binding site [chemical binding]; other site 455488002227 Walker B motif; other site 455488002228 arginine finger; other site 455488002229 Helix-turn-helix domains; Region: HTH; cl00088 455488002230 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 455488002231 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 455488002232 ResB-like family; Region: ResB; pfam05140 455488002233 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 455488002234 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 455488002235 active site 455488002236 DNA binding site [nucleotide binding] 455488002237 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 455488002238 DNA binding site [nucleotide binding] 455488002239 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 455488002240 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 455488002241 active site 455488002242 dimer interface [polypeptide binding]; other site 455488002243 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 455488002244 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 455488002245 active site 455488002246 FMN binding site [chemical binding]; other site 455488002247 substrate binding site [chemical binding]; other site 455488002248 3Fe-4S cluster binding site [ion binding]; other site 455488002249 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 455488002250 domain interface; other site 455488002251 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 455488002252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002253 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 455488002254 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 455488002255 putative substrate translocation pore; other site 455488002256 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 455488002257 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 455488002258 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 455488002259 FeS/SAM binding site; other site 455488002260 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 455488002261 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488002262 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 455488002263 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 455488002264 4Fe-4S binding domain; Region: Fer4; cl02805 455488002265 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 455488002266 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 455488002267 molybdopterin cofactor binding site; other site 455488002268 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 455488002269 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 455488002270 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 455488002271 molybdopterin cofactor binding site; other site 455488002272 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 455488002273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002274 Walker A motif; other site 455488002275 ATP binding site [chemical binding]; other site 455488002276 Family description; Region: UvrD_C_2; cl15862 455488002277 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 455488002278 dimer interface [polypeptide binding]; other site 455488002279 catalytic triad [active] 455488002280 peroxidatic and resolving cysteines [active] 455488002281 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488002282 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488002283 ABC transporter; Region: ABC_tran_2; pfam12848 455488002284 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488002285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002286 Walker A/P-loop; other site 455488002287 ATP binding site [chemical binding]; other site 455488002288 Q-loop/lid; other site 455488002289 ABC transporter signature motif; other site 455488002290 Walker B; other site 455488002291 D-loop; other site 455488002292 H-loop/switch region; other site 455488002293 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 455488002294 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 455488002295 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 455488002296 Glutamate binding site [chemical binding]; other site 455488002297 NAD binding site [chemical binding]; other site 455488002298 catalytic residues [active] 455488002299 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488002300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002301 active site 455488002302 phosphorylation site [posttranslational modification] 455488002303 intermolecular recognition site; other site 455488002304 dimerization interface [polypeptide binding]; other site 455488002305 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 455488002306 Walker A motif; other site 455488002307 ATP binding site [chemical binding]; other site 455488002308 Walker B motif; other site 455488002309 arginine finger; other site 455488002310 Helix-turn-helix domains; Region: HTH; cl00088 455488002311 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488002312 dimer interface [polypeptide binding]; other site 455488002313 phosphorylation site [posttranslational modification] 455488002314 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488002315 ATP binding site [chemical binding]; other site 455488002316 Mg2+ binding site [ion binding]; other site 455488002317 G-X-G motif; other site 455488002318 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 455488002319 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 455488002320 Walker A/P-loop; other site 455488002321 ATP binding site [chemical binding]; other site 455488002322 Q-loop/lid; other site 455488002323 ABC transporter signature motif; other site 455488002324 Walker B; other site 455488002325 D-loop; other site 455488002326 H-loop/switch region; other site 455488002327 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488002328 DEAD-like helicases superfamily; Region: DEXDc; smart00487 455488002329 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 455488002330 ATP binding site [chemical binding]; other site 455488002331 putative Mg++ binding site [ion binding]; other site 455488002332 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 455488002333 nucleotide binding region [chemical binding]; other site 455488002334 ATP-binding site [chemical binding]; other site 455488002335 HRDC domain; Region: HRDC; cl02578 455488002336 YaeQ protein; Region: YaeQ; cl01913 455488002337 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 455488002338 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 455488002339 dimerization interface [polypeptide binding]; other site 455488002340 putative Zn2+ binding site [ion binding]; other site 455488002341 putative DNA binding site [nucleotide binding]; other site 455488002342 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 455488002343 putative ABC transporter; Region: ycf24; CHL00085 455488002344 FeS assembly ATPase SufC; Region: sufC; TIGR01978 455488002345 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 455488002346 Walker A/P-loop; other site 455488002347 ATP binding site [chemical binding]; other site 455488002348 Q-loop/lid; other site 455488002349 ABC transporter signature motif; other site 455488002350 Walker B; other site 455488002351 D-loop; other site 455488002352 H-loop/switch region; other site 455488002353 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 455488002354 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 455488002355 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 455488002356 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 455488002357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488002358 catalytic residue [active] 455488002359 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 455488002360 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 455488002361 trimerization site [polypeptide binding]; other site 455488002362 active site 455488002363 Domain of unknown function DUF59; Region: DUF59; cl00941 455488002364 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 455488002365 phosphopeptide binding site; other site 455488002366 Domain of unknown function (DUF305); Region: DUF305; cl15795 455488002367 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488002368 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488002369 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488002370 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488002371 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 455488002372 protein binding site [polypeptide binding]; other site 455488002373 Gram-negative bacterial tonB protein; Region: TonB; cl10048 455488002374 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488002375 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 455488002376 FtsX-like permease family; Region: FtsX; cl15850 455488002377 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488002378 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 455488002379 protein binding site [polypeptide binding]; other site 455488002380 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488002381 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 455488002382 protein binding site [polypeptide binding]; other site 455488002383 transcriptional regulator FimZ; Provisional; Region: PRK09935 455488002384 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 455488002385 DNA binding residues [nucleotide binding] 455488002386 dimerization interface [polypeptide binding]; other site 455488002387 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488002388 Domain of unknown function (DUF222); Region: DUF222; pfam02720 455488002389 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; cl00083 455488002390 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 455488002391 Predicted RNA interaction site [nucleotide binding]; other site 455488002392 putative binding site; other site 455488002393 Mutations affecting start-site selection; other site 455488002394 TfuA-like protein; Region: TfuA; pfam07812 455488002395 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 455488002396 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 455488002397 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 455488002398 active site 455488002399 metal binding site [ion binding]; metal-binding site 455488002400 dimer interface [polypeptide binding]; other site 455488002401 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 455488002402 homodimer interface [polypeptide binding]; other site 455488002403 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 455488002404 active site pocket [active] 455488002405 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 455488002406 LemA family; Region: LemA; cl00742 455488002407 Repair protein; Region: Repair_PSII; cl01535 455488002408 Repair protein; Region: Repair_PSII; cl01535 455488002409 potassium/proton antiporter; Reviewed; Region: PRK05326 455488002410 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 455488002411 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 455488002412 non-specific DNA binding site [nucleotide binding]; other site 455488002413 salt bridge; other site 455488002414 sequence-specific DNA binding site [nucleotide binding]; other site 455488002415 Cupin domain; Region: Cupin_2; cl09118 455488002416 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488002417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002418 active site 455488002419 phosphorylation site [posttranslational modification] 455488002420 intermolecular recognition site; other site 455488002421 dimerization interface [polypeptide binding]; other site 455488002422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 455488002423 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 455488002424 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 455488002425 active site 455488002426 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 455488002427 S-adenosylmethionine binding site [chemical binding]; other site 455488002428 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 455488002429 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455488002430 ligand binding site [chemical binding]; other site 455488002431 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 455488002432 Domain of unknown function (DUF305); Region: DUF305; cl15795 455488002433 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 455488002434 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 455488002435 active site 455488002436 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 455488002437 nucleotide binding site [chemical binding]; other site 455488002438 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 455488002439 Mechanosensitive ion channel; Region: MS_channel; pfam00924 455488002440 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 455488002441 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488002442 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488002443 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488002444 TPR motif; other site 455488002445 binding surface 455488002446 exosortase E/protease, VPEID-CTERM system; Region: exo_VPEID; TIGR04162 455488002447 CAAX protease self-immunity; Region: Abi; cl00558 455488002448 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 455488002449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002450 active site 455488002451 phosphorylation site [posttranslational modification] 455488002452 intermolecular recognition site; other site 455488002453 dimerization interface [polypeptide binding]; other site 455488002454 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 455488002455 DNA binding site [nucleotide binding] 455488002456 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 455488002457 GAF domain; Region: GAF; cl15785 455488002458 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488002459 dimer interface [polypeptide binding]; other site 455488002460 phosphorylation site [posttranslational modification] 455488002461 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488002462 ATP binding site [chemical binding]; other site 455488002463 Mg2+ binding site [ion binding]; other site 455488002464 G-X-G motif; other site 455488002465 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 455488002466 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 455488002467 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 455488002468 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 455488002469 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 455488002470 dimerization interface [polypeptide binding]; other site 455488002471 Protein of unknown function (DUF420); Region: DUF420; cl00989 455488002472 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488002473 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 455488002474 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 455488002475 Walker A/P-loop; other site 455488002476 ATP binding site [chemical binding]; other site 455488002477 Q-loop/lid; other site 455488002478 ABC transporter signature motif; other site 455488002479 Walker B; other site 455488002480 D-loop; other site 455488002481 H-loop/switch region; other site 455488002482 UbiA prenyltransferase family; Region: UbiA; cl00337 455488002483 TIGR02300 family protein; Region: FYDLN_acid 455488002484 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 455488002485 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 455488002486 Ligand Binding Site [chemical binding]; other site 455488002487 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 455488002488 catalytic residue [active] 455488002489 Sulfatase; Region: Sulfatase; cl10460 455488002490 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 455488002491 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 455488002492 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 455488002493 S-adenosylmethionine binding site [chemical binding]; other site 455488002494 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 455488002495 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 455488002496 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 455488002497 [4Fe-4S] binding site [ion binding]; other site 455488002498 molybdopterin cofactor binding site; other site 455488002499 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 455488002500 molybdopterin cofactor binding site; other site 455488002501 Cytochrome c552; Region: Cytochrom_C552; pfam02335 455488002502 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 455488002503 multicopper oxidase; Provisional; Region: PRK10965 455488002504 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488002505 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 455488002506 Interdomain contacts; other site 455488002507 Cytokine receptor motif; other site 455488002508 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 455488002509 Interdomain contacts; other site 455488002510 Cytokine receptor motif; other site 455488002511 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 455488002512 hydrophobic ligand binding site; other site 455488002513 Transposase IS200 like; Region: Y1_Tnp; cl00848 455488002514 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 455488002515 anti sigma factor interaction site; other site 455488002516 regulatory phosphorylation site [posttranslational modification]; other site 455488002517 Glycine radical; Region: Gly_radical; cl12026 455488002518 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 455488002519 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 455488002520 dimerization interface [polypeptide binding]; other site 455488002521 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 455488002522 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 455488002523 DOMON-like domain of an uncharacterized protein family; Region: DOMON_like_cytochrome; cd09625 455488002524 sensory histidine kinase AtoS; Provisional; Region: PRK11360 455488002525 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488002526 dimer interface [polypeptide binding]; other site 455488002527 phosphorylation site [posttranslational modification] 455488002528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488002529 ATP binding site [chemical binding]; other site 455488002530 Mg2+ binding site [ion binding]; other site 455488002531 G-X-G motif; other site 455488002532 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488002533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002534 active site 455488002535 phosphorylation site [posttranslational modification] 455488002536 intermolecular recognition site; other site 455488002537 dimerization interface [polypeptide binding]; other site 455488002538 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 455488002539 Walker A motif; other site 455488002540 ATP binding site [chemical binding]; other site 455488002541 Walker B motif; other site 455488002542 arginine finger; other site 455488002543 Helix-turn-helix domains; Region: HTH; cl00088 455488002544 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488002545 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 455488002546 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 455488002547 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 455488002548 homodimer interface [polypeptide binding]; other site 455488002549 substrate-cofactor binding pocket; other site 455488002550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488002551 catalytic residue [active] 455488002552 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 455488002553 AMP-binding enzyme; Region: AMP-binding; cl15778 455488002554 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 455488002555 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 455488002556 DTAP/Switch II; other site 455488002557 Switch I; other site 455488002558 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 455488002559 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 455488002560 DTAP/Switch II; other site 455488002561 Switch I; other site 455488002562 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 455488002563 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 455488002564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002565 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 455488002566 Magnesium ion binding site [ion binding]; other site 455488002567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488002568 Helix-turn-helix domains; Region: HTH; cl00088 455488002569 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 455488002570 putative effector binding pocket; other site 455488002571 dimerization interface [polypeptide binding]; other site 455488002572 YceI-like domain; Region: YceI; cl01001 455488002573 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 455488002574 putative active site [active] 455488002575 metal binding site [ion binding]; metal-binding site 455488002576 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 455488002577 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 455488002578 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 455488002579 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 455488002580 active site 455488002581 catalytic site [active] 455488002582 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 455488002583 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 455488002584 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 455488002585 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 455488002586 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 455488002587 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 455488002588 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 455488002589 tetramer interface [polypeptide binding]; other site 455488002590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488002591 catalytic residue [active] 455488002592 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 455488002593 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 455488002594 catalytic residues [active] 455488002595 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 455488002596 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 455488002597 hypothetical protein; Reviewed; Region: PRK09588 455488002598 Archease protein family (MTH1598/TM1083); Region: Archease; cl00606 455488002599 multidrug efflux protein; Reviewed; Region: PRK01766 455488002600 MatE; Region: MatE; cl10513 455488002601 MatE; Region: MatE; cl10513 455488002602 potassium uptake protein; Region: kup; TIGR00794 455488002603 K+ potassium transporter; Region: K_trans; cl15781 455488002604 Transmembrane secretion effector; Region: MFS_3; pfam05977 455488002605 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 455488002606 active site 455488002607 putative DNA-binding cleft [nucleotide binding]; other site 455488002608 dimer interface [polypeptide binding]; other site 455488002609 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 455488002610 RuvA N terminal domain; Region: RuvA_N; pfam01330 455488002611 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 455488002612 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 455488002613 Walker A motif; other site 455488002614 ATP binding site [chemical binding]; other site 455488002615 Walker B motif; other site 455488002616 arginine finger; other site 455488002617 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 455488002618 Rhomboid family; Region: Rhomboid; cl11446 455488002619 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 455488002620 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 455488002621 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 455488002622 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 455488002623 putative hydrophobic ligand binding site [chemical binding]; other site 455488002624 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 455488002625 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 455488002626 nucleotide binding site [chemical binding]; other site 455488002627 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 455488002628 putative DNA binding site [nucleotide binding]; other site 455488002629 putative homodimer interface [polypeptide binding]; other site 455488002630 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 455488002631 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 455488002632 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 455488002633 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 455488002634 Response regulator receiver domain; Region: Response_reg; pfam00072 455488002635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002636 active site 455488002637 phosphorylation site [posttranslational modification] 455488002638 intermolecular recognition site; other site 455488002639 dimerization interface [polypeptide binding]; other site 455488002640 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 455488002641 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 455488002642 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 455488002643 DNA binding site [nucleotide binding] 455488002644 active site 455488002645 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 455488002646 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 455488002647 AlkA N-terminal domain; Region: AlkA_N; cl05528 455488002648 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 455488002649 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 455488002650 Cupin domain; Region: Cupin_2; cl09118 455488002651 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 455488002652 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 455488002653 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 455488002654 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 455488002655 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 455488002656 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 455488002657 Walker A motif; other site 455488002658 ATP binding site [chemical binding]; other site 455488002659 Walker B motif; other site 455488002660 arginine finger; other site 455488002661 Helix-turn-helix domains; Region: HTH; cl00088 455488002662 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 455488002663 putative substrate translocation pore; other site 455488002664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488002665 Helix-turn-helix domains; Region: HTH; cl00088 455488002666 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 455488002667 dimerization interface [polypeptide binding]; other site 455488002668 Alkaline phosphatase homologues; Region: alkPPc; smart00098 455488002669 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 455488002670 active site 455488002671 dimer interface [polypeptide binding]; other site 455488002672 Alkaline phosphatase homologues; Region: alkPPc; smart00098 455488002673 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 455488002674 active site 455488002675 dimer interface [polypeptide binding]; other site 455488002676 Arginase family; Region: Arginase; cl00306 455488002677 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 455488002678 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488002679 dimer interface [polypeptide binding]; other site 455488002680 phosphorylation site [posttranslational modification] 455488002681 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488002682 ATP binding site [chemical binding]; other site 455488002683 Mg2+ binding site [ion binding]; other site 455488002684 G-X-G motif; other site 455488002685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002686 active site 455488002687 phosphorylation site [posttranslational modification] 455488002688 intermolecular recognition site; other site 455488002689 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 455488002690 Peptidase family M48; Region: Peptidase_M48; cl12018 455488002691 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; cl09957 455488002692 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 protein; Region: CSP_CDS; cd04458 455488002693 DNA-binding site [nucleotide binding]; DNA binding site 455488002694 RNA-binding motif; other site 455488002695 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488002696 active site 455488002697 metal binding site [ion binding]; metal-binding site 455488002698 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 455488002699 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488002700 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 455488002701 putative active site [active] 455488002702 catalytic site [active] 455488002703 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 455488002704 putative active site [active] 455488002705 catalytic site [active] 455488002706 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 455488002707 homodimer interaction site [polypeptide binding]; other site 455488002708 cofactor binding site; other site 455488002709 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 455488002710 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 455488002711 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 455488002712 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 455488002713 putative ligand binding site [chemical binding]; other site 455488002714 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 455488002715 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 455488002716 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 455488002717 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 455488002718 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 455488002719 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 455488002720 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 455488002721 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 455488002722 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 455488002723 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 455488002724 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 455488002725 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 455488002726 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 455488002727 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 455488002728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002729 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 455488002730 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 455488002731 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488002732 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 455488002733 Coenzyme A binding pocket [chemical binding]; other site 455488002734 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 455488002735 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 455488002736 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002737 Walker A/P-loop; other site 455488002738 ATP binding site [chemical binding]; other site 455488002739 Q-loop/lid; other site 455488002740 ABC transporter signature motif; other site 455488002741 Walker B; other site 455488002742 D-loop; other site 455488002743 H-loop/switch region; other site 455488002744 TOBE domain; Region: TOBE_2; cl01440 455488002745 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 455488002746 putative PBP binding loops; other site 455488002747 dimer interface [polypeptide binding]; other site 455488002748 ABC-ATPase subunit interface; other site 455488002749 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 455488002750 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 455488002751 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 455488002752 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 455488002753 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 455488002754 putative ligand binding site [chemical binding]; other site 455488002755 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 455488002756 TM-ABC transporter signature motif; other site 455488002757 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 455488002758 TM-ABC transporter signature motif; other site 455488002759 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 455488002760 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 455488002761 Walker A/P-loop; other site 455488002762 ATP binding site [chemical binding]; other site 455488002763 Q-loop/lid; other site 455488002764 ABC transporter signature motif; other site 455488002765 Walker B; other site 455488002766 D-loop; other site 455488002767 H-loop/switch region; other site 455488002768 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 455488002769 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488002770 active site 455488002771 YCII-related domain; Region: YCII; cl00999 455488002772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 455488002773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 455488002774 Helix-turn-helix domains; Region: HTH; cl00088 455488002775 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 455488002776 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 455488002777 active site 455488002778 hypothetical protein; Provisional; Region: PRK05858 455488002779 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 455488002780 PYR/PP interface [polypeptide binding]; other site 455488002781 dimer interface [polypeptide binding]; other site 455488002782 TPP binding site [chemical binding]; other site 455488002783 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 455488002784 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 455488002785 TPP-binding site; other site 455488002786 dimer interface [polypeptide binding]; other site 455488002787 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 455488002788 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 455488002789 putative ADP-binding pocket [chemical binding]; other site 455488002790 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488002791 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 455488002792 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 455488002793 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 455488002794 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488002795 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 455488002796 Low molecular weight phosphatase family; Region: LMWPc; cd00115 455488002797 active site 455488002798 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 455488002799 Coenzyme A binding pocket [chemical binding]; other site 455488002800 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 455488002801 Membrane transport protein; Region: Mem_trans; cl09117 455488002802 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 455488002803 putative DNA binding site [nucleotide binding]; other site 455488002804 putative Zn2+ binding site [ion binding]; other site 455488002805 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 455488002806 catalytic residues [active] 455488002807 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 455488002808 Predicted permease; Region: DUF318; pfam03773 455488002809 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488002810 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 455488002811 S-adenosylmethionine binding site [chemical binding]; other site 455488002812 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 455488002813 Rhomboid family; Region: Rhomboid; cl11446 455488002814 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 455488002815 Helix-turn-helix domains; Region: HTH; cl00088 455488002816 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 455488002817 dimerization interface [polypeptide binding]; other site 455488002818 Transposase IS200 like; Region: Y1_Tnp; cl00848 455488002819 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 455488002820 DNA binding site [nucleotide binding] 455488002821 Int/Topo IB signature motif; other site 455488002822 active site 455488002823 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 455488002824 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 455488002825 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002826 AAA domain; Region: AAA_23; pfam13476 455488002827 Walker A/P-loop; other site 455488002828 ATP binding site [chemical binding]; other site 455488002829 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002830 ABC transporter signature motif; other site 455488002831 Walker B; other site 455488002832 D-loop; other site 455488002833 H-loop/switch region; other site 455488002834 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 455488002835 non-specific DNA binding site [nucleotide binding]; other site 455488002836 salt bridge; other site 455488002837 sequence-specific DNA binding site [nucleotide binding]; other site 455488002838 Domain of unknown function (DUF955); Region: DUF955; cl01076 455488002839 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 455488002840 Ligand Binding Site [chemical binding]; other site 455488002841 TrwC relaxase; Region: TrwC; pfam08751 455488002842 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 455488002843 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 455488002844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002845 Family description; Region: UvrD_C_2; cl15862 455488002846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488002847 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 455488002848 Walker A motif; other site 455488002849 ATP binding site [chemical binding]; other site 455488002850 Walker B motif; other site 455488002851 ParB-like partition proteins; Region: parB_part; TIGR00180 455488002852 ParB-like nuclease domain; Region: ParBc; cl02129 455488002853 Protein of unknown function (DUF2026); Region: DUF2026; pfam09641 455488002854 hypothetical protein; Provisional; Region: yieM; PRK10997 455488002855 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 455488002856 metal ion-dependent adhesion site (MIDAS); other site 455488002857 MoxR-like ATPases [General function prediction only]; Region: COG0714 455488002858 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 455488002859 Walker A motif; other site 455488002860 ATP binding site [chemical binding]; other site 455488002861 Walker B motif; other site 455488002862 arginine finger; other site 455488002863 hypothetical protein; Reviewed; Region: PRK00024 455488002864 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 455488002865 MPN+ (JAMM) motif; other site 455488002866 Zinc-binding site [ion binding]; other site 455488002867 ParB-like nuclease domain; Region: ParBc; cl02129 455488002868 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 455488002869 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488002870 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488002871 active site 455488002872 ATP binding site [chemical binding]; other site 455488002873 substrate binding site [chemical binding]; other site 455488002874 activation loop (A-loop); other site 455488002875 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 455488002876 Abortive infection C-terminus; Region: Abi_C; pfam14355 455488002877 TIR domain; Region: TIR_2; cl15770 455488002878 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 455488002879 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 455488002880 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455488002881 catalytic residue [active] 455488002882 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 455488002883 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 455488002884 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 455488002885 DNA primase, catalytic core; Region: dnaG; TIGR01391 455488002886 CHC2 zinc finger; Region: zf-CHC2; cl15369 455488002887 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 455488002888 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 455488002889 active site 455488002890 metal binding site [ion binding]; metal-binding site 455488002891 interdomain interaction site; other site 455488002892 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 455488002893 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 455488002894 Type IV secretion system proteins; Region: T4SS; pfam07996 455488002895 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 455488002896 VirB8 protein; Region: VirB8; cl01500 455488002897 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 455488002898 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 455488002899 VirB7 interaction site; other site 455488002900 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 455488002901 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 455488002902 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 455488002903 Walker A motif; other site 455488002904 hexamer interface [polypeptide binding]; other site 455488002905 ATP binding site [chemical binding]; other site 455488002906 Walker B motif; other site 455488002907 Bacterial PH domain; Region: DUF304; cl01348 455488002908 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 455488002909 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 455488002910 Myosin tail; Region: Myosin_tail_1; pfam01576 455488002911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002913 TIGR02687 family protein; Region: TIGR02687 455488002914 PglZ domain; Region: PglZ; pfam08665 455488002915 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 455488002916 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 455488002917 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 455488002918 ATP binding site [chemical binding]; other site 455488002919 putative Mg++ binding site [ion binding]; other site 455488002920 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 455488002921 nucleotide binding region [chemical binding]; other site 455488002922 ATP-binding site [chemical binding]; other site 455488002923 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 455488002924 Isochorismatase family; Region: Isochorismatase; pfam00857 455488002925 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 455488002926 catalytic triad [active] 455488002927 dimer interface [polypeptide binding]; other site 455488002928 conserved cis-peptide bond; other site 455488002929 4Fe-4S binding domain; Region: Fer4; cl02805 455488002930 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 455488002931 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 455488002932 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 455488002933 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; cl15754 455488002934 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 455488002935 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 455488002936 active site 455488002937 HIGH motif; other site 455488002938 dimer interface [polypeptide binding]; other site 455488002939 KMSKS motif; other site 455488002940 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 455488002941 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488002942 putative active site [active] 455488002943 metal binding site [ion binding]; metal-binding site 455488002944 homodimer binding site [polypeptide binding]; other site 455488002945 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 455488002946 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488002947 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488002948 active site 455488002949 ATP binding site [chemical binding]; other site 455488002950 substrate binding site [chemical binding]; other site 455488002951 activation loop (A-loop); other site 455488002952 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 455488002953 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 455488002954 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488002955 catalytic residue [active] 455488002956 DHH family; Region: DHH; pfam01368 455488002957 endonuclease IV; Provisional; Region: PRK01060 455488002958 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 455488002959 AP (apurinic/apyrimidinic) site pocket; other site 455488002960 DNA interaction; other site 455488002961 Metal-binding active site; metal-binding site 455488002962 Fic/DOC family; Region: Fic; cl00960 455488002963 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 455488002964 homodimer interface [polypeptide binding]; other site 455488002965 substrate-cofactor binding pocket; other site 455488002966 catalytic residue [active] 455488002967 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 455488002968 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 455488002969 metal binding triad; other site 455488002970 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 455488002971 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 455488002972 metal binding triad; other site 455488002973 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 455488002974 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488002975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488002976 active site 455488002977 phosphorylation site [posttranslational modification] 455488002978 intermolecular recognition site; other site 455488002979 dimerization interface [polypeptide binding]; other site 455488002980 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 455488002981 Walker A motif; other site 455488002982 ATP binding site [chemical binding]; other site 455488002983 Walker B motif; other site 455488002984 arginine finger; other site 455488002985 Helix-turn-helix domains; Region: HTH; cl00088 455488002986 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 455488002987 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 455488002988 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 455488002989 active site 455488002990 catalytic site [active] 455488002991 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 455488002992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002993 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 455488002994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488002995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 455488002996 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 455488002997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 455488002998 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 455488002999 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488003000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003001 NAD(P) binding site [chemical binding]; other site 455488003002 active site 455488003003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003004 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 455488003005 NAD(P) binding site [chemical binding]; other site 455488003006 active site 455488003007 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 455488003008 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 455488003009 putative NAD(P) binding site [chemical binding]; other site 455488003010 catalytic Zn binding site [ion binding]; other site 455488003011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003012 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 455488003013 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 455488003014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 455488003015 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 455488003016 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 455488003017 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 455488003018 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 455488003019 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 455488003020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488003021 Walker A/P-loop; other site 455488003022 ATP binding site [chemical binding]; other site 455488003023 Q-loop/lid; other site 455488003024 ABC transporter signature motif; other site 455488003025 Walker B; other site 455488003026 D-loop; other site 455488003027 H-loop/switch region; other site 455488003028 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488003029 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 455488003030 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 455488003031 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 455488003032 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488003033 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 455488003034 DNA binding residues [nucleotide binding] 455488003035 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 455488003036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003037 NAD(P) binding site [chemical binding]; other site 455488003038 active site 455488003039 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 455488003040 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 455488003041 dimerization interface [polypeptide binding]; other site 455488003042 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488003043 dimer interface [polypeptide binding]; other site 455488003044 phosphorylation site [posttranslational modification] 455488003045 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488003046 ATP binding site [chemical binding]; other site 455488003047 Mg2+ binding site [ion binding]; other site 455488003048 G-X-G motif; other site 455488003049 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 455488003050 Surface antigen; Region: Bac_surface_Ag; cl03097 455488003051 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488003052 active site 455488003053 ATP binding site [chemical binding]; other site 455488003054 substrate binding site [chemical binding]; other site 455488003055 activation loop (A-loop); other site 455488003056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 455488003057 Uncharacterized conserved protein [Function unknown]; Region: COG1543 455488003058 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 455488003059 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 455488003060 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 455488003061 dimer interface [polypeptide binding]; other site 455488003062 putative anticodon binding site; other site 455488003063 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 455488003064 motif 1; other site 455488003065 active site 455488003066 motif 2; other site 455488003067 motif 3; other site 455488003068 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 455488003069 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488003070 FtsX-like permease family; Region: FtsX; cl15850 455488003071 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 455488003072 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488003073 Walker A/P-loop; other site 455488003074 ATP binding site [chemical binding]; other site 455488003075 Q-loop/lid; other site 455488003076 ABC transporter signature motif; other site 455488003077 Walker B; other site 455488003078 D-loop; other site 455488003079 H-loop/switch region; other site 455488003080 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488003081 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 455488003082 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488003083 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488003084 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488003085 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455488003086 Surface antigen; Region: Bac_surface_Ag; cl03097 455488003087 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 455488003088 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 455488003089 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 455488003090 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 455488003091 trimer interface [polypeptide binding]; other site 455488003092 active site 455488003093 UDP-GlcNAc binding site [chemical binding]; other site 455488003094 lipid binding site [chemical binding]; lipid-binding site 455488003095 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 455488003096 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 455488003097 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 455488003098 active site 455488003099 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 455488003100 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 455488003101 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 455488003102 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 455488003103 substrate binding site [chemical binding]; other site 455488003104 active site 455488003105 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 455488003106 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 455488003107 FeS/SAM binding site; other site 455488003108 HemN C-terminal domain; Region: HemN_C; pfam06969 455488003109 ferrochelatase; Reviewed; Region: hemH; PRK00035 455488003110 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 455488003111 C-terminal domain interface [polypeptide binding]; other site 455488003112 active site 455488003113 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 455488003114 active site 455488003115 N-terminal domain interface [polypeptide binding]; other site 455488003116 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 455488003117 TPR repeat; Region: TPR_11; pfam13414 455488003118 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 455488003119 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488003120 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 455488003121 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 455488003122 generic binding surface II; other site 455488003123 generic binding surface I; other site 455488003124 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 455488003125 Response regulator receiver domain; Region: Response_reg; pfam00072 455488003126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488003127 active site 455488003128 phosphorylation site [posttranslational modification] 455488003129 intermolecular recognition site; other site 455488003130 dimerization interface [polypeptide binding]; other site 455488003131 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 455488003132 substrate binding pocket [chemical binding]; other site 455488003133 aspartate-rich region 1; other site 455488003134 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 455488003135 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 455488003136 TPP-binding site; other site 455488003137 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 455488003138 PYR/PP interface [polypeptide binding]; other site 455488003139 dimer interface [polypeptide binding]; other site 455488003140 TPP binding site [chemical binding]; other site 455488003141 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 455488003142 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 455488003143 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 455488003144 RNA binding surface [nucleotide binding]; other site 455488003145 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; cl15754 455488003146 ribosome maturation protein RimP; Reviewed; Region: PRK00092 455488003147 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 455488003148 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 455488003149 Sm1 motif; other site 455488003150 D3 - B interaction site; other site 455488003151 D1 - D2 interaction site; other site 455488003152 Hfq - Hfq interaction site; other site 455488003153 RNA binding pocket [nucleotide binding]; other site 455488003154 Sm2 motif; other site 455488003155 NusA N-terminal domain; Region: NusA_N; pfam08529 455488003156 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 455488003157 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 455488003158 RNA binding site [nucleotide binding]; other site 455488003159 homodimer interface [polypeptide binding]; other site 455488003160 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 455488003161 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 455488003162 G-X-X-G motif; other site 455488003163 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 455488003164 putative RNA binding cleft [nucleotide binding]; other site 455488003165 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 455488003166 translation initiation factor IF-2; Region: IF-2; TIGR00487 455488003167 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 455488003168 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 455488003169 G1 box; other site 455488003170 putative GEF interaction site [polypeptide binding]; other site 455488003171 GTP/Mg2+ binding site [chemical binding]; other site 455488003172 Switch I region; other site 455488003173 G2 box; other site 455488003174 G3 box; other site 455488003175 Switch II region; other site 455488003176 G4 box; other site 455488003177 G5 box; other site 455488003178 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 455488003179 Translation-initiation factor 2; Region: IF-2; pfam11987 455488003180 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 455488003181 Protein of unknown function (DUF503); Region: DUF503; cl00669 455488003182 Ribosome-binding factor A; Region: RBFA; cl00542 455488003183 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 455488003184 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 455488003185 RNA binding site [nucleotide binding]; other site 455488003186 active site 455488003187 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 455488003188 16S/18S rRNA binding site [nucleotide binding]; other site 455488003189 S13e-L30e interaction site [polypeptide binding]; other site 455488003190 25S rRNA binding site [nucleotide binding]; other site 455488003191 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 455488003192 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 455488003193 RNase E interface [polypeptide binding]; other site 455488003194 trimer interface [polypeptide binding]; other site 455488003195 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 455488003196 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 455488003197 RNase E interface [polypeptide binding]; other site 455488003198 trimer interface [polypeptide binding]; other site 455488003199 active site 455488003200 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 455488003201 putative nucleic acid binding region [nucleotide binding]; other site 455488003202 G-X-X-G motif; other site 455488003203 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 455488003204 RNA binding site [nucleotide binding]; other site 455488003205 domain interface; other site 455488003206 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 455488003207 trimer interface [polypeptide binding]; other site 455488003208 active site 455488003209 adenylosuccinate lyase; Provisional; Region: PRK07492 455488003210 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 455488003211 tetramer interface [polypeptide binding]; other site 455488003212 active site 455488003213 GAF domain; Region: GAF; cl15785 455488003214 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488003215 dimer interface [polypeptide binding]; other site 455488003216 phosphorylation site [posttranslational modification] 455488003217 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488003218 ATP binding site [chemical binding]; other site 455488003219 Mg2+ binding site [ion binding]; other site 455488003220 G-X-G motif; other site 455488003221 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 455488003222 ATP binding site [chemical binding]; other site 455488003223 active site 455488003224 substrate binding site [chemical binding]; other site 455488003225 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 455488003226 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 455488003227 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488003228 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 455488003229 protein binding site [polypeptide binding]; other site 455488003230 phosphoglycolate phosphatase; Provisional; Region: PRK13222 455488003231 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 455488003232 motif II; other site 455488003233 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 455488003234 dimerization interface [polypeptide binding]; other site 455488003235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455488003236 Zn2+ binding site [ion binding]; other site 455488003237 Mg2+ binding site [ion binding]; other site 455488003238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488003239 active site 455488003240 phosphorylation site [posttranslational modification] 455488003241 intermolecular recognition site; other site 455488003242 dimerization interface [polypeptide binding]; other site 455488003243 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 455488003244 MoaE interaction surface [polypeptide binding]; other site 455488003245 MoeB interaction surface [polypeptide binding]; other site 455488003246 thiocarboxylated glycine; other site 455488003247 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 455488003248 MoaE homodimer interface [polypeptide binding]; other site 455488003249 MoaD interaction [polypeptide binding]; other site 455488003250 active site residues [active] 455488003251 RIP metalloprotease RseP; Region: TIGR00054 455488003252 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 455488003253 active site 455488003254 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 455488003255 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 455488003256 putative substrate binding region [chemical binding]; other site 455488003257 AMMECR1; Region: AMMECR1; cl00911 455488003258 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 455488003259 nudix motif; other site 455488003260 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 455488003261 active site clefts [active] 455488003262 zinc binding site [ion binding]; other site 455488003263 dimer interface [polypeptide binding]; other site 455488003264 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; cl00083 455488003265 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 455488003266 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 455488003267 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 455488003268 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 455488003269 EamA-like transporter family; Region: EamA; cl01037 455488003270 EamA-like transporter family; Region: EamA; cl01037 455488003271 PAS fold; Region: PAS_4; pfam08448 455488003272 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 455488003273 putative active site [active] 455488003274 heme pocket [chemical binding]; other site 455488003275 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 455488003276 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 455488003277 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488003278 dimer interface [polypeptide binding]; other site 455488003279 phosphorylation site [posttranslational modification] 455488003280 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488003281 ATP binding site [chemical binding]; other site 455488003282 Mg2+ binding site [ion binding]; other site 455488003283 G-X-G motif; other site 455488003284 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488003285 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 455488003286 active site 455488003287 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 455488003288 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488003289 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488003290 active site 455488003291 ATP binding site [chemical binding]; other site 455488003292 substrate binding site [chemical binding]; other site 455488003293 activation loop (A-loop); other site 455488003294 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 455488003295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488003296 active site 455488003297 phosphorylation site [posttranslational modification] 455488003298 intermolecular recognition site; other site 455488003299 dimerization interface [polypeptide binding]; other site 455488003300 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455488003301 Zn2+ binding site [ion binding]; other site 455488003302 Mg2+ binding site [ion binding]; other site 455488003303 transcription termination factor Rho; Provisional; Region: PRK12608 455488003304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488003305 Walker A motif; other site 455488003306 ATP binding site [chemical binding]; other site 455488003307 Walker B motif; other site 455488003308 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 455488003309 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 455488003310 oligomer interface [polypeptide binding]; other site 455488003311 tandem repeat interface [polypeptide binding]; other site 455488003312 active site residues [active] 455488003313 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 455488003314 tandem repeat interface [polypeptide binding]; other site 455488003315 oligomer interface [polypeptide binding]; other site 455488003316 active site residues [active] 455488003317 Thymidylate synthase complementing protein; Region: Thy1; cl03630 455488003318 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 455488003319 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 455488003320 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 455488003321 active site 455488003322 Zn binding site [ion binding]; other site 455488003323 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 455488003324 phosphopeptide binding site; other site 455488003325 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 455488003326 NAD(P) binding site [chemical binding]; other site 455488003327 catalytic residues [active] 455488003328 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 455488003329 putative active site [active] 455488003330 putative metal binding site [ion binding]; other site 455488003331 Uncharacterized conserved protein [Function unknown]; Region: COG3342 455488003332 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 455488003333 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 455488003334 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 455488003335 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 455488003336 dimer interface [polypeptide binding]; other site 455488003337 decamer (pentamer of dimers) interface [polypeptide binding]; other site 455488003338 catalytic triad [active] 455488003339 peroxidatic and resolving cysteines [active] 455488003340 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 455488003341 non-specific DNA binding site [nucleotide binding]; other site 455488003342 salt bridge; other site 455488003343 sequence-specific DNA binding site [nucleotide binding]; other site 455488003344 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488003345 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488003346 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 455488003347 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488003348 Haemolysin-III related; Region: HlyIII; cl03831 455488003349 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 455488003350 G1 box; other site 455488003351 GTP/Mg2+ binding site [chemical binding]; other site 455488003352 G2 box; other site 455488003353 Switch I region; other site 455488003354 G3 box; other site 455488003355 Switch II region; other site 455488003356 G4 box; other site 455488003357 G5 box; other site 455488003358 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 455488003359 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 455488003360 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 455488003361 active site pocket [active] 455488003362 cleavage site 455488003363 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 455488003364 DNA binding site [nucleotide binding] 455488003365 Int/Topo IB signature motif; other site 455488003366 active site 455488003367 catalytic residues [active] 455488003368 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 455488003369 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 455488003370 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 455488003371 HNH endonuclease; Region: HNH_3; pfam13392 455488003372 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 455488003373 Phage terminase, small subunit; Region: Terminase_4; cl01525 455488003374 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 455488003375 Phage Terminase; Region: Terminase_1; pfam03354 455488003376 Phage-related protein [Function unknown]; Region: COG4695; cl01923 455488003377 Phage portal protein; Region: Phage_portal; pfam04860 455488003378 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 455488003379 oligomer interface [polypeptide binding]; other site 455488003380 active site residues [active] 455488003381 Phage capsid family; Region: Phage_capsid; pfam05065 455488003382 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 455488003383 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 455488003384 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 455488003385 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 455488003386 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 455488003387 Putative phage tail protein; Region: Phage-tail_3; pfam13550 455488003388 secreted effector protein PipB2; Provisional; Region: PRK15196 455488003389 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 455488003390 protein-splicing catalytic site; other site 455488003391 thioester formation/cholesterol transfer; other site 455488003392 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 455488003393 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 455488003394 S-adenosylmethionine binding site [chemical binding]; other site 455488003395 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 455488003396 dimerization interface [polypeptide binding]; other site 455488003397 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488003398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488003399 dimer interface [polypeptide binding]; other site 455488003400 putative CheW interface [polypeptide binding]; other site 455488003401 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 455488003402 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 455488003403 putative NAD(P) binding site [chemical binding]; other site 455488003404 putative substrate binding site [chemical binding]; other site 455488003405 catalytic Zn binding site [ion binding]; other site 455488003406 structural Zn binding site [ion binding]; other site 455488003407 dimer interface [polypeptide binding]; other site 455488003408 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 455488003409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003410 NAD(P) binding site [chemical binding]; other site 455488003411 active site 455488003412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003413 NAD(P) binding site [chemical binding]; other site 455488003414 active site 455488003415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003416 active site 455488003417 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 455488003418 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 455488003419 AMP-binding enzyme; Region: AMP-binding; cl15778 455488003420 Phosphopantetheine attachment site; Region: PP-binding; cl09936 455488003421 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 455488003422 putative acyl-acceptor binding pocket; other site 455488003423 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 455488003424 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 455488003425 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488003426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003427 NAD(P) binding site [chemical binding]; other site 455488003428 active site 455488003429 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 455488003430 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 455488003431 putative [4Fe-4S] binding site [ion binding]; other site 455488003432 putative molybdopterin cofactor binding site [chemical binding]; other site 455488003433 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 455488003434 putative molybdopterin cofactor binding site; other site 455488003435 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 455488003436 Low-spin heme binding site [chemical binding]; other site 455488003437 D-pathway; other site 455488003438 Putative water exit pathway; other site 455488003439 Binuclear center (active site) [active] 455488003440 K-pathway; other site 455488003441 Putative proton exit pathway; other site 455488003442 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 455488003443 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 455488003444 Cytochrome c; Region: Cytochrom_C; cl11414 455488003445 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 455488003446 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 455488003447 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 455488003448 4Fe-4S binding domain; Region: Fer4_5; pfam12801 455488003449 4Fe-4S binding domain; Region: Fer4; cl02805 455488003450 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 455488003451 FixH; Region: FixH; cl01254 455488003452 FixH; Region: FixH; cl01254 455488003453 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 455488003454 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 455488003455 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 455488003456 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 455488003457 metal-binding site [ion binding] 455488003458 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 455488003459 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 455488003460 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 455488003461 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 455488003462 substrate binding site [chemical binding]; other site 455488003463 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 455488003464 substrate binding site [chemical binding]; other site 455488003465 ligand binding site [chemical binding]; other site 455488003466 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488003467 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 455488003468 heme-binding residues [chemical binding]; other site 455488003469 Aspartase; Region: Aspartase; cd01357 455488003470 aspartate ammonia-lyase; Provisional; Region: PRK13353 455488003471 active sites [active] 455488003472 tetramer interface [polypeptide binding]; other site 455488003473 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488003474 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 455488003475 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455488003476 active site 455488003477 HIGH motif; other site 455488003478 nucleotide binding site [chemical binding]; other site 455488003479 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 455488003480 KMSKS motif; other site 455488003481 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 455488003482 GatB domain; Region: GatB_Yqey; cl11497 455488003483 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 455488003484 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 455488003485 active site 455488003486 HIGH motif; other site 455488003487 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 455488003488 active site 455488003489 KMSKS motif; other site 455488003490 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 455488003491 active site 455488003492 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 455488003493 putative ligand binding pocket/active site [active] 455488003494 putative metal binding site [ion binding]; other site 455488003495 Response regulator receiver domain; Region: Response_reg; pfam00072 455488003496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488003497 active site 455488003498 phosphorylation site [posttranslational modification] 455488003499 intermolecular recognition site; other site 455488003500 dimerization interface [polypeptide binding]; other site 455488003501 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 455488003502 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 455488003503 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 455488003504 CAAX protease self-immunity; Region: Abi; cl00558 455488003505 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 455488003506 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455488003507 Zn2+ binding site [ion binding]; other site 455488003508 Mg2+ binding site [ion binding]; other site 455488003509 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 455488003510 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 455488003511 putative dimer interface [polypeptide binding]; other site 455488003512 putative active site [active] 455488003513 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455488003514 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 455488003515 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 455488003516 HSP70 interaction site [polypeptide binding]; other site 455488003517 Colicin V production protein; Region: Colicin_V; cl00567 455488003518 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 455488003519 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 455488003520 Walker A motif; other site 455488003521 ATP binding site [chemical binding]; other site 455488003522 Walker B motif; other site 455488003523 Arginase family; Region: Arginase; cl00306 455488003524 Predicted transcriptional regulator [Transcription]; Region: COG1959 455488003525 Helix-turn-helix domains; Region: HTH; cl00088 455488003526 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 455488003527 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488003528 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 455488003529 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488003530 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 455488003531 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488003532 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488003533 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 455488003534 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 455488003535 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 455488003536 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 455488003537 4Fe-4S binding domain; Region: Fer4; cl02805 455488003538 4Fe-4S binding domain; Region: Fer4; cl02805 455488003539 NADH dehydrogenase; Region: NADHdh; cl00469 455488003540 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 455488003541 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 455488003542 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 455488003543 NADH dehydrogenase subunit B; Provisional; Region: PRK14818 455488003544 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 455488003545 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 455488003546 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 455488003547 NADH dehydrogenase subunit B; Provisional; Region: PRK14817 455488003548 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 455488003549 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 455488003550 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 455488003551 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 455488003552 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 455488003553 catalytic loop [active] 455488003554 iron binding site [ion binding]; other site 455488003555 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 455488003556 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 455488003557 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 455488003558 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 455488003559 NADH dehydrogenase; Region: NADHdh; cl00469 455488003560 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 455488003561 4Fe-4S binding domain; Region: Fer4; cl02805 455488003562 muropeptide transporter; Validated; Region: ampG; PRK11010 455488003563 muropeptide transporter; Reviewed; Region: ampG; PRK11902 455488003564 hypothetical protein; Provisional; Region: PRK08609 455488003565 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 455488003566 active site 455488003567 primer binding site [nucleotide binding]; other site 455488003568 NTP binding site [chemical binding]; other site 455488003569 metal binding triad [ion binding]; metal-binding site 455488003570 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 455488003571 MPT binding site; other site 455488003572 trimer interface [polypeptide binding]; other site 455488003573 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 455488003574 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 455488003575 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 455488003576 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 455488003577 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 455488003578 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 455488003579 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 455488003580 phosphopeptide binding site; other site 455488003581 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 455488003582 phosphopeptide binding site; other site 455488003583 Domain of unknown function DUF77; Region: DUF77; cl00307 455488003584 Double zinc ribbon; Region: DZR; pfam12773 455488003585 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; cl00062 455488003586 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 455488003587 phosphopeptide binding site; other site 455488003588 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 455488003589 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488003590 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 455488003591 synthetase active site [active] 455488003592 NTP binding site [chemical binding]; other site 455488003593 metal binding site [ion binding]; metal-binding site 455488003594 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 455488003595 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 455488003596 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 455488003597 homotrimer interaction site [polypeptide binding]; other site 455488003598 putative active site [active] 455488003599 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 455488003600 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 455488003601 FeS/SAM binding site; other site 455488003602 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 455488003603 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 455488003604 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 455488003605 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 455488003606 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 455488003607 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 455488003608 Stage II sporulation protein; Region: SpoIID; pfam08486 455488003609 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 455488003610 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 455488003611 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 455488003612 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 455488003613 Preprotein translocase subunit; Region: YajC; cl00806 455488003614 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 455488003615 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 455488003616 Protein export membrane protein; Region: SecD_SecF; cl14618 455488003617 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 455488003618 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 455488003619 Protein export membrane protein; Region: SecD_SecF; cl14618 455488003620 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; cl00284 455488003621 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 455488003622 active site 455488003623 phosphorylation site [posttranslational modification] 455488003624 intermolecular recognition site; other site 455488003625 dimerization interface [polypeptide binding]; other site 455488003626 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 455488003627 DHH family; Region: DHH; pfam01368 455488003628 DHHA1 domain; Region: DHHA1; pfam02272 455488003629 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 455488003630 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 455488003631 NADP binding site [chemical binding]; other site 455488003632 dimer interface [polypeptide binding]; other site 455488003633 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 455488003634 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 455488003635 dimer interface [polypeptide binding]; other site 455488003636 anticodon binding site; other site 455488003637 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 455488003638 homodimer interface [polypeptide binding]; other site 455488003639 motif 1; other site 455488003640 active site 455488003641 motif 2; other site 455488003642 GAD domain; Region: GAD; pfam02938 455488003643 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 455488003644 active site 455488003645 motif 3; other site 455488003646 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 455488003647 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 455488003648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003649 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 455488003650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003651 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 455488003652 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 455488003653 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 455488003654 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 455488003655 ATP binding site [chemical binding]; other site 455488003656 putative Mg++ binding site [ion binding]; other site 455488003657 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 455488003658 nucleotide binding region [chemical binding]; other site 455488003659 ATP-binding site [chemical binding]; other site 455488003660 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488003661 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488003662 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488003663 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488003664 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488003665 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 455488003666 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 455488003667 dimerization interface [polypeptide binding]; other site 455488003668 DPS ferroxidase diiron center [ion binding]; other site 455488003669 ion pore; other site 455488003670 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 455488003671 thiS-thiF/thiG interaction site; other site 455488003672 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 455488003673 ThiS interaction site; other site 455488003674 putative active site [active] 455488003675 tetramer interface [polypeptide binding]; other site 455488003676 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 455488003677 active site 455488003678 thiamine phosphate binding site [chemical binding]; other site 455488003679 pyrophosphate binding site [ion binding]; other site 455488003680 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 455488003681 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 455488003682 S-adenosylmethionine binding site [chemical binding]; other site 455488003683 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 455488003684 active site 455488003685 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 455488003686 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 455488003687 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 455488003688 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 455488003689 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 455488003690 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 455488003691 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 455488003692 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 455488003693 putative active site; other site 455488003694 catalytic residue [active] 455488003695 Protein of unknown function (DUF507); Region: DUF507; cl01112 455488003696 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 455488003697 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 455488003698 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 455488003699 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 455488003700 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 455488003701 catalytic residue [active] 455488003702 Maf-like protein; Region: Maf; pfam02545 455488003703 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 455488003704 active site 455488003705 dimer interface [polypeptide binding]; other site 455488003706 SurA N-terminal domain; Region: SurA_N_3; cl07813 455488003707 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 455488003708 PPIC-type PPIASE domain; Region: Rotamase; cl08278 455488003709 rod shape-determining protein MreC; Region: MreC; pfam04085 455488003710 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 455488003711 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 455488003712 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488003713 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 455488003714 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 455488003715 catalytic residues [active] 455488003716 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 455488003717 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 455488003718 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 455488003719 tRNA; other site 455488003720 putative tRNA binding site [nucleotide binding]; other site 455488003721 putative NADP binding site [chemical binding]; other site 455488003722 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 455488003723 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 455488003724 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 455488003725 domain interfaces; other site 455488003726 active site 455488003727 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 455488003728 active site 455488003729 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 455488003730 Uncharacterized conserved protein [Function unknown]; Region: COG0585 455488003731 PSTD1: Pseudouridine synthase, a subgroup of the TruD family. This group consists of several hypothetical archeal pseudouridine synthases assigned to the TruD family of psuedouridine synthases. Pseudouridine synthases catalyze the isomerization of...; Region: PSTD1; cd02577 455488003732 active site 455488003733 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 455488003734 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 455488003735 PHP-associated; Region: PHP_C; pfam13263 455488003736 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; cl00083 455488003737 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 455488003738 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 455488003739 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 455488003740 active site 455488003741 effector binding site; other site 455488003742 dimer interface [polypeptide binding]; other site 455488003743 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 455488003744 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 455488003745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003746 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 455488003747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003748 FAD dependent oxidoreductase; Region: DAO; pfam01266 455488003749 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 455488003750 Sulfatase; Region: Sulfatase; cl10460 455488003751 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 455488003752 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 455488003753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003754 NAD(P) binding site [chemical binding]; other site 455488003755 active site 455488003756 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 455488003757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003758 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 455488003759 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 455488003760 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488003761 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488003762 active site 455488003763 ATP binding site [chemical binding]; other site 455488003764 substrate binding site [chemical binding]; other site 455488003765 activation loop (A-loop); other site 455488003766 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488003767 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 455488003768 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 455488003769 DNA binding residues [nucleotide binding] 455488003770 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488003771 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 455488003772 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 455488003773 purine monophosphate binding site [chemical binding]; other site 455488003774 dimer interface [polypeptide binding]; other site 455488003775 putative catalytic residues [active] 455488003776 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 455488003777 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 455488003778 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 455488003779 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 455488003780 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488003781 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 455488003782 AIR carboxylase; Region: AIRC; cl00310 455488003783 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 455488003784 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 455488003785 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 455488003786 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 455488003787 O-Antigen ligase; Region: Wzy_C; cl04850 455488003788 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488003789 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 455488003790 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 455488003791 Walker A/P-loop; other site 455488003792 ATP binding site [chemical binding]; other site 455488003793 Q-loop/lid; other site 455488003794 ABC transporter signature motif; other site 455488003795 Walker B; other site 455488003796 D-loop; other site 455488003797 H-loop/switch region; other site 455488003798 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 455488003799 putative homodimer interface [polypeptide binding]; other site 455488003800 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 455488003801 active site 455488003802 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 455488003803 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 455488003804 DXD motif; other site 455488003805 N-glycosyltransferase; Provisional; Region: PRK11204 455488003806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003807 Bacterial sugar transferase; Region: Bac_transf; cl00939 455488003808 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 455488003809 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 455488003810 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 455488003811 dimer interface [polypeptide binding]; other site 455488003812 active site 455488003813 Schiff base residues; other site 455488003814 D-alanyl-alanine synthetase A; Provisional; Region: PRK14571 455488003815 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488003816 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 455488003817 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 455488003818 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488003819 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 455488003820 homodimer interface [polypeptide binding]; other site 455488003821 homotetramer interface [polypeptide binding]; other site 455488003822 active site pocket [active] 455488003823 cleavage site 455488003824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 455488003825 Integrase core domain; Region: rve; cl01316 455488003826 transposase/IS protein; Provisional; Region: PRK09183 455488003827 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 455488003828 Walker A motif; other site 455488003829 ATP binding site [chemical binding]; other site 455488003830 Walker B motif; other site 455488003831 arginine finger; other site 455488003832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488003833 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488003834 ATP binding site [chemical binding]; other site 455488003835 Mg2+ binding site [ion binding]; other site 455488003836 G-X-G motif; other site 455488003837 Response regulator receiver domain; Region: Response_reg; pfam00072 455488003838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488003839 active site 455488003840 phosphorylation site [posttranslational modification] 455488003841 intermolecular recognition site; other site 455488003842 dimerization interface [polypeptide binding]; other site 455488003843 Helix-turn-helix domains; Region: HTH; cl00088 455488003844 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 455488003845 dimerization interface [polypeptide binding]; other site 455488003846 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 455488003847 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 455488003848 TPP-binding site [chemical binding]; other site 455488003849 tetramer interface [polypeptide binding]; other site 455488003850 heterodimer interface [polypeptide binding]; other site 455488003851 phosphorylation loop region [posttranslational modification] 455488003852 Lysine biosynthesis enzyme LysX; Region: LysX_arch; TIGR02144 455488003853 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488003854 hypothetical protein; Provisional; Region: PRK07206 455488003855 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488003856 DNA binding residues [nucleotide binding] 455488003857 hypothetical protein; Provisional; Region: PRK08317 455488003858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003859 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 455488003860 FeS/SAM binding site; other site 455488003861 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 455488003862 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 455488003863 non-specific DNA binding site [nucleotide binding]; other site 455488003864 salt bridge; other site 455488003865 sequence-specific DNA binding site [nucleotide binding]; other site 455488003866 Response regulator receiver domain; Region: Response_reg; pfam00072 455488003867 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 455488003868 dimer interface [polypeptide binding]; other site 455488003869 putative functional site; other site 455488003870 putative MPT binding site; other site 455488003871 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 455488003872 ribonuclease R; Region: RNase_R; TIGR02063 455488003873 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 455488003874 RNB domain; Region: RNB; pfam00773 455488003875 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 play an important...; Region: S1_RNase_R; cd04471 455488003876 RNA binding site [nucleotide binding]; other site 455488003877 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 455488003878 FOG: CBS domain [General function prediction only]; Region: COG0517 455488003879 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 455488003880 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 455488003881 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 455488003882 Walker A/P-loop; other site 455488003883 ATP binding site [chemical binding]; other site 455488003884 Q-loop/lid; other site 455488003885 ABC transporter signature motif; other site 455488003886 Walker B; other site 455488003887 D-loop; other site 455488003888 H-loop/switch region; other site 455488003889 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 455488003890 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 455488003891 Walker A/P-loop; other site 455488003892 ATP binding site [chemical binding]; other site 455488003893 Q-loop/lid; other site 455488003894 ABC transporter signature motif; other site 455488003895 Walker B; other site 455488003896 D-loop; other site 455488003897 H-loop/switch region; other site 455488003898 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 455488003899 TM-ABC transporter signature motif; other site 455488003900 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 455488003901 TM-ABC transporter signature motif; other site 455488003902 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 455488003903 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 455488003904 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 455488003905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488003906 Walker A/P-loop; other site 455488003907 ATP binding site [chemical binding]; other site 455488003908 Q-loop/lid; other site 455488003909 ABC transporter signature motif; other site 455488003910 Walker B; other site 455488003911 D-loop; other site 455488003912 H-loop/switch region; other site 455488003913 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 455488003914 Smr domain; Region: Smr; cl02619 455488003915 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 455488003916 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 455488003917 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 455488003918 NodB motif; other site 455488003919 putative active site [active] 455488003920 putative catalytic site [active] 455488003921 putative Zn binding site [ion binding]; other site 455488003922 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 455488003923 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488003924 DNA binding residues [nucleotide binding] 455488003925 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 455488003926 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 455488003927 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 455488003928 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 455488003929 active site 455488003930 (T/H)XGH motif; other site 455488003931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003932 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 455488003933 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 455488003934 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 455488003935 Walker A motif; other site 455488003936 ATP binding site [chemical binding]; other site 455488003937 Walker B motif; other site 455488003938 arginine finger; other site 455488003939 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 455488003940 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 455488003941 Walker A motif; other site 455488003942 ATP binding site [chemical binding]; other site 455488003943 Walker B motif; other site 455488003944 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 455488003945 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 455488003946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488003947 4Fe-4S binding domain; Region: Fer4; cl02805 455488003948 4Fe-4S binding domain; Region: Fer4; cl02805 455488003949 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 455488003950 iron-sulfur cluster [ion binding]; other site 455488003951 [2Fe-2S] cluster binding site [ion binding]; other site 455488003952 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 455488003953 interchain domain interface [polypeptide binding]; other site 455488003954 intrachain domain interface; other site 455488003955 heme bL binding site [chemical binding]; other site 455488003956 heme bH binding site [chemical binding]; other site 455488003957 Qo binding site; other site 455488003958 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 455488003959 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 455488003960 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 455488003961 nitrous-oxide reductase; Validated; Region: PRK02888 455488003962 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488003963 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 455488003964 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 455488003965 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 455488003966 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 455488003967 Walker A/P-loop; other site 455488003968 ATP binding site [chemical binding]; other site 455488003969 Q-loop/lid; other site 455488003970 ABC transporter signature motif; other site 455488003971 Walker B; other site 455488003972 D-loop; other site 455488003973 H-loop/switch region; other site 455488003974 NosL; Region: NosL; cl01769 455488003975 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 455488003976 active site 455488003977 nucleophile elbow; other site 455488003978 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 455488003979 active site 455488003980 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488003981 Tetratricopeptide repeat; Region: TPR_16; pfam13432 455488003982 TPR motif; other site 455488003983 binding surface 455488003984 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 455488003985 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 455488003986 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 455488003987 ring oligomerisation interface [polypeptide binding]; other site 455488003988 ATP/Mg binding site [chemical binding]; other site 455488003989 stacking interactions; other site 455488003990 hinge regions; other site 455488003991 Response regulator receiver domain; Region: Response_reg; pfam00072 455488003992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488003993 active site 455488003994 phosphorylation site [posttranslational modification] 455488003995 intermolecular recognition site; other site 455488003996 dimerization interface [polypeptide binding]; other site 455488003997 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488003998 metal binding site [ion binding]; metal-binding site 455488003999 active site 455488004000 I-site; other site 455488004001 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 455488004002 Response regulator receiver domain; Region: Response_reg; pfam00072 455488004003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004004 active site 455488004005 phosphorylation site [posttranslational modification] 455488004006 intermolecular recognition site; other site 455488004007 dimerization interface [polypeptide binding]; other site 455488004008 valyl-tRNA synthetase; Provisional; Region: valS; PRK14900 455488004009 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 455488004010 HIGH motif; other site 455488004011 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 455488004012 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 455488004013 active site 455488004014 KMSKS motif; other site 455488004015 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 455488004016 tRNA binding surface [nucleotide binding]; other site 455488004017 anticodon binding site; other site 455488004018 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 455488004019 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 455488004020 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 455488004021 dimerization interface [polypeptide binding]; other site 455488004022 active site 455488004023 Helix-turn-helix domains; Region: HTH; cl00088 455488004024 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 455488004025 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 455488004026 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 455488004027 Type III pantothenate kinase; Region: Pan_kinase; cl09130 455488004028 integral membrane protein MviN; Region: mviN; TIGR01695 455488004029 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 455488004030 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 455488004031 Response regulator receiver domain; Region: Response_reg; pfam00072 455488004032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004033 active site 455488004034 phosphorylation site [posttranslational modification] 455488004035 intermolecular recognition site; other site 455488004036 dimerization interface [polypeptide binding]; other site 455488004037 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 455488004038 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488004039 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 455488004040 DNA binding residues [nucleotide binding] 455488004041 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 455488004042 Radical SAM superfamily; Region: Radical_SAM; pfam04055 455488004043 FeS/SAM binding site; other site 455488004044 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 455488004045 PUA domain; Region: PUA; cl00607 455488004046 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; cl15754 455488004047 CAAX protease self-immunity; Region: Abi; cl00558 455488004048 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 455488004049 Flavoprotein; Region: Flavoprotein; cl08021 455488004050 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 455488004051 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 455488004052 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 455488004053 Fe-S cluster binding site [ion binding]; other site 455488004054 active site 455488004055 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 455488004056 active site residues [active] 455488004057 dimer interface [polypeptide binding]; other site 455488004058 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 455488004059 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 455488004060 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 455488004061 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 455488004062 catalytic nucleophile [active] 455488004063 putative acyltransferase; Provisional; Region: PRK05790 455488004064 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 455488004065 dimer interface [polypeptide binding]; other site 455488004066 active site 455488004067 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 455488004068 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 455488004069 Uncharacterized conserved protein [Function unknown]; Region: COG1912 455488004070 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 455488004071 PilZ domain; Region: PilZ; cl01260 455488004072 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 455488004073 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; cl15754 455488004074 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; cl15754 455488004075 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 455488004076 AMP-binding enzyme; Region: AMP-binding; cl15778 455488004077 AMP-binding enzyme; Region: AMP-binding; cl15778 455488004078 Gram-negative bacterial tonB protein; Region: TonB; cl10048 455488004079 Gram-negative bacterial tonB protein; Region: TonB; cl10048 455488004080 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488004081 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; cl00284 455488004082 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 455488004083 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 455488004084 Peptidase family M48; Region: Peptidase_M48; cl12018 455488004085 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 455488004086 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 455488004087 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 455488004088 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 455488004089 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 455488004090 FeS/SAM binding site; other site 455488004091 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 455488004092 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 455488004093 trimer interface [polypeptide binding]; other site 455488004094 putative metal binding site [ion binding]; other site 455488004095 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 455488004096 ligand binding site [chemical binding]; other site 455488004097 flexible hinge region; other site 455488004098 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 455488004099 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 455488004100 PilZ domain; Region: PilZ; cl01260 455488004101 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455488004102 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 455488004103 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 455488004104 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 455488004105 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 455488004106 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 455488004107 active site 455488004108 GMP synthase; Reviewed; Region: guaA; PRK00074 455488004109 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 455488004110 AMP/PPi binding site [chemical binding]; other site 455488004111 candidate oxyanion hole; other site 455488004112 catalytic triad [active] 455488004113 potential glutamine specificity residues [chemical binding]; other site 455488004114 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 455488004115 ATP Binding subdomain [chemical binding]; other site 455488004116 Ligand Binding sites [chemical binding]; other site 455488004117 Dimerization subdomain; other site 455488004118 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 455488004119 tetratricopeptide repeat protein; Provisional; Region: PRK11788 455488004120 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 455488004121 AMP-binding enzyme; Region: AMP-binding; cl15778 455488004122 Response regulator receiver domain; Region: Response_reg; pfam00072 455488004123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004124 active site 455488004125 phosphorylation site [posttranslational modification] 455488004126 intermolecular recognition site; other site 455488004127 dimerization interface [polypeptide binding]; other site 455488004128 SCP-2 sterol transfer family; Region: SCP2; cl01225 455488004129 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 455488004130 CoA-transferase family III; Region: CoA_transf_3; pfam02515 455488004131 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 455488004132 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 455488004133 intersubunit interface [polypeptide binding]; other site 455488004134 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 455488004135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488004136 Walker A/P-loop; other site 455488004137 ATP binding site [chemical binding]; other site 455488004138 Q-loop/lid; other site 455488004139 ABC transporter signature motif; other site 455488004140 Walker B; other site 455488004141 D-loop; other site 455488004142 H-loop/switch region; other site 455488004143 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 455488004144 Protein of unknown function (DUF554); Region: DUF554; cl00784 455488004145 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488004146 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 455488004147 active site 455488004148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004149 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 455488004150 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 455488004151 dimer interface [polypeptide binding]; other site 455488004152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488004153 catalytic residue [active] 455488004154 aspartate aminotransferase; Provisional; Region: PRK06836 455488004155 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 455488004156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488004157 homodimer interface [polypeptide binding]; other site 455488004158 catalytic residue [active] 455488004159 Rhomboid family; Region: Rhomboid; cl11446 455488004160 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488004161 TPR repeat; Region: TPR_11; pfam13414 455488004162 binding surface 455488004163 TPR motif; other site 455488004164 Sulphur transport; Region: Sulf_transp; cl01018 455488004165 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 455488004166 Moco binding site; other site 455488004167 metal coordination site [ion binding]; other site 455488004168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004169 active site 455488004170 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488004171 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 455488004172 lipoyl attachment site [posttranslational modification]; other site 455488004173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004174 NAD(P) binding site [chemical binding]; other site 455488004175 active site 455488004176 Predicted dehydrogenase [General function prediction only]; Region: COG5322 455488004177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004178 NAD(P) binding pocket [chemical binding]; other site 455488004179 Methyltransferase domain; Region: Methyltransf_31; pfam13847 455488004180 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 455488004181 S-adenosylmethionine binding site [chemical binding]; other site 455488004182 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 455488004183 putative [Fe4-S4] binding site [ion binding]; other site 455488004184 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 455488004185 putative molybdopterin cofactor binding site [chemical binding]; other site 455488004186 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 455488004187 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 455488004188 putative molybdopterin cofactor binding site; other site 455488004189 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 455488004190 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488004191 putative NAD(P) binding site [chemical binding]; other site 455488004192 Helix-turn-helix domains; Region: HTH; cl00088 455488004193 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 455488004194 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488004195 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 455488004196 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 455488004197 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488004198 active site 455488004199 metal binding site [ion binding]; metal-binding site 455488004200 DNA binding site [nucleotide binding] 455488004201 Epoxide hydrolase N terminus; Region: EHN; pfam06441 455488004202 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 455488004203 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488004204 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 455488004205 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 455488004206 putative hydrophobic ligand binding site [chemical binding]; other site 455488004207 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 455488004208 elongation factor G; Reviewed; Region: PRK12740 455488004209 G1 box; other site 455488004210 putative GEF interaction site [polypeptide binding]; other site 455488004211 GTP/Mg2+ binding site [chemical binding]; other site 455488004212 Switch I region; other site 455488004213 G2 box; other site 455488004214 G3 box; other site 455488004215 Switch II region; other site 455488004216 G4 box; other site 455488004217 G5 box; other site 455488004218 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 455488004219 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 455488004220 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 455488004221 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455488004222 putative peptidoglycan binding site; other site 455488004223 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 455488004224 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 455488004225 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 455488004226 Moco binding site; other site 455488004227 metal coordination site [ion binding]; other site 455488004228 dimerization interface [polypeptide binding]; other site 455488004229 Cytochrome c; Region: Cytochrom_C; cl11414 455488004230 Cytochrome c; Region: Cytochrom_C; cl11414 455488004231 Predicted secreted protein [Function unknown]; Region: COG5501 455488004232 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 455488004233 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 455488004234 DsrE/DsrF-like family; Region: DrsE; cl00672 455488004235 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 455488004236 active site 455488004237 metal binding site [ion binding]; metal-binding site 455488004238 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 455488004239 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488004240 Cytochrome c; Region: Cytochrom_C; cl11414 455488004241 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 455488004242 Cu(I) binding site [ion binding]; other site 455488004243 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 455488004244 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488004245 Cytochrome c; Region: Cytochrom_C; cl11414 455488004246 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 455488004247 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 455488004248 D-pathway; other site 455488004249 Low-spin heme binding site [chemical binding]; other site 455488004250 Putative water exit pathway; other site 455488004251 Binuclear center (active site) [active] 455488004252 K-pathway; other site 455488004253 Putative proton exit pathway; other site 455488004254 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 455488004255 Subunit I/III interface [polypeptide binding]; other site 455488004256 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 455488004257 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 455488004258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004259 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 455488004260 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 455488004261 S-adenosylmethionine binding site [chemical binding]; other site 455488004262 Cupin domain; Region: Cupin_2; cl09118 455488004263 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 455488004264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 455488004265 OsmC-like protein; Region: OsmC; cl00767 455488004266 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 455488004267 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 455488004268 tetramer interface [polypeptide binding]; other site 455488004269 active site 455488004270 Mg2+/Mn2+ binding site [ion binding]; other site 455488004271 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 455488004272 putative oxidoreductase; Provisional; Region: PRK13984 455488004273 4Fe-4S binding domain; Region: Fer4; cl02805 455488004274 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 455488004275 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 455488004276 Predicted integral membrane protein [Function unknown]; Region: COG0392 455488004277 Uncharacterized conserved protein [Function unknown]; Region: COG2898 455488004278 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 455488004279 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 455488004280 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488004281 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488004282 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488004283 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488004284 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488004285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488004286 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 455488004287 DNA binding residues [nucleotide binding] 455488004288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 455488004289 NMT1-like family; Region: NMT1_2; cl15260 455488004290 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 455488004291 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 455488004292 Uncharacterized conserved protein (DUF2277); Region: DUF2277; cl02349 455488004293 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 455488004294 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 455488004295 tetrameric interface [polypeptide binding]; other site 455488004296 NAD binding site [chemical binding]; other site 455488004297 catalytic residues [active] 455488004298 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488004299 Helix-turn-helix domains; Region: HTH; cl00088 455488004300 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 455488004301 dimerization interface [polypeptide binding]; other site 455488004302 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488004303 dimer interface [polypeptide binding]; other site 455488004304 phosphorylation site [posttranslational modification] 455488004305 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 455488004306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004307 ATP binding site [chemical binding]; other site 455488004308 Mg2+ binding site [ion binding]; other site 455488004309 G-X-G motif; other site 455488004310 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488004311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004312 active site 455488004313 phosphorylation site [posttranslational modification] 455488004314 intermolecular recognition site; other site 455488004315 dimerization interface [polypeptide binding]; other site 455488004316 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 455488004317 Walker A motif; other site 455488004318 ATP binding site [chemical binding]; other site 455488004319 Walker B motif; other site 455488004320 arginine finger; other site 455488004321 Helix-turn-helix domains; Region: HTH; cl00088 455488004322 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 455488004323 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488004324 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488004325 multidrug efflux protein; Reviewed; Region: PRK09579 455488004326 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 455488004327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 455488004328 DNA-binding site [nucleotide binding]; DNA binding site 455488004329 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 455488004330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488004331 homodimer interface [polypeptide binding]; other site 455488004332 catalytic residue [active] 455488004333 Transcriptional activator [Transcription]; Region: ChrR; COG3806 455488004334 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 455488004335 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488004336 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 455488004337 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488004338 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488004339 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 455488004340 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 455488004341 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 455488004342 Cupin domain; Region: Cupin_2; cl09118 455488004343 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 455488004344 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 455488004345 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 455488004346 S-adenosylmethionine binding site [chemical binding]; other site 455488004347 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 455488004348 malate dehydrogenase; Reviewed; Region: PRK06223 455488004349 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 455488004350 NAD(P) binding site [chemical binding]; other site 455488004351 dimer interface [polypeptide binding]; other site 455488004352 tetramer (dimer of dimers) interface [polypeptide binding]; other site 455488004353 substrate binding site [chemical binding]; other site 455488004354 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 455488004355 Ubiquitin-like proteins; Region: UBQ; cl00155 455488004356 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 455488004357 tetramer interface [polypeptide binding]; other site 455488004358 active site 455488004359 Mg2+/Mn2+ binding site [ion binding]; other site 455488004360 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 455488004361 5'-3' exonuclease; Region: 53EXOc; smart00475 455488004362 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 455488004363 active site 455488004364 metal binding site 1 [ion binding]; metal-binding site 455488004365 putative 5' ssDNA interaction site; other site 455488004366 metal binding site 3; metal-binding site 455488004367 metal binding site 2 [ion binding]; metal-binding site 455488004368 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 455488004369 putative DNA binding site [nucleotide binding]; other site 455488004370 putative metal binding site [ion binding]; other site 455488004371 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 455488004372 Nitrogen regulatory protein P-II; Region: P-II; cl00412 455488004373 Nitrogen regulatory protein P-II; Region: P-II; smart00938 455488004374 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488004375 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488004376 Nitroreductase-like family 2. 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_2; cd02138 455488004377 putative FMN binding site [chemical binding]; other site 455488004378 LysR family transcriptional regulator; Provisional; Region: PRK14997 455488004379 Helix-turn-helix domains; Region: HTH; cl00088 455488004380 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 455488004381 putative effector binding pocket; other site 455488004382 dimerization interface [polypeptide binding]; other site 455488004383 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 455488004384 putative substrate translocation pore; other site 455488004385 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 455488004386 Helix-turn-helix domains; Region: HTH; cl00088 455488004387 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 455488004388 dimerization interface [polypeptide binding]; other site 455488004389 substrate binding pocket [chemical binding]; other site 455488004390 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 455488004391 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 455488004392 active site 1 [active] 455488004393 dimer interface [polypeptide binding]; other site 455488004394 hexamer interface [polypeptide binding]; other site 455488004395 active site 2 [active] 455488004396 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 455488004397 dimerization interface [polypeptide binding]; other site 455488004398 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488004399 dimer interface [polypeptide binding]; other site 455488004400 phosphorylation site [posttranslational modification] 455488004401 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004402 ATP binding site [chemical binding]; other site 455488004403 Mg2+ binding site [ion binding]; other site 455488004404 G-X-G motif; other site 455488004405 Response regulator receiver domain; Region: Response_reg; pfam00072 455488004406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004407 active site 455488004408 phosphorylation site [posttranslational modification] 455488004409 intermolecular recognition site; other site 455488004410 dimerization interface [polypeptide binding]; other site 455488004411 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 455488004412 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 455488004413 TIGR03440 family protein; Region: unchr_TIGR03440 455488004414 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 455488004415 mercuric reductase; Validated; Region: PRK06370 455488004416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 455488004417 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 455488004418 Pirin-related protein [General function prediction only]; Region: COG1741 455488004419 Cupin domain; Region: Cupin_2; cl09118 455488004420 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 455488004421 EamA-like transporter family; Region: EamA; cl01037 455488004422 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 455488004423 dimerization interface [polypeptide binding]; other site 455488004424 putative effector binding pocket; other site 455488004425 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 455488004426 catalytic residues [active] 455488004427 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 455488004428 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488004429 putative active site [active] 455488004430 heme pocket [chemical binding]; other site 455488004431 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488004432 dimer interface [polypeptide binding]; other site 455488004433 phosphorylation site [posttranslational modification] 455488004434 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004435 ATP binding site [chemical binding]; other site 455488004436 Mg2+ binding site [ion binding]; other site 455488004437 G-X-G motif; other site 455488004438 Response regulator receiver domain; Region: Response_reg; pfam00072 455488004439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004440 active site 455488004441 phosphorylation site [posttranslational modification] 455488004442 intermolecular recognition site; other site 455488004443 dimerization interface [polypeptide binding]; other site 455488004444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004446 active site 455488004447 FOG: CBS domain [General function prediction only]; Region: COG0517 455488004448 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 455488004449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488004450 Helix-turn-helix domains; Region: HTH; cl00088 455488004451 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 455488004452 putative dimerization interface [polypeptide binding]; other site 455488004453 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488004454 ATP binding site [chemical binding]; other site 455488004455 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 455488004456 ResB-like family; Region: ResB; pfam05140 455488004457 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 455488004458 Rubrerythrin [Energy production and conversion]; Region: COG1592 455488004459 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 455488004460 binuclear metal center [ion binding]; other site 455488004461 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 455488004462 iron binding site [ion binding]; other site 455488004463 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 455488004464 PAS fold; Region: PAS_3; pfam08447 455488004465 putative active site [active] 455488004466 heme pocket [chemical binding]; other site 455488004467 PAS fold; Region: PAS_3; pfam08447 455488004468 GAF domain; Region: GAF; cl15785 455488004469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488004470 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488004471 dimer interface [polypeptide binding]; other site 455488004472 phosphorylation site [posttranslational modification] 455488004473 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004474 ATP binding site [chemical binding]; other site 455488004475 Mg2+ binding site [ion binding]; other site 455488004476 G-X-G motif; other site 455488004477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004478 Response regulator receiver domain; Region: Response_reg; pfam00072 455488004479 active site 455488004480 phosphorylation site [posttranslational modification] 455488004481 intermolecular recognition site; other site 455488004482 dimerization interface [polypeptide binding]; other site 455488004483 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 455488004484 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488004485 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 455488004486 DNA binding residues [nucleotide binding] 455488004487 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 455488004488 active site 2 [active] 455488004489 active site 1 [active] 455488004490 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 455488004491 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 455488004492 dimerization interface [polypeptide binding]; other site 455488004493 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488004494 dimer interface [polypeptide binding]; other site 455488004495 putative CheW interface [polypeptide binding]; other site 455488004496 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 455488004497 Nitrogen fixation protein NifW; Region: NifW; cl03935 455488004498 Transcriptional regulator; Region: Transcrip_reg; cl00361 455488004499 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 455488004500 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 455488004501 Walker A/P-loop; other site 455488004502 ATP binding site [chemical binding]; other site 455488004503 Q-loop/lid; other site 455488004504 ABC transporter signature motif; other site 455488004505 Walker B; other site 455488004506 D-loop; other site 455488004507 H-loop/switch region; other site 455488004508 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 455488004509 TM-ABC transporter signature motif; other site 455488004510 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 455488004511 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 455488004512 Walker A/P-loop; other site 455488004513 ATP binding site [chemical binding]; other site 455488004514 Q-loop/lid; other site 455488004515 ABC transporter signature motif; other site 455488004516 Walker B; other site 455488004517 D-loop; other site 455488004518 H-loop/switch region; other site 455488004519 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 455488004520 TM-ABC transporter signature motif; other site 455488004521 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 455488004522 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 455488004523 putative ligand binding site [chemical binding]; other site 455488004524 PilZ domain; Region: PilZ; cl01260 455488004525 NMT1-like family; Region: NMT1_2; cl15260 455488004526 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 455488004527 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 455488004528 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 455488004529 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 455488004530 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 455488004531 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 455488004532 [4Fe-4S] binding site [ion binding]; other site 455488004533 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 455488004534 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 455488004535 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 455488004536 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 455488004537 molybdopterin cofactor binding site; other site 455488004538 PAS domain S-box; Region: sensory_box; TIGR00229 455488004539 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 455488004540 putative active site [active] 455488004541 heme pocket [chemical binding]; other site 455488004542 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 455488004543 putative acyl-acceptor binding pocket; other site 455488004544 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 455488004545 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 455488004546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004547 Transposase IS200 like; Region: Y1_Tnp; cl00848 455488004548 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488004549 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 455488004550 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 455488004551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004552 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 455488004553 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 455488004554 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 455488004555 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488004556 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488004557 ABC transporter; Region: ABC_tran_2; pfam12848 455488004558 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488004559 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 455488004560 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 455488004561 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 455488004562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004563 tetrathionate reductase subunit B; Provisional; Region: PRK14993 455488004564 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 455488004565 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488004566 tetrathionate reductase subunit A; Provisional; Region: PRK14991 455488004567 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 455488004568 molybdopterin cofactor binding site; other site 455488004569 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 455488004570 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 455488004571 putative molybdopterin cofactor binding site; other site 455488004572 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 455488004573 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488004574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004575 active site 455488004576 phosphorylation site [posttranslational modification] 455488004577 intermolecular recognition site; other site 455488004578 dimerization interface [polypeptide binding]; other site 455488004579 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 455488004580 Walker A motif; other site 455488004581 ATP binding site [chemical binding]; other site 455488004582 Walker B motif; other site 455488004583 arginine finger; other site 455488004584 Helix-turn-helix domains; Region: HTH; cl00088 455488004585 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 455488004586 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 455488004587 substrate binding pocket [chemical binding]; other site 455488004588 membrane-bound complex binding site; other site 455488004589 hinge residues; other site 455488004590 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488004591 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004592 ATP binding site [chemical binding]; other site 455488004593 Mg2+ binding site [ion binding]; other site 455488004594 G-X-G motif; other site 455488004595 Transposase domain (DUF772); Region: DUF772; cl15789 455488004596 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488004597 Transposase domain (DUF772); Region: DUF772; cl15789 455488004598 Transposase domain (DUF772); Region: DUF772; cl15789 455488004599 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488004600 Transposase domain (DUF772); Region: DUF772; cl15789 455488004601 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 455488004602 putative deacylase active site [active] 455488004603 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 455488004604 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 455488004605 catalytic residues [active] 455488004606 RNA polymerase sigma factor; Provisional; Region: PRK11924 455488004607 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488004608 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 455488004609 active site 455488004610 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 455488004611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004612 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 455488004613 NAD(P) binding site [chemical binding]; other site 455488004614 active site 455488004615 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 455488004616 TM-ABC transporter signature motif; other site 455488004617 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 455488004618 TM-ABC transporter signature motif; other site 455488004619 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 455488004620 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 455488004621 putative ligand binding site [chemical binding]; other site 455488004622 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 455488004623 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 455488004624 Walker A/P-loop; other site 455488004625 ATP binding site [chemical binding]; other site 455488004626 Q-loop/lid; other site 455488004627 ABC transporter signature motif; other site 455488004628 Walker B; other site 455488004629 D-loop; other site 455488004630 H-loop/switch region; other site 455488004631 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 455488004632 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 455488004633 Walker A/P-loop; other site 455488004634 ATP binding site [chemical binding]; other site 455488004635 Q-loop/lid; other site 455488004636 ABC transporter signature motif; other site 455488004637 Walker B; other site 455488004638 D-loop; other site 455488004639 H-loop/switch region; other site 455488004640 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488004641 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 455488004642 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 455488004643 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488004644 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 455488004645 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 455488004646 Walker A motif; other site 455488004647 ATP binding site [chemical binding]; other site 455488004648 Walker B motif; other site 455488004649 Helix-turn-helix domains; Region: HTH; cl00088 455488004650 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 455488004651 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 455488004652 E3 interaction surface; other site 455488004653 lipoyl attachment site [posttranslational modification]; other site 455488004654 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 455488004655 E3 interaction surface; other site 455488004656 lipoyl attachment site [posttranslational modification]; other site 455488004657 e3 binding domain; Region: E3_binding; pfam02817 455488004658 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 455488004659 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 455488004660 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 455488004661 dimer interface [polypeptide binding]; other site 455488004662 TPP-binding site [chemical binding]; other site 455488004663 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 455488004664 Gram-negative bacterial tonB protein; Region: TonB; cl10048 455488004665 Kelch motif; Region: Kelch_1; cl02701 455488004666 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 455488004667 Kelch motif; Region: Kelch_1; cl02701 455488004668 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488004669 active site 455488004670 ATP binding site [chemical binding]; other site 455488004671 substrate binding site [chemical binding]; other site 455488004672 activation loop (A-loop); other site 455488004673 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488004674 Tetratricopeptide repeat; Region: TPR_16; pfam13432 455488004675 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488004676 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488004677 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 455488004678 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 455488004679 active site 455488004680 catalytic tetrad [active] 455488004681 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 455488004682 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488004683 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488004684 active site 455488004685 metal binding site [ion binding]; metal-binding site 455488004686 Putative exonuclease, RdgC; Region: RdgC; cl01122 455488004687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488004688 G1 box; other site 455488004689 GTP/Mg2+ binding site [chemical binding]; other site 455488004690 G2 box; other site 455488004691 Switch I region; other site 455488004692 G3 box; other site 455488004693 Switch II region; other site 455488004694 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488004695 G4 box; other site 455488004696 G5 box; other site 455488004697 TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it...; Region: TGS_DRG_C; cd01666 455488004698 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 455488004699 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 455488004700 Coenzyme A binding pocket [chemical binding]; other site 455488004701 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 455488004702 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 455488004703 G1 box; other site 455488004704 putative GEF interaction site [polypeptide binding]; other site 455488004705 GTP/Mg2+ binding site [chemical binding]; other site 455488004706 Switch I region; other site 455488004707 G2 box; other site 455488004708 G3 box; other site 455488004709 Switch II region; other site 455488004710 G4 box; other site 455488004711 G5 box; other site 455488004712 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 455488004713 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488004714 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 455488004715 dimer interface [polypeptide binding]; other site 455488004716 active site 455488004717 metal binding site [ion binding]; metal-binding site 455488004718 glutathione binding site [chemical binding]; other site 455488004719 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 455488004720 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 455488004721 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 455488004722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004723 NeuB family; Region: NeuB; cl00496 455488004724 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 455488004725 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 455488004726 S-adenosylmethionine binding site [chemical binding]; other site 455488004727 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 455488004728 Cation efflux family; Region: Cation_efflux; cl00316 455488004729 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 455488004730 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 455488004731 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 455488004732 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 455488004733 substrate binding pocket [chemical binding]; other site 455488004734 membrane-bound complex binding site; other site 455488004735 hinge residues; other site 455488004736 sensory histidine kinase AtoS; Provisional; Region: PRK11360 455488004737 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004738 ATP binding site [chemical binding]; other site 455488004739 Mg2+ binding site [ion binding]; other site 455488004740 G-X-G motif; other site 455488004741 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488004742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488004743 active site 455488004744 phosphorylation site [posttranslational modification] 455488004745 intermolecular recognition site; other site 455488004746 dimerization interface [polypeptide binding]; other site 455488004747 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 455488004748 Walker A motif; other site 455488004749 ATP binding site [chemical binding]; other site 455488004750 Walker B motif; other site 455488004751 arginine finger; other site 455488004752 Helix-turn-helix domains; Region: HTH; cl00088 455488004753 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 455488004754 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 455488004755 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 455488004756 active site 455488004757 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 455488004758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004760 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 455488004761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004762 NAD(P) binding site [chemical binding]; other site 455488004763 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 455488004764 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 455488004765 substrate-cofactor binding pocket; other site 455488004766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488004767 catalytic residue [active] 455488004768 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 455488004769 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 455488004770 ATP binding site [chemical binding]; other site 455488004771 putative Mg++ binding site [ion binding]; other site 455488004772 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 455488004773 nucleotide binding region [chemical binding]; other site 455488004774 ATP-binding site [chemical binding]; other site 455488004775 DEAD/H associated; Region: DEAD_assoc; pfam08494 455488004776 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 455488004777 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 455488004778 DNA binding site [nucleotide binding] 455488004779 catalytic residue [active] 455488004780 H2TH interface [polypeptide binding]; other site 455488004781 putative catalytic residues [active] 455488004782 CHASE domain; Region: CHASE; cl01369 455488004783 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488004784 dimer interface [polypeptide binding]; other site 455488004785 phosphorylation site [posttranslational modification] 455488004786 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 455488004787 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004788 ATP binding site [chemical binding]; other site 455488004789 Mg2+ binding site [ion binding]; other site 455488004790 G-X-G motif; other site 455488004791 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 455488004792 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 455488004793 molybdopterin cofactor binding site; other site 455488004794 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 455488004795 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 455488004796 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 455488004797 molybdopterin cofactor binding site; other site 455488004798 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 455488004799 4Fe-4S binding domain; Region: Fer4; cl02805 455488004800 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488004801 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 455488004802 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 455488004803 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 455488004804 active site 455488004805 ADP/pyrophosphate binding site [chemical binding]; other site 455488004806 dimerization interface [polypeptide binding]; other site 455488004807 allosteric effector site; other site 455488004808 fructose-1,6-bisphosphate binding site; other site 455488004809 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 455488004810 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 455488004811 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488004812 catalytic residue [active] 455488004813 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 455488004814 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 455488004815 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 455488004816 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 455488004817 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 455488004818 metal binding site [ion binding]; metal-binding site 455488004819 dimer interface [polypeptide binding]; other site 455488004820 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 455488004821 putative acyl-acceptor binding pocket; other site 455488004822 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 455488004823 RNA/DNA hybrid binding site [nucleotide binding]; other site 455488004824 active site 455488004825 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 455488004826 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 455488004827 active site 455488004828 catalytic tetrad [active] 455488004829 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 455488004830 diiron binding motif [ion binding]; other site 455488004831 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 455488004832 Protein of unknown function (DUF541); Region: SIMPL; cl01077 455488004833 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 455488004834 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 455488004835 active site 455488004836 catalytic residues [active] 455488004837 metal binding site [ion binding]; metal-binding site 455488004838 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 455488004839 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 455488004840 tartrate dehydrogenase; Provisional; Region: PRK08194 455488004841 OpgC protein; Region: OpgC_C; cl00792 455488004842 fumarate hydratase; Provisional; Region: PRK15389 455488004843 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 455488004844 Fumarase C-terminus; Region: Fumerase_C; cl00795 455488004845 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 455488004846 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 455488004847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 455488004848 TolB amino-terminal domain; Region: TolB_N; cl00639 455488004849 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 455488004850 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 455488004851 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488004852 Walker A/P-loop; other site 455488004853 ATP binding site [chemical binding]; other site 455488004854 Q-loop/lid; other site 455488004855 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488004856 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488004857 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 455488004858 elongation factor G; Reviewed; Region: PRK12739 455488004859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488004860 G1 box; other site 455488004861 GTP/Mg2+ binding site [chemical binding]; other site 455488004862 G2 box; other site 455488004863 Switch I region; other site 455488004864 G3 box; other site 455488004865 Switch II region; other site 455488004866 G4 box; other site 455488004867 G5 box; other site 455488004868 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 455488004869 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 455488004870 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 455488004871 DTW domain; Region: DTW; cl01221 455488004872 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 455488004873 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 455488004874 putative active site [active] 455488004875 catalytic site [active] 455488004876 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 455488004877 putative active site [active] 455488004878 catalytic site [active] 455488004879 oligoendopeptidase F; Region: pepF; TIGR00181 455488004880 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 455488004881 active site 455488004882 Zn binding site [ion binding]; other site 455488004883 AsmA-like C-terminal region; Region: AsmA_2; cl15864 455488004884 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 455488004885 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488004886 HEAT repeats; Region: HEAT_2; pfam13646 455488004887 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 455488004888 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 455488004889 active site 455488004890 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 455488004891 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 455488004892 metal ion-dependent adhesion site (MIDAS); other site 455488004893 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 455488004894 dimer interface [polypeptide binding]; other site 455488004895 substrate binding site [chemical binding]; other site 455488004896 ATP binding site [chemical binding]; other site 455488004897 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 455488004898 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 455488004899 MarC family integral membrane protein; Region: MarC; cl00919 455488004900 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 455488004901 active site 455488004902 catalytic triad [active] 455488004903 oxyanion hole [active] 455488004904 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 455488004905 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488004906 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488004907 Walker A/P-loop; other site 455488004908 ATP binding site [chemical binding]; other site 455488004909 Q-loop/lid; other site 455488004910 ABC transporter signature motif; other site 455488004911 Walker B; other site 455488004912 D-loop; other site 455488004913 H-loop/switch region; other site 455488004914 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 455488004915 FtsX-like permease family; Region: FtsX; cl15850 455488004916 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 455488004917 HDOD domain; Region: HDOD; pfam08668 455488004918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488004919 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 455488004920 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 455488004921 Bacterial Ig-like domain; Region: Big_5; cl01012 455488004922 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 455488004923 MG2 domain; Region: A2M_N; pfam01835 455488004924 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 455488004925 Alpha-2-macroglobulin family; Region: A2M; pfam00207 455488004926 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 455488004927 surface patch; other site 455488004928 thioester region; other site 455488004929 specificity defining residues; other site 455488004930 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 455488004931 Transglycosylase; Region: Transgly; cl07896 455488004932 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488004933 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 455488004934 Protein of unknown function (DUF3115); Region: DUF3115; pfam11312 455488004935 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 455488004936 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 455488004937 S-adenosylmethionine binding site [chemical binding]; other site 455488004938 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488004939 binding surface 455488004940 Tetratricopeptide repeat; Region: TPR_16; pfam13432 455488004941 TPR motif; other site 455488004942 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488004943 TPR motif; other site 455488004944 binding surface 455488004945 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 455488004946 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 455488004947 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488004948 DXD motif; other site 455488004949 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 455488004950 phosphoglucomutase; Validated; Region: PRK07564 455488004951 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 455488004952 active site 455488004953 substrate binding site [chemical binding]; other site 455488004954 metal binding site [ion binding]; metal-binding site 455488004955 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 455488004956 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 455488004957 active site 455488004958 catalytic tetrad [active] 455488004959 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488004960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488004961 NAD(P) binding site [chemical binding]; other site 455488004962 active site 455488004963 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 455488004964 Angiotensin-converting enzyme; Region: Peptidase_M2; pfam01401 455488004965 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 455488004966 active site 455488004967 Zn binding site [ion binding]; other site 455488004968 CsbD-like; Region: CsbD; cl15799 455488004969 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 455488004970 Protein export membrane protein; Region: SecD_SecF; cl14618 455488004971 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488004972 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488004973 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488004974 Outer membrane efflux protein; Region: OEP; pfam02321 455488004975 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 455488004976 GSH binding site [chemical binding]; other site 455488004977 catalytic residues [active] 455488004978 Peptidase family M48; Region: Peptidase_M48; cl12018 455488004979 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 455488004980 Helix-turn-helix domains; Region: HTH; cl00088 455488004981 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 455488004982 putative dimerization interface [polypeptide binding]; other site 455488004983 Integral membrane protein TerC family; Region: TerC; cl10468 455488004984 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 455488004985 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 455488004986 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 455488004987 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 455488004988 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 455488004989 putative active site [active] 455488004990 putative substrate binding site [chemical binding]; other site 455488004991 putative cosubstrate binding site; other site 455488004992 catalytic site [active] 455488004993 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 455488004994 dimerization interface [polypeptide binding]; other site 455488004995 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488004996 dimer interface [polypeptide binding]; other site 455488004997 phosphorylation site [posttranslational modification] 455488004998 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488004999 ATP binding site [chemical binding]; other site 455488005000 Mg2+ binding site [ion binding]; other site 455488005001 G-X-G motif; other site 455488005002 Peptidase family M54; Region: Peptidase_M54; cl00835 455488005003 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488005004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488005005 active site 455488005006 phosphorylation site [posttranslational modification] 455488005007 intermolecular recognition site; other site 455488005008 dimerization interface [polypeptide binding]; other site 455488005009 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 455488005010 Walker A motif; other site 455488005011 ATP binding site [chemical binding]; other site 455488005012 Walker B motif; other site 455488005013 arginine finger; other site 455488005014 Helix-turn-helix domains; Region: HTH; cl00088 455488005015 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 455488005016 4Fe-4S binding domain; Region: Fer4; cl02805 455488005017 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488005018 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 455488005019 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 455488005020 lipoyl attachment site [posttranslational modification]; other site 455488005021 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 455488005022 lipoyl attachment site [posttranslational modification]; other site 455488005023 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 455488005024 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488005025 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488005026 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488005027 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 455488005028 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 455488005029 Peptidase family M48; Region: Peptidase_M48; cl12018 455488005030 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 455488005031 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 455488005032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 455488005033 Histidine kinase; Region: HisKA_3; pfam07730 455488005034 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005035 ATP binding site [chemical binding]; other site 455488005036 Mg2+ binding site [ion binding]; other site 455488005037 G-X-G motif; other site 455488005038 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 455488005039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488005040 active site 455488005041 phosphorylation site [posttranslational modification] 455488005042 intermolecular recognition site; other site 455488005043 dimerization interface [polypeptide binding]; other site 455488005044 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 455488005045 DNA binding residues [nucleotide binding] 455488005046 dimerization interface [polypeptide binding]; other site 455488005047 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 455488005048 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005049 NAD(P) binding pocket [chemical binding]; other site 455488005050 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 455488005051 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 455488005052 dimerization interface [polypeptide binding]; other site 455488005053 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488005054 dimer interface [polypeptide binding]; other site 455488005055 phosphorylation site [posttranslational modification] 455488005056 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005057 ATP binding site [chemical binding]; other site 455488005058 Mg2+ binding site [ion binding]; other site 455488005059 G-X-G motif; other site 455488005060 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 455488005061 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 455488005062 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488005063 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 455488005064 DNA binding residues [nucleotide binding] 455488005065 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488005066 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488005067 dimer interface [polypeptide binding]; other site 455488005068 phosphorylation site [posttranslational modification] 455488005069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488005070 active site 455488005071 phosphorylation site [posttranslational modification] 455488005072 intermolecular recognition site; other site 455488005073 dimerization interface [polypeptide binding]; other site 455488005074 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 455488005075 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 455488005076 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 455488005077 G1 box; other site 455488005078 putative GEF interaction site [polypeptide binding]; other site 455488005079 GTP/Mg2+ binding site [chemical binding]; other site 455488005080 Switch I region; other site 455488005081 G2 box; other site 455488005082 G3 box; other site 455488005083 Switch II region; other site 455488005084 G4 box; other site 455488005085 G5 box; other site 455488005086 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 455488005087 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 455488005088 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488005089 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 455488005090 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488005091 active site 455488005092 metal binding site [ion binding]; metal-binding site 455488005093 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488005094 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 455488005095 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 455488005096 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 455488005097 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 455488005098 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 455488005099 active site 455488005100 dimer interface [polypeptide binding]; other site 455488005101 motif 1; other site 455488005102 motif 2; other site 455488005103 motif 3; other site 455488005104 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 455488005105 anticodon binding site; other site 455488005106 2-isopropylmalate synthase; Validated; Region: PRK00915 455488005107 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 455488005108 active site 455488005109 catalytic residues [active] 455488005110 metal binding site [ion binding]; metal-binding site 455488005111 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 455488005112 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 455488005113 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 455488005114 substrate binding site [chemical binding]; other site 455488005115 ligand binding site [chemical binding]; other site 455488005116 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 455488005117 substrate binding site [chemical binding]; other site 455488005118 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 455488005119 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 455488005120 PYR/PP interface [polypeptide binding]; other site 455488005121 dimer interface [polypeptide binding]; other site 455488005122 TPP binding site [chemical binding]; other site 455488005123 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 455488005124 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 455488005125 TPP-binding site [chemical binding]; other site 455488005126 dimer interface [polypeptide binding]; other site 455488005127 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 455488005128 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 455488005129 putative valine binding site [chemical binding]; other site 455488005130 dimer interface [polypeptide binding]; other site 455488005131 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 455488005132 ketol-acid reductoisomerase; Provisional; Region: PRK05479 455488005133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005134 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 455488005135 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 455488005136 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 455488005137 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 455488005138 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 455488005139 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 455488005140 23S rRNA binding site [nucleotide binding]; other site 455488005141 L21 binding site [polypeptide binding]; other site 455488005142 L13 binding site [polypeptide binding]; other site 455488005143 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 455488005144 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 455488005145 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 455488005146 dimer interface [polypeptide binding]; other site 455488005147 motif 1; other site 455488005148 active site 455488005149 motif 2; other site 455488005150 motif 3; other site 455488005151 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 455488005152 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 455488005153 putative tRNA-binding site [nucleotide binding]; other site 455488005154 B3/4 domain; Region: B3_4; cl11458 455488005155 tRNA synthetase B5 domain; Region: B5; cl08394 455488005156 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 455488005157 dimer interface [polypeptide binding]; other site 455488005158 motif 1; other site 455488005159 motif 3; other site 455488005160 motif 2; other site 455488005161 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 455488005162 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 455488005163 IHF dimer interface [polypeptide binding]; other site 455488005164 IHF - DNA interface [nucleotide binding]; other site 455488005165 Helix-turn-helix domains; Region: HTH; cl00088 455488005166 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 455488005167 iron-sulfur cluster [ion binding]; other site 455488005168 [2Fe-2S] cluster binding site [ion binding]; other site 455488005169 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 455488005170 active site 455488005171 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 455488005172 active site 455488005173 classical (c) SDRs; Region: SDR_c; cd05233 455488005174 NAD(P) binding site [chemical binding]; other site 455488005175 active site 455488005176 FAD binding domain; Region: FAD_binding_4; pfam01565 455488005177 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 455488005178 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 455488005179 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 455488005180 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 455488005181 dimer interface [polypeptide binding]; other site 455488005182 PYR/PP interface [polypeptide binding]; other site 455488005183 TPP binding site [chemical binding]; other site 455488005184 substrate binding site [chemical binding]; other site 455488005185 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 455488005186 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 455488005187 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 455488005188 TPP-binding site [chemical binding]; other site 455488005189 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 455488005190 4Fe-4S binding domain; Region: Fer4; cl02805 455488005191 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 455488005192 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 455488005193 dimer interface [polypeptide binding]; other site 455488005194 PYR/PP interface [polypeptide binding]; other site 455488005195 TPP binding site [chemical binding]; other site 455488005196 substrate binding site [chemical binding]; other site 455488005197 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 455488005198 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 455488005199 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 455488005200 TPP-binding site [chemical binding]; other site 455488005201 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 455488005202 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488005203 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 455488005204 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 455488005205 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488005206 NAD binding site [chemical binding]; other site 455488005207 putative substrate binding site 2 [chemical binding]; other site 455488005208 putative substrate binding site 1 [chemical binding]; other site 455488005209 active site 455488005210 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488005211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005212 NAD(P) binding site [chemical binding]; other site 455488005213 active site 455488005214 Transglycosylase; Region: Transgly; cl07896 455488005215 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 455488005216 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 455488005217 endonuclease III; Region: ENDO3c; smart00478 455488005218 minor groove reading motif; other site 455488005219 helix-hairpin-helix signature motif; other site 455488005220 substrate binding pocket [chemical binding]; other site 455488005221 active site 455488005222 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 455488005223 S17 interaction site [polypeptide binding]; other site 455488005224 S8 interaction site; other site 455488005225 16S rRNA interaction site [nucleotide binding]; other site 455488005226 streptomycin interaction site [chemical binding]; other site 455488005227 23S rRNA interaction site [nucleotide binding]; other site 455488005228 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 455488005229 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 455488005230 elongation factor G; Reviewed; Region: PRK00007 455488005231 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 455488005232 G1 box; other site 455488005233 putative GEF interaction site [polypeptide binding]; other site 455488005234 GTP/Mg2+ binding site [chemical binding]; other site 455488005235 Switch I region; other site 455488005236 G2 box; other site 455488005237 G3 box; other site 455488005238 Switch II region; other site 455488005239 G4 box; other site 455488005240 G5 box; other site 455488005241 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 455488005242 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 455488005243 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 455488005244 elongation factor Tu; Reviewed; Region: PRK00049 455488005245 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 455488005246 G1 box; other site 455488005247 GEF interaction site [polypeptide binding]; other site 455488005248 GTP/Mg2+ binding site [chemical binding]; other site 455488005249 Switch I region; other site 455488005250 G2 box; other site 455488005251 G3 box; other site 455488005252 Switch II region; other site 455488005253 G4 box; other site 455488005254 G5 box; other site 455488005255 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 455488005256 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 455488005257 Antibiotic Binding Site [chemical binding]; other site 455488005258 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 455488005259 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 455488005260 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 455488005261 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 455488005262 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 455488005263 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 455488005264 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 455488005265 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 455488005266 protein-rRNA interface [nucleotide binding]; other site 455488005267 putative translocon binding site; other site 455488005268 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 455488005269 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 455488005270 G-X-X-G motif; other site 455488005271 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 455488005272 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 455488005273 23S rRNA interface [nucleotide binding]; other site 455488005274 5S rRNA interface [nucleotide binding]; other site 455488005275 putative antibiotic binding site [chemical binding]; other site 455488005276 L25 interface [polypeptide binding]; other site 455488005277 L27 interface [polypeptide binding]; other site 455488005278 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 455488005279 23S rRNA interface [nucleotide binding]; other site 455488005280 putative translocon interaction site; other site 455488005281 signal recognition particle (SRP54) interaction site; other site 455488005282 L23 interface [polypeptide binding]; other site 455488005283 trigger factor interaction site; other site 455488005284 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 455488005285 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 455488005286 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 455488005287 KOW motif; Region: KOW; cl00354 455488005288 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 455488005289 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 455488005290 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 455488005291 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 455488005292 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 455488005293 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 455488005294 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 455488005295 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 455488005296 5S rRNA interface [nucleotide binding]; other site 455488005297 L27 interface [polypeptide binding]; other site 455488005298 L5 interface [polypeptide binding]; other site 455488005299 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 455488005300 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 455488005301 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 455488005302 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 455488005303 23S rRNA binding site [nucleotide binding]; other site 455488005304 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 455488005305 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 455488005306 SecY translocase; Region: SecY; pfam00344 455488005307 adenylate kinase; Reviewed; Region: adk; PRK00279 455488005308 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 455488005309 AMP-binding site [chemical binding]; other site 455488005310 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 455488005311 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 455488005312 active site 455488005313 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 455488005314 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 455488005315 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 455488005316 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 455488005317 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 455488005318 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 455488005319 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 455488005320 RNA binding surface [nucleotide binding]; other site 455488005321 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 455488005322 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 455488005323 alphaNTD homodimer interface [polypeptide binding]; other site 455488005324 alphaNTD - beta interaction site [polypeptide binding]; other site 455488005325 alphaNTD - beta' interaction site [polypeptide binding]; other site 455488005326 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 455488005327 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 455488005328 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 455488005329 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 455488005330 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 455488005331 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 455488005332 RimM N-terminal domain; Region: RimM; pfam01782 455488005333 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 455488005334 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 455488005335 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 455488005336 Restriction endonuclease; Region: Mrr_cat; cl00516 455488005337 Predicted methyltransferases [General function prediction only]; Region: COG0313 455488005338 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488005339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488005340 active site 455488005341 phosphorylation site [posttranslational modification] 455488005342 intermolecular recognition site; other site 455488005343 dimerization interface [polypeptide binding]; other site 455488005344 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 455488005345 Walker A motif; other site 455488005346 ATP binding site [chemical binding]; other site 455488005347 Walker B motif; other site 455488005348 arginine finger; other site 455488005349 Helix-turn-helix domains; Region: HTH; cl00088 455488005350 GAF domain; Region: GAF; cl15785 455488005351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488005352 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488005353 dimer interface [polypeptide binding]; other site 455488005354 phosphorylation site [posttranslational modification] 455488005355 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005356 ATP binding site [chemical binding]; other site 455488005357 Mg2+ binding site [ion binding]; other site 455488005358 G-X-G motif; other site 455488005359 murein transglycosylase C; Provisional; Region: mltC; PRK11671 455488005360 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 455488005361 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455488005362 catalytic residue [active] 455488005363 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 455488005364 active site 455488005365 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 455488005366 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 455488005367 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 455488005368 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488005369 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 455488005370 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 455488005371 RNA binding surface [nucleotide binding]; other site 455488005372 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 455488005373 active site 455488005374 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488005375 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488005376 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488005377 binding surface 455488005378 TPR motif; other site 455488005379 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 455488005380 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 455488005381 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488005382 Walker A/P-loop; other site 455488005383 ATP binding site [chemical binding]; other site 455488005384 Q-loop/lid; other site 455488005385 ABC transporter signature motif; other site 455488005386 Walker B; other site 455488005387 D-loop; other site 455488005388 H-loop/switch region; other site 455488005389 arginine decarboxylase; Provisional; Region: PRK05354 455488005390 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 455488005391 active site 455488005392 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 455488005393 catalytic residues [active] 455488005394 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 455488005395 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 455488005396 Dodecin; Region: Dodecin; cl01328 455488005397 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 455488005398 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 455488005399 heme-binding residues [chemical binding]; other site 455488005400 HYR domain; Region: HYR; pfam02494 455488005401 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488005402 HAD superfamily (subfamily IG) hydrolase, 5'-nucleotidase; Region: HAD-IG-Ncltidse; TIGR02244 455488005403 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 455488005404 sequence-specific DNA binding site [nucleotide binding]; other site 455488005405 salt bridge; other site 455488005406 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488005407 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488005408 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488005409 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488005410 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488005411 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488005412 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 455488005413 active site 455488005414 Permease; Region: Permease; cl00510 455488005415 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 455488005416 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 455488005417 Walker A/P-loop; other site 455488005418 ATP binding site [chemical binding]; other site 455488005419 Q-loop/lid; other site 455488005420 ABC transporter signature motif; other site 455488005421 Walker B; other site 455488005422 D-loop; other site 455488005423 H-loop/switch region; other site 455488005424 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 455488005425 mce related protein; Region: MCE; pfam02470 455488005426 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 455488005427 catalytic residues [active] 455488005428 Domain of unknown function (DUF329); Region: DUF329; cl01144 455488005429 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 455488005430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005431 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 455488005432 Beta propeller domain; Region: Beta_propel; pfam09826 455488005433 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 455488005434 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 455488005435 enoyl-CoA hydratase; Validated; Region: PRK08139 455488005436 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 455488005437 substrate binding site [chemical binding]; other site 455488005438 oxyanion hole (OAH) forming residues; other site 455488005439 trimer interface [polypeptide binding]; other site 455488005440 GAF domain; Region: GAF; cl15785 455488005441 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488005442 dimer interface [polypeptide binding]; other site 455488005443 phosphorylation site [posttranslational modification] 455488005444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005445 ATP binding site [chemical binding]; other site 455488005446 Mg2+ binding site [ion binding]; other site 455488005447 G-X-G motif; other site 455488005448 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 455488005449 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 455488005450 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 455488005451 B12 binding site [chemical binding]; other site 455488005452 cobalt ligand [ion binding]; other site 455488005453 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 455488005454 active site 455488005455 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 455488005456 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 455488005457 FeS/SAM binding site; other site 455488005458 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 455488005459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488005460 active site 455488005461 phosphorylation site [posttranslational modification] 455488005462 intermolecular recognition site; other site 455488005463 dimerization interface [polypeptide binding]; other site 455488005464 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455488005465 Zn2+ binding site [ion binding]; other site 455488005466 Mg2+ binding site [ion binding]; other site 455488005467 lipoyl synthase; Provisional; Region: PRK05481 455488005468 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 455488005469 FeS/SAM binding site; other site 455488005470 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 455488005471 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 455488005472 TPP-binding site [chemical binding]; other site 455488005473 tetramer interface [polypeptide binding]; other site 455488005474 heterodimer interface [polypeptide binding]; other site 455488005475 phosphorylation loop region [posttranslational modification] 455488005476 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 455488005477 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 455488005478 alpha subunit interface [polypeptide binding]; other site 455488005479 TPP binding site [chemical binding]; other site 455488005480 heterodimer interface [polypeptide binding]; other site 455488005481 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 455488005482 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 455488005483 E3 interaction surface; other site 455488005484 lipoyl attachment site [posttranslational modification]; other site 455488005485 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 455488005486 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 455488005487 active site 455488005488 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 455488005489 putative ATP binding site [chemical binding]; other site 455488005490 putative substrate interface [chemical binding]; other site 455488005491 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 455488005492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 455488005494 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 455488005495 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 455488005496 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 455488005497 nudix motif; other site 455488005498 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488005499 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488005500 active site 455488005501 ATP binding site [chemical binding]; other site 455488005502 substrate binding site [chemical binding]; other site 455488005503 activation loop (A-loop); other site 455488005504 OPT oligopeptide transporter protein; Region: OPT; cl14607 455488005505 OPT oligopeptide transporter protein; Region: OPT; cl14607 455488005506 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 455488005507 phosphopeptide binding site; other site 455488005508 aspartate kinase; Validated; Region: PRK09181 455488005509 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 455488005510 nucleotide binding site [chemical binding]; other site 455488005511 substrate binding site [chemical binding]; other site 455488005512 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 455488005513 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 455488005514 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 455488005515 active sites [active] 455488005516 tetramer interface [polypeptide binding]; other site 455488005517 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 455488005518 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 455488005519 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 455488005520 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488005521 DXD motif; other site 455488005522 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 455488005523 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 455488005524 active site 455488005525 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 455488005526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488005527 Family description; Region: UvrD_C_2; cl15862 455488005528 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455488005529 SCP-2 sterol transfer family; Region: SCP2; cl01225 455488005530 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 455488005531 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 455488005532 DNA binding site [nucleotide binding] 455488005533 Int/Topo IB signature motif; other site 455488005534 active site 455488005535 catalytic residues [active] 455488005536 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 455488005537 PAS fold; Region: PAS_4; pfam08448 455488005538 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 455488005539 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 455488005540 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488005541 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005542 ATP binding site [chemical binding]; other site 455488005543 Mg2+ binding site [ion binding]; other site 455488005544 G-X-G motif; other site 455488005545 pyrophosphatase PpaX; Provisional; Region: PRK13288 455488005546 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 455488005547 active site 455488005548 motif I; other site 455488005549 motif II; other site 455488005550 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488005551 prephenate dehydratase; Provisional; Region: PRK11898 455488005552 Prephenate dehydratase; Region: PDT; pfam00800 455488005553 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 455488005554 putative L-Phe binding site [chemical binding]; other site 455488005555 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 455488005556 active site 455488005557 nucleophile elbow; other site 455488005558 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 455488005559 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488005560 Beta-Casp domain; Region: Beta-Casp; cl12567 455488005561 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 455488005562 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 455488005563 active site 455488005564 8-oxo-dGMP binding site [chemical binding]; other site 455488005565 nudix motif; other site 455488005566 metal binding site [ion binding]; metal-binding site 455488005567 FtsH Extracellular; Region: FtsH_ext; pfam06480 455488005568 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 455488005569 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 455488005570 Walker A motif; other site 455488005571 ATP binding site [chemical binding]; other site 455488005572 Walker B motif; other site 455488005573 arginine finger; other site 455488005574 Peptidase family M41; Region: Peptidase_M41; pfam01434 455488005575 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 455488005576 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 455488005577 dimer interface [polypeptide binding]; other site 455488005578 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 455488005579 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 455488005580 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488005581 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 455488005582 protein binding site [polypeptide binding]; other site 455488005583 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 455488005584 protein binding site [polypeptide binding]; other site 455488005585 PilZ domain; Region: PilZ; cl01260 455488005586 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 455488005587 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 455488005588 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 455488005589 NAD(P) binding site [chemical binding]; other site 455488005590 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 455488005591 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 455488005592 GIY-YIG motif/motif A; other site 455488005593 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 455488005594 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488005595 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 455488005596 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 455488005597 Histidine kinase; Region: HisKA_3; pfam07730 455488005598 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005599 Mg2+ binding site [ion binding]; other site 455488005600 G-X-G motif; other site 455488005601 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 455488005602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488005603 active site 455488005604 phosphorylation site [posttranslational modification] 455488005605 intermolecular recognition site; other site 455488005606 dimerization interface [polypeptide binding]; other site 455488005607 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 455488005608 DNA binding residues [nucleotide binding] 455488005609 dimerization interface [polypeptide binding]; other site 455488005610 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 455488005611 gating phenylalanine in ion channel; other site 455488005612 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 455488005613 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 455488005614 substrate binding pocket [chemical binding]; other site 455488005615 membrane-bound complex binding site; other site 455488005616 hinge residues; other site 455488005617 sensory histidine kinase AtoS; Provisional; Region: PRK11360 455488005618 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005619 ATP binding site [chemical binding]; other site 455488005620 Mg2+ binding site [ion binding]; other site 455488005621 G-X-G motif; other site 455488005622 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488005623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488005624 active site 455488005625 phosphorylation site [posttranslational modification] 455488005626 intermolecular recognition site; other site 455488005627 dimerization interface [polypeptide binding]; other site 455488005628 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 455488005629 Walker A motif; other site 455488005630 ATP binding site [chemical binding]; other site 455488005631 Walker B motif; other site 455488005632 arginine finger; other site 455488005633 Helix-turn-helix domains; Region: HTH; cl00088 455488005634 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 455488005635 Aspartase; Region: Aspartase; cd01357 455488005636 active sites [active] 455488005637 tetramer interface [polypeptide binding]; other site 455488005638 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 455488005639 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 455488005640 trimer interface [polypeptide binding]; other site 455488005641 eyelet of channel; other site 455488005642 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 455488005643 heme-binding site [chemical binding]; other site 455488005644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 455488005645 Coenzyme A binding pocket [chemical binding]; other site 455488005646 RES domain; Region: RES; cl02411 455488005647 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 455488005648 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 455488005649 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 455488005650 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 455488005651 active site 455488005652 Helix-turn-helix domains; Region: HTH; cl00088 455488005653 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488005654 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 455488005655 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 455488005656 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488005657 Surface antigen; Region: Bac_surface_Ag; cl03097 455488005658 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488005659 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488005660 Cation efflux family; Region: Cation_efflux; cl00316 455488005661 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 455488005662 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 455488005663 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 455488005664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488005665 Walker A/P-loop; other site 455488005666 ATP binding site [chemical binding]; other site 455488005667 Q-loop/lid; other site 455488005668 ABC transporter signature motif; other site 455488005669 Walker B; other site 455488005670 D-loop; other site 455488005671 H-loop/switch region; other site 455488005672 TOBE-like domain; Region: TOBE_3; pfam12857 455488005673 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 455488005674 dimer interface [polypeptide binding]; other site 455488005675 conserved gate region; other site 455488005676 putative PBP binding loops; other site 455488005677 ABC-ATPase subunit interface; other site 455488005678 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 455488005679 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 455488005680 dimer interface [polypeptide binding]; other site 455488005681 conserved gate region; other site 455488005682 putative PBP binding loops; other site 455488005683 ABC-ATPase subunit interface; other site 455488005684 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 455488005685 Active Sites [active] 455488005686 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 455488005687 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 455488005688 CysD dimerization site [polypeptide binding]; other site 455488005689 G1 box; other site 455488005690 putative GEF interaction site [polypeptide binding]; other site 455488005691 GTP/Mg2+ binding site [chemical binding]; other site 455488005692 Switch I region; other site 455488005693 G2 box; other site 455488005694 G3 box; other site 455488005695 Switch II region; other site 455488005696 G4 box; other site 455488005697 G5 box; other site 455488005698 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 455488005699 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 455488005700 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 455488005701 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 455488005702 Active Sites [active] 455488005703 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 455488005704 S-adenosylmethionine binding site [chemical binding]; other site 455488005705 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 455488005706 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 455488005707 active site 455488005708 (T/H)XGH motif; other site 455488005709 aspartate aminotransferase; Provisional; Region: PRK05764 455488005710 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 455488005711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488005712 homodimer interface [polypeptide binding]; other site 455488005713 catalytic residue [active] 455488005714 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 455488005715 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 455488005716 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488005717 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488005718 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 455488005719 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488005720 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488005721 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 455488005722 IMP binding site; other site 455488005723 dimer interface [polypeptide binding]; other site 455488005724 partial ornithine binding site; other site 455488005725 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 455488005726 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 455488005727 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 455488005728 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 455488005729 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 455488005730 ssDNA binding site; other site 455488005731 generic binding surface II; other site 455488005732 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 455488005733 ATP binding site [chemical binding]; other site 455488005734 putative Mg++ binding site [ion binding]; other site 455488005735 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 455488005736 nucleotide binding region [chemical binding]; other site 455488005737 ATP-binding site [chemical binding]; other site 455488005738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005739 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 455488005740 aminotransferase; Validated; Region: PRK08175 455488005741 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 455488005742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488005743 homodimer interface [polypeptide binding]; other site 455488005744 catalytic residue [active] 455488005745 threonine synthase; Region: PLN02569 455488005746 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 455488005747 homodimer interface [polypeptide binding]; other site 455488005748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488005749 catalytic residue [active] 455488005750 thymidylate kinase; Region: DTMP_kinase; TIGR00041 455488005751 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 455488005752 TMP-binding site; other site 455488005753 ATP-binding site [chemical binding]; other site 455488005754 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 455488005755 putative MPT binding site; other site 455488005756 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 455488005757 Cytochrome c; Region: Cytochrom_C; cl11414 455488005758 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 455488005759 Di-iron ligands [ion binding]; other site 455488005760 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 455488005761 putative acyl-acceptor binding pocket; other site 455488005762 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 455488005763 Histidine kinase-like ATPases; This family includes several ATP-binding 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 455488005764 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 455488005765 ATP binding site [chemical binding]; other site 455488005766 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 455488005767 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; cl00062 455488005768 phosphopeptide binding site; other site 455488005769 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 455488005770 GAF domain; Region: GAF; cl15785 455488005771 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 455488005772 Walker A motif; other site 455488005773 ATP binding site [chemical binding]; other site 455488005774 Walker B motif; other site 455488005775 arginine finger; other site 455488005776 Helix-turn-helix domains; Region: HTH; cl00088 455488005777 Tetratricopeptide repeat; Region: TPR_16; pfam13432 455488005778 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488005779 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488005780 active site 455488005781 ATP binding site [chemical binding]; other site 455488005782 substrate binding site [chemical binding]; other site 455488005783 activation loop (A-loop); other site 455488005784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005785 active site 455488005786 Found in ATP-dependent protease La (LON); Region: LON; smart00464 455488005787 ATP-dependent protease La; Region: lon; TIGR00763 455488005788 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 455488005789 Walker A motif; other site 455488005790 ATP binding site [chemical binding]; other site 455488005791 Walker B motif; other site 455488005792 arginine finger; other site 455488005793 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 455488005794 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488005795 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 455488005796 putative active site [active] 455488005797 putative metal binding site [ion binding]; other site 455488005798 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488005799 Helix-turn-helix domains; Region: HTH; cl00088 455488005800 LexA repressor; Validated; Region: PRK00215 455488005801 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 455488005802 Catalytic site [active] 455488005803 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 455488005804 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488005805 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 455488005806 active site 455488005807 ATP binding site [chemical binding]; other site 455488005808 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 455488005809 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 455488005810 active site 455488005811 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 455488005812 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 455488005813 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 455488005814 NodB motif; other site 455488005815 putative active site [active] 455488005816 putative catalytic site [active] 455488005817 putative Zn binding site [ion binding]; other site 455488005818 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 455488005819 MutS domain I; Region: MutS_I; pfam01624 455488005820 MutS domain II; Region: MutS_II; pfam05188 455488005821 MutS family domain IV; Region: MutS_IV; pfam05190 455488005822 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 455488005823 Walker A/P-loop; other site 455488005824 ATP binding site [chemical binding]; other site 455488005825 Q-loop/lid; other site 455488005826 ABC transporter signature motif; other site 455488005827 Walker B; other site 455488005828 D-loop; other site 455488005829 H-loop/switch region; other site 455488005830 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 455488005831 heme-binding residues [chemical binding]; other site 455488005832 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 455488005833 heme-binding residues [chemical binding]; other site 455488005834 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 455488005835 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 455488005836 conserved cys residue [active] 455488005837 AMIN domain; Region: AMIN; pfam11741 455488005838 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 455488005839 active site 455488005840 metal binding site [ion binding]; metal-binding site 455488005841 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 455488005842 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488005843 PII uridylyl-transferase; Provisional; Region: PRK05092 455488005844 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 455488005845 metal binding triad; other site 455488005846 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 455488005847 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488005848 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 455488005849 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 455488005850 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 455488005851 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488005852 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 455488005853 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 455488005854 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 455488005855 DNA binding site [nucleotide binding] 455488005856 Int/Topo IB signature motif; other site 455488005857 active site 455488005858 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 455488005859 active site 455488005860 putative substrate binding region [chemical binding]; other site 455488005861 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 455488005862 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 455488005863 active site 455488005864 HIGH motif; other site 455488005865 dimer interface [polypeptide binding]; other site 455488005866 KMSKS motif; other site 455488005867 ScpA/B protein; Region: ScpA_ScpB; cl00598 455488005868 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 455488005869 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 455488005870 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 455488005871 RNA binding surface [nucleotide binding]; other site 455488005872 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 455488005873 active site 455488005874 Secretin and TonB N terminus short domain; Region: STN; cl06624 455488005875 Secretin and TonB N terminus short domain; Region: STN; cl06624 455488005876 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 455488005877 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 455488005878 DNA binding residues [nucleotide binding] 455488005879 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 455488005880 transmembrane helices; other site 455488005881 RNA 3'-phosphate cyclase; Region: RNA_3prim_cycl; TIGR03399 455488005882 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 with a...; Region: EPT_RTPC-like; cl00288 455488005883 putative active site [active] 455488005884 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 455488005885 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 455488005886 Domain of unknown function DUF59; Region: DUF59; cl00941 455488005887 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 455488005888 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 455488005889 Walker A motif; other site 455488005890 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 455488005891 active site 455488005892 catalytic residues [active] 455488005893 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 455488005894 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 455488005895 PAS domain; Region: PAS_9; pfam13426 455488005896 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488005897 dimer interface [polypeptide binding]; other site 455488005898 phosphorylation site [posttranslational modification] 455488005899 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488005900 ATP binding site [chemical binding]; other site 455488005901 Mg2+ binding site [ion binding]; other site 455488005902 G-X-G motif; other site 455488005903 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 455488005904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488005905 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 455488005906 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 455488005907 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 455488005908 substrate binding site [chemical binding]; other site 455488005909 oxyanion hole (OAH) forming residues; other site 455488005910 trimer interface [polypeptide binding]; other site 455488005911 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 455488005912 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488005913 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 455488005914 FAD binding site [chemical binding]; other site 455488005915 homotetramer interface [polypeptide binding]; other site 455488005916 substrate binding pocket [chemical binding]; other site 455488005917 catalytic base [active] 455488005918 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488005919 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 455488005920 active site 455488005921 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 455488005922 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 455488005923 dimerization interface [polypeptide binding]; other site 455488005924 active site 455488005925 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 455488005926 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 455488005927 DNA binding residues [nucleotide binding] 455488005928 dimer interface [polypeptide binding]; other site 455488005929 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 455488005930 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 455488005931 active site 455488005932 8-oxo-dGMP binding site [chemical binding]; other site 455488005933 nudix motif; other site 455488005934 metal binding site [ion binding]; metal-binding site 455488005935 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 455488005936 PQQ-like domain; Region: PQQ_2; pfam13360 455488005937 Trp docking motif [polypeptide binding]; other site 455488005938 active site 455488005939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 455488005940 GTP-binding protein Der; Reviewed; Region: PRK00093 455488005941 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 455488005942 G1 box; other site 455488005943 GTP/Mg2+ binding site [chemical binding]; other site 455488005944 Switch I region; other site 455488005945 G2 box; other site 455488005946 Switch II region; other site 455488005947 G3 box; other site 455488005948 G4 box; other site 455488005949 G5 box; other site 455488005950 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 455488005951 G1 box; other site 455488005952 GTP/Mg2+ binding site [chemical binding]; other site 455488005953 Switch I region; other site 455488005954 G2 box; other site 455488005955 G3 box; other site 455488005956 Switch II region; other site 455488005957 G4 box; other site 455488005958 G5 box; other site 455488005959 GTPase Era; Reviewed; Region: era; PRK00089 455488005960 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 455488005961 G1 box; other site 455488005962 GTP/Mg2+ binding site [chemical binding]; other site 455488005963 Switch I region; other site 455488005964 G2 box; other site 455488005965 Switch II region; other site 455488005966 G3 box; other site 455488005967 G4 box; other site 455488005968 G5 box; other site 455488005969 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 455488005970 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 455488005971 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 455488005972 active site 455488005973 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 455488005974 active site 455488005975 ribonuclease III; Reviewed; Region: rnc; PRK00102 455488005976 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 455488005977 dimerization interface [polypeptide binding]; other site 455488005978 active site 455488005979 metal binding site [ion binding]; metal-binding site 455488005980 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 455488005981 dsRNA binding site [nucleotide binding]; other site 455488005982 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 455488005983 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 455488005984 Walker A; other site 455488005985 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 455488005986 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488005987 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 455488005988 active site 455488005989 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 455488005990 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488005991 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488005992 enoyl-CoA hydratase; Provisional; Region: PRK06688 455488005993 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 455488005994 substrate binding site [chemical binding]; other site 455488005995 oxyanion hole (OAH) forming residues; other site 455488005996 trimer interface [polypeptide binding]; other site 455488005997 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 455488005998 active site 455488005999 catalytic residues [active] 455488006000 metal binding site [ion binding]; metal-binding site 455488006001 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 455488006002 active site residue [active] 455488006003 ThiC family; Region: ThiC; cl08031 455488006004 enolase; Provisional; Region: eno; PRK00077 455488006005 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 455488006006 dimer interface [polypeptide binding]; other site 455488006007 metal binding site [ion binding]; metal-binding site 455488006008 substrate binding pocket [chemical binding]; other site 455488006009 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 455488006010 hydrophobic ligand binding site; other site 455488006011 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 455488006012 putative active site [active] 455488006013 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 455488006014 active site 455488006015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006016 homoserine dehydrogenase; Provisional; Region: PRK06349 455488006017 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 455488006018 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 455488006019 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 455488006020 HEAT repeats; Region: HEAT_2; pfam13646 455488006021 Restriction endonuclease; Region: Mrr_cat; cl00516 455488006022 PQQ-like domain; Region: PQQ_2; pfam13360 455488006023 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488006024 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488006025 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 455488006026 substrate binding site [chemical binding]; other site 455488006027 ATP binding site [chemical binding]; other site 455488006028 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 455488006029 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 455488006030 FeS/SAM binding site; other site 455488006031 Domain of unknown function DUF21; Region: DUF21; pfam01595 455488006032 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 455488006033 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 455488006034 Transporter associated domain; Region: CorC_HlyC; cl08393 455488006035 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 455488006036 active site 455488006037 multimer interface [polypeptide binding]; other site 455488006038 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 455488006039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006040 CoA-ligase; Region: Ligase_CoA; cl02894 455488006041 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 455488006042 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488006043 CoA-ligase; Region: Ligase_CoA; cl02894 455488006044 malate dehydrogenase; Reviewed; Region: PRK06223 455488006045 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 455488006046 NAD(P) binding site [chemical binding]; other site 455488006047 dimer interface [polypeptide binding]; other site 455488006048 tetramer (dimer of dimers) interface [polypeptide binding]; other site 455488006049 substrate binding site [chemical binding]; other site 455488006050 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 455488006051 isocitrate dehydrogenase; Validated; Region: PRK07362 455488006052 YdjC-like protein; Region: YdjC; cl01344 455488006053 PAS domain S-box; Region: sensory_box; TIGR00229 455488006054 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 455488006055 putative active site [active] 455488006056 heme pocket [chemical binding]; other site 455488006057 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488006058 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488006059 phosphorylation site [posttranslational modification] 455488006060 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006061 ATP binding site [chemical binding]; other site 455488006062 Mg2+ binding site [ion binding]; other site 455488006063 G-X-G motif; other site 455488006064 Bifunctional nuclease; Region: DNase-RNase; cl00553 455488006065 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 455488006066 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 455488006067 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 455488006068 catalytic site [active] 455488006069 subunit interface [polypeptide binding]; other site 455488006070 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 455488006071 dihydroorotase; Validated; Region: pyrC; PRK09357 455488006072 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 455488006073 active site 455488006074 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 455488006075 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 455488006076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006077 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488006078 active site 455488006079 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 455488006080 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 455488006081 Catalytic site [active] 455488006082 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 455488006083 GTP-binding protein LepA; Provisional; Region: PRK05433 455488006084 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 455488006085 G1 box; other site 455488006086 putative GEF interaction site [polypeptide binding]; other site 455488006087 GTP/Mg2+ binding site [chemical binding]; other site 455488006088 Switch I region; other site 455488006089 G2 box; other site 455488006090 G3 box; other site 455488006091 Switch II region; other site 455488006092 G4 box; other site 455488006093 G5 box; other site 455488006094 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 455488006095 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 455488006096 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 455488006097 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 455488006098 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 455488006099 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 455488006100 active site 455488006101 dimer interface [polypeptide binding]; other site 455488006102 effector binding site; other site 455488006103 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 455488006104 TSCPD domain; Region: TSCPD; cl14834 455488006105 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 455488006106 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 455488006107 DNA polymerase III DnaE; Validated; Region: dnaE; PRK07135 455488006108 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 455488006109 generic binding surface I; other site 455488006110 generic binding surface II; other site 455488006111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006112 Walker A motif; other site 455488006113 ATP binding site [chemical binding]; other site 455488006114 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 455488006115 catalytic residues [active] 455488006116 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 455488006117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006118 active site 455488006119 phosphorylation site [posttranslational modification] 455488006120 intermolecular recognition site; other site 455488006121 dimerization interface [polypeptide binding]; other site 455488006122 Helix-turn-helix domains; Region: HTH; cl00088 455488006123 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488006124 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006125 ATP binding site [chemical binding]; other site 455488006126 Mg2+ binding site [ion binding]; other site 455488006127 G-X-G motif; other site 455488006128 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 455488006129 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 455488006130 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455488006131 catalytic residue [active] 455488006132 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 455488006133 putative active site [active] 455488006134 catalytic site [active] 455488006135 putative substrate binding site [chemical binding]; other site 455488006136 HRDC domain; Region: HRDC; cl02578 455488006137 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 455488006138 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 455488006139 putative acyl-acceptor binding pocket; other site 455488006140 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006142 active site 455488006143 phosphorylation site [posttranslational modification] 455488006144 intermolecular recognition site; other site 455488006145 dimerization interface [polypeptide binding]; other site 455488006146 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 455488006147 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 455488006148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006149 Walker A motif; other site 455488006150 ATP binding site [chemical binding]; other site 455488006151 Walker B motif; other site 455488006152 flagellar assembly protein H; Validated; Region: fliH; PRK06669 455488006153 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 455488006154 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 455488006155 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488006156 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488006157 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 455488006158 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 455488006159 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 455488006160 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 455488006161 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 455488006162 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 455488006163 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 455488006164 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 455488006165 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 455488006166 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 455488006167 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 455488006168 DNA binding site [nucleotide binding] 455488006169 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 455488006170 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 455488006171 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 455488006172 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 455488006173 RPB11 interaction site [polypeptide binding]; other site 455488006174 RPB12 interaction site [polypeptide binding]; other site 455488006175 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 455488006176 RPB3 interaction site [polypeptide binding]; other site 455488006177 RPB1 interaction site [polypeptide binding]; other site 455488006178 RPB11 interaction site [polypeptide binding]; other site 455488006179 RPB10 interaction site [polypeptide binding]; other site 455488006180 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 455488006181 core dimer interface [polypeptide binding]; other site 455488006182 peripheral dimer interface [polypeptide binding]; other site 455488006183 L10 interface [polypeptide binding]; other site 455488006184 L11 interface [polypeptide binding]; other site 455488006185 putative EF-Tu interaction site [polypeptide binding]; other site 455488006186 putative EF-G interaction site [polypeptide binding]; other site 455488006187 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 455488006188 23S rRNA interface [nucleotide binding]; other site 455488006189 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 455488006190 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 455488006191 mRNA/rRNA interface [nucleotide binding]; other site 455488006192 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 455488006193 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 455488006194 23S rRNA interface [nucleotide binding]; other site 455488006195 L7/L12 interface [polypeptide binding]; other site 455488006196 putative thiostrepton binding site; other site 455488006197 L25 interface [polypeptide binding]; other site 455488006198 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 455488006199 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 455488006200 putative homodimer interface [polypeptide binding]; other site 455488006201 KOW motif; Region: KOW; cl00354 455488006202 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 455488006203 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 455488006204 elongation factor Tu; Reviewed; Region: PRK00049 455488006205 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 455488006206 G1 box; other site 455488006207 GEF interaction site [polypeptide binding]; other site 455488006208 GTP/Mg2+ binding site [chemical binding]; other site 455488006209 Switch I region; other site 455488006210 G2 box; other site 455488006211 G3 box; other site 455488006212 Switch II region; other site 455488006213 G4 box; other site 455488006214 G5 box; other site 455488006215 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 455488006216 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 455488006217 Antibiotic Binding Site [chemical binding]; other site 455488006218 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 455488006219 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 455488006220 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 455488006221 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 455488006222 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488006223 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455488006224 Protein of unknown function (DUF493); Region: DUF493; cl01102 455488006225 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 455488006226 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 455488006227 putative active site [active] 455488006228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006229 GAF domain; Region: GAF; cl15785 455488006230 GAF domain; Region: GAF_2; pfam13185 455488006231 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488006232 metal binding site [ion binding]; metal-binding site 455488006233 active site 455488006234 I-site; other site 455488006235 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 455488006236 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488006237 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488006238 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 455488006239 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 455488006240 putative substrate translocation pore; other site 455488006241 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 455488006242 Helix-turn-helix domains; Region: HTH; cl00088 455488006243 ApbE family; Region: ApbE; cl00643 455488006244 FMN-binding domain; Region: FMN_bind; cl01081 455488006245 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 455488006246 FeoA domain; Region: FeoA; cl00838 455488006247 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 455488006248 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 455488006249 G1 box; other site 455488006250 GTP/Mg2+ binding site [chemical binding]; other site 455488006251 Switch I region; other site 455488006252 G2 box; other site 455488006253 G3 box; other site 455488006254 Switch II region; other site 455488006255 G4 box; other site 455488006256 G5 box; other site 455488006257 Nucleoside recognition; Region: Gate; cl00486 455488006258 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 455488006259 Nucleoside recognition; Region: Gate; cl00486 455488006260 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 455488006261 metal binding site 2 [ion binding]; metal-binding site 455488006262 putative DNA binding helix; other site 455488006263 metal binding site 1 [ion binding]; metal-binding site 455488006264 dimer interface [polypeptide binding]; other site 455488006265 structural Zn2+ binding site [ion binding]; other site 455488006266 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 455488006267 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 455488006268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488006269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006270 ATP binding site [chemical binding]; other site 455488006271 Mg2+ binding site [ion binding]; other site 455488006272 G-X-G motif; other site 455488006273 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 455488006274 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488006275 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006277 active site 455488006278 phosphorylation site [posttranslational modification] 455488006279 intermolecular recognition site; other site 455488006280 dimerization interface [polypeptide binding]; other site 455488006281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488006282 metal binding site [ion binding]; metal-binding site 455488006283 active site 455488006284 I-site; other site 455488006285 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488006286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006287 active site 455488006288 phosphorylation site [posttranslational modification] 455488006289 intermolecular recognition site; other site 455488006290 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 455488006291 Walker A motif; other site 455488006292 ATP binding site [chemical binding]; other site 455488006293 Walker B motif; other site 455488006294 arginine finger; other site 455488006295 Helix-turn-helix domains; Region: HTH; cl00088 455488006296 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488006297 dimer interface [polypeptide binding]; other site 455488006298 phosphorylation site [posttranslational modification] 455488006299 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 455488006300 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 455488006301 putative active site [active] 455488006302 putative metal binding site [ion binding]; other site 455488006303 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 455488006304 catalytic motif [active] 455488006305 Zn binding site [ion binding]; other site 455488006306 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488006307 PrkA AAA domain; Region: AAA_PrkA; smart00763 455488006308 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 455488006309 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455488006310 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 455488006311 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 455488006312 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006313 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 455488006314 Walker A motif; other site 455488006315 ATP binding site [chemical binding]; other site 455488006316 Walker B motif; other site 455488006317 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 455488006318 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 455488006319 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 455488006320 dimerization interface 3.5A [polypeptide binding]; other site 455488006321 active site 455488006322 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 455488006323 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 455488006324 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 455488006325 Ligand Binding Site [chemical binding]; other site 455488006326 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 important for the assimilation of...; Region: APSK; cd02027 455488006327 ligand-binding site [chemical binding]; other site 455488006328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006329 ATP binding site [chemical binding]; other site 455488006330 substrate interface [chemical binding]; other site 455488006331 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 455488006332 CPxP motif; other site 455488006333 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 455488006334 ATP binding site [chemical binding]; other site 455488006335 substrate interface [chemical binding]; other site 455488006336 DsrE/DsrF-like family; Region: DrsE; cl00672 455488006337 PilZ domain; Region: PilZ; cl01260 455488006338 Hsp70 protein; Region: HSP70; pfam00012 455488006339 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 455488006340 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 455488006341 Ferredoxin [Energy production and conversion]; Region: COG1146 455488006342 4Fe-4S binding domain; Region: Fer4; cl02805 455488006343 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 455488006344 Preprotein translocase SecG subunit; Region: SecG; cl09123 455488006345 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 455488006346 substrate binding site [chemical binding]; other site 455488006347 dimer interface [polypeptide binding]; other site 455488006348 catalytic triad [active] 455488006349 Phosphoglycerate kinase; Region: PGK; pfam00162 455488006350 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 455488006351 substrate binding site [chemical binding]; other site 455488006352 hinge regions; other site 455488006353 ADP binding site [chemical binding]; other site 455488006354 catalytic site [active] 455488006355 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 455488006356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006357 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 455488006358 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 455488006359 Cupin domain; Region: Cupin_2; cl09118 455488006360 Sporulation related domain; Region: SPOR; cl10051 455488006361 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 455488006362 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 455488006363 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 455488006364 active site 455488006365 HIGH motif; other site 455488006366 KMSK motif region; other site 455488006367 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 455488006368 tRNA binding surface [nucleotide binding]; other site 455488006369 anticodon binding site; other site 455488006370 tetratricopeptide repeat protein; Provisional; Region: PRK11788 455488006371 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 455488006372 nucleotide binding site/active site [active] 455488006373 HIT family signature motif; other site 455488006374 catalytic residue [active] 455488006375 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 455488006376 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 455488006377 tandem repeat interface [polypeptide binding]; other site 455488006378 oligomer interface [polypeptide binding]; other site 455488006379 active site residues [active] 455488006380 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 455488006381 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 455488006382 RNA binding site [nucleotide binding]; other site 455488006383 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 455488006384 RNA binding site [nucleotide binding]; other site 455488006385 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 455488006386 RNA binding site [nucleotide binding]; other site 455488006387 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 455488006388 RNA binding site [nucleotide binding]; other site 455488006389 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 455488006390 RNA binding site [nucleotide binding]; other site 455488006391 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 455488006392 RNA binding site [nucleotide binding]; other site 455488006393 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 455488006394 LytB protein; Region: LYTB; cl00507 455488006395 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488006396 cytidylate kinase; Provisional; Region: cmk; PRK00023 455488006397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006398 active site 455488006399 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 455488006400 CMP-binding site; other site 455488006401 The sites determining sugar specificity; other site 455488006402 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 455488006403 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488006404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006405 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 455488006406 histidyl-tRNA synthetase; Region: hisS; TIGR00442 455488006407 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 455488006408 dimer interface [polypeptide binding]; other site 455488006409 motif 1; other site 455488006410 active site 455488006411 motif 2; other site 455488006412 motif 3; other site 455488006413 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 455488006414 anticodon binding site; other site 455488006415 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 455488006416 urocanate hydratase; Provisional; Region: PRK05414 455488006417 imidazolonepropionase; Validated; Region: PRK09356 455488006418 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 455488006419 active site 455488006420 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 455488006421 active site 455488006422 metal binding site [ion binding]; metal-binding site 455488006423 homotetramer interface [polypeptide binding]; other site 455488006424 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 455488006425 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 455488006426 putative active site [active] 455488006427 putative dimer interface [polypeptide binding]; other site 455488006428 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 455488006429 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 455488006430 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 455488006431 putative substrate binding site [chemical binding]; other site 455488006432 putative ATP binding site [chemical binding]; other site 455488006433 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 455488006434 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 455488006435 active site 455488006436 hydrophilic channel; other site 455488006437 dimerization interface [polypeptide binding]; other site 455488006438 catalytic residues [active] 455488006439 active site lid [active] 455488006440 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 455488006441 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 455488006442 active site 455488006443 substrate binding site [chemical binding]; other site 455488006444 metal binding site [ion binding]; metal-binding site 455488006445 Uncharacterized conserved protein [Function unknown]; Region: COG1624 455488006446 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 455488006447 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 455488006448 dihydropteroate synthase; Region: DHPS; TIGR01496 455488006449 substrate binding pocket [chemical binding]; other site 455488006450 dimer interface [polypeptide binding]; other site 455488006451 inhibitor binding site; inhibition site 455488006452 FtsH Extracellular; Region: FtsH_ext; pfam06480 455488006453 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 455488006454 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 455488006455 Walker A motif; other site 455488006456 ATP binding site [chemical binding]; other site 455488006457 Walker B motif; other site 455488006458 arginine finger; other site 455488006459 Peptidase family M41; Region: Peptidase_M41; pfam01434 455488006460 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 455488006461 B3/4 domain; Region: B3_4; cl11458 455488006462 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 455488006463 PilZ domain; Region: PilZ; cl01260 455488006464 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 455488006465 IHF dimer interface [polypeptide binding]; other site 455488006466 IHF - DNA interface [nucleotide binding]; other site 455488006467 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 455488006468 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 455488006469 active site 2 [active] 455488006470 active site 1 [active] 455488006471 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 455488006472 B12 binding site [chemical binding]; other site 455488006473 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 455488006474 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 455488006475 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 455488006476 Ligand Binding Site [chemical binding]; other site 455488006477 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 455488006478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006479 active site 455488006480 phosphorylation site [posttranslational modification] 455488006481 intermolecular recognition site; other site 455488006482 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488006483 dimer interface [polypeptide binding]; other site 455488006484 phosphorylation site [posttranslational modification] 455488006485 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006486 ATP binding site [chemical binding]; other site 455488006487 Mg2+ binding site [ion binding]; other site 455488006488 G-X-G motif; other site 455488006489 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 455488006490 active site 455488006491 NTP binding site [chemical binding]; other site 455488006492 metal binding triad [ion binding]; metal-binding site 455488006493 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 455488006494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488006495 Phage Tail Collar Domain; Region: Collar; pfam07484 455488006496 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 455488006497 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 455488006498 Walker A motif; other site 455488006499 ATP binding site [chemical binding]; other site 455488006500 Walker B motif; other site 455488006501 arginine finger; other site 455488006502 Helix-turn-helix domains; Region: HTH; cl00088 455488006503 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 455488006504 Protein export membrane protein; Region: SecD_SecF; cl14618 455488006505 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488006506 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488006507 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488006508 Helix-turn-helix domains; Region: HTH; cl00088 455488006509 PAS fold; Region: PAS_4; pfam08448 455488006510 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 455488006511 putative active site [active] 455488006512 heme pocket [chemical binding]; other site 455488006513 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488006514 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006515 ATP binding site [chemical binding]; other site 455488006516 Mg2+ binding site [ion binding]; other site 455488006517 G-X-G motif; other site 455488006518 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 455488006519 hypothetical protein; Provisional; Region: PRK13560 455488006520 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 455488006521 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 455488006522 putative active site [active] 455488006523 heme pocket [chemical binding]; other site 455488006524 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488006525 dimer interface [polypeptide binding]; other site 455488006526 phosphorylation site [posttranslational modification] 455488006527 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006528 ATP binding site [chemical binding]; other site 455488006529 Mg2+ binding site [ion binding]; other site 455488006530 G-X-G motif; other site 455488006531 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006533 active site 455488006534 phosphorylation site [posttranslational modification] 455488006535 intermolecular recognition site; other site 455488006536 dimerization interface [polypeptide binding]; other site 455488006537 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 455488006538 active site 455488006539 Helix-turn-helix domains; Region: HTH; cl00088 455488006540 YCII-related domain; Region: YCII; cl00999 455488006541 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 455488006542 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 455488006543 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 455488006544 dimerization interface [polypeptide binding]; other site 455488006545 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 455488006546 S-adenosylmethionine binding site [chemical binding]; other site 455488006547 Adenosine specific kinase; Region: Adenosine_kin; cl00796 455488006548 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cl00250 455488006549 30S subunit binding site; other site 455488006550 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 protein; Region: CSP_CDS; cd04458 455488006551 DNA-binding site [nucleotide binding]; DNA binding site 455488006552 RNA-binding motif; other site 455488006553 YceI-like domain; Region: YceI; cl01001 455488006554 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488006555 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 455488006556 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488006557 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488006558 active site 455488006559 metal binding site [ion binding]; metal-binding site 455488006560 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 455488006561 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488006562 dimer interface [polypeptide binding]; other site 455488006563 phosphorylation site [posttranslational modification] 455488006564 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006565 ATP binding site [chemical binding]; other site 455488006566 G-X-G motif; other site 455488006567 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488006568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006569 active site 455488006570 phosphorylation site [posttranslational modification] 455488006571 intermolecular recognition site; other site 455488006572 dimerization interface [polypeptide binding]; other site 455488006573 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 455488006574 Walker A motif; other site 455488006575 ATP binding site [chemical binding]; other site 455488006576 Walker B motif; other site 455488006577 arginine finger; other site 455488006578 Helix-turn-helix domains; Region: HTH; cl00088 455488006579 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 455488006580 Ligand Binding Site [chemical binding]; other site 455488006581 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 455488006582 Ligand Binding Site [chemical binding]; other site 455488006583 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 455488006584 Ligand Binding Site [chemical binding]; other site 455488006585 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 455488006586 DNA binding residues [nucleotide binding] 455488006587 dimerization interface [polypeptide binding]; other site 455488006588 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 455488006589 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 455488006590 Cl- selectivity filter; other site 455488006591 Cl- binding residues [ion binding]; other site 455488006592 pore gating glutamate residue; other site 455488006593 dimer interface [polypeptide binding]; other site 455488006594 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 455488006595 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 455488006596 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 455488006597 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 455488006598 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 455488006599 active site 455488006600 homotetramer interface [polypeptide binding]; other site 455488006601 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 455488006602 putative active site [active] 455488006603 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 455488006604 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 455488006605 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 455488006606 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 455488006607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006608 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 455488006609 AMP-binding enzyme; Region: AMP-binding; cl15778 455488006610 Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_HCS; cd07948 455488006611 homocitrate synthase; Region: LysS_fung_arch; TIGR02146 455488006612 active site 455488006613 catalytic residues [active] 455488006614 metal binding site [ion binding]; metal-binding site 455488006615 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 455488006616 EamA-like transporter family; Region: EamA; cl01037 455488006617 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 455488006618 active site 455488006619 nucleophile elbow; other site 455488006620 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 455488006621 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 455488006622 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 455488006623 D-cysteine desulfhydrase; Validated; Region: PRK03910 455488006624 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 455488006625 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488006626 catalytic residue [active] 455488006627 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488006628 DTW domain; Region: DTW; cl01221 455488006629 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 455488006630 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 455488006631 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; cl15754 455488006632 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 455488006633 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 455488006634 Cytochrome c; Region: Cytochrom_C; cl11414 455488006635 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488006636 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 455488006637 4Fe-4S binding domain; Region: Fer4; cl02805 455488006638 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 455488006639 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 455488006640 Cl- selectivity filter; other site 455488006641 Cl- binding residues [ion binding]; other site 455488006642 pore gating glutamate residue; other site 455488006643 dimer interface [polypeptide binding]; other site 455488006644 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 455488006645 Peptidase family M1; Region: Peptidase_M1; pfam01433 455488006646 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 455488006647 Zn binding site [ion binding]; other site 455488006648 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 455488006649 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 455488006650 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 455488006651 putative NAD(P) binding site [chemical binding]; other site 455488006652 putative substrate binding site [chemical binding]; other site 455488006653 catalytic Zn binding site [ion binding]; other site 455488006654 structural Zn binding site [ion binding]; other site 455488006655 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 455488006656 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488006657 active site 455488006658 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 455488006659 active site 455488006660 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 455488006661 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 455488006662 RHS protein; Region: RHS; pfam03527 455488006663 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 455488006664 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 455488006665 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 455488006666 Integrase core domain; Region: rve; cl01316 455488006667 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 455488006668 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 455488006669 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 455488006670 DNA-binding interface [nucleotide binding]; DNA binding site 455488006671 putative transposase OrfB; Reviewed; Region: PHA02517 455488006672 HTH-like domain; Region: HTH_21; pfam13276 455488006673 Integrase core domain; Region: rve; cl01316 455488006674 Integrase core domain; Region: rve_3; cl15866 455488006675 Fibronectin type III-like domain; Region: Fn3-like; cl15273 455488006676 Fibronectin type III-like domain; Region: Fn3-like; cl15273 455488006677 Fibronectin type III-like domain; Region: Fn3-like; cl15273 455488006678 probable methyltransferase; Region: TIGR03438 455488006679 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 455488006680 TIGR03440 family protein; Region: unchr_TIGR03440 455488006681 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 455488006682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006683 Walker A/P-loop; other site 455488006684 ATP binding site [chemical binding]; other site 455488006685 Q-loop/lid; other site 455488006686 ABC transporter signature motif; other site 455488006687 Walker B; other site 455488006688 D-loop; other site 455488006689 H-loop/switch region; other site 455488006690 methionine aminopeptidase; Provisional; Region: PRK12318 455488006691 SEC-C motif; Region: SEC-C; pfam02810 455488006692 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 455488006693 active site 455488006694 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488006695 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 455488006696 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 455488006697 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488006698 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 455488006699 GAF domain; Region: GAF; cl15785 455488006700 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 455488006701 Walker A motif; other site 455488006702 ATP binding site [chemical binding]; other site 455488006703 Walker B motif; other site 455488006704 arginine finger; other site 455488006705 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 455488006706 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488006707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006708 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 455488006709 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 455488006710 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 455488006711 Walker A motif; other site 455488006712 ATP binding site [chemical binding]; other site 455488006713 Walker B motif; other site 455488006714 arginine finger; other site 455488006715 Helix-turn-helix domains; Region: HTH; cl00088 455488006716 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 455488006717 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 455488006718 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 455488006719 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 455488006720 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 455488006721 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 455488006722 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 455488006723 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 455488006724 FliG C-terminal domain; Region: FliG_C; pfam01706 455488006725 Flagellar assembly protein FliH; Region: FliH; pfam02108 455488006726 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 455488006727 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 455488006728 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006729 Walker A motif; other site 455488006730 ATP binding site [chemical binding]; other site 455488006731 Walker B motif; other site 455488006732 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 455488006733 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 455488006734 FlgD Ig-like domain; Region: FlgD_ig; cl15790 455488006735 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 455488006736 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 455488006737 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 455488006738 Flagellar protein (FlbD); Region: FlbD; cl00683 455488006739 flagellar motor protein MotA; Validated; Region: PRK08124 455488006740 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 455488006741 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 455488006742 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 455488006743 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455488006744 ligand binding site [chemical binding]; other site 455488006745 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 455488006746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006747 active site 455488006748 phosphorylation site [posttranslational modification] 455488006749 intermolecular recognition site; other site 455488006750 dimerization interface [polypeptide binding]; other site 455488006751 CheB methylesterase; Region: CheB_methylest; pfam01339 455488006752 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 455488006753 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 455488006754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006755 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 455488006756 putative CheA interaction surface; other site 455488006757 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 455488006758 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 455488006759 dimerization interface [polypeptide binding]; other site 455488006760 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488006761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488006762 dimer interface [polypeptide binding]; other site 455488006763 putative CheW interface [polypeptide binding]; other site 455488006764 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 455488006765 putative binding surface; other site 455488006766 active site 455488006767 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 455488006768 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006769 ATP binding site [chemical binding]; other site 455488006770 Mg2+ binding site [ion binding]; other site 455488006771 G-X-G motif; other site 455488006772 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 455488006773 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006775 active site 455488006776 phosphorylation site [posttranslational modification] 455488006777 intermolecular recognition site; other site 455488006778 dimerization interface [polypeptide binding]; other site 455488006779 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 455488006780 putative CheA interaction surface; other site 455488006781 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488006782 dimer interface [polypeptide binding]; other site 455488006783 putative CheW interface [polypeptide binding]; other site 455488006784 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 455488006785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006786 phosphorylation site [posttranslational modification] 455488006787 intermolecular recognition site; other site 455488006788 CheB methylesterase; Region: CheB_methylest; pfam01339 455488006789 CheD chemotactic sensory transduction; Region: CheD; cl00810 455488006790 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 455488006791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488006792 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 455488006793 putative binding surface; other site 455488006794 active site 455488006795 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 455488006796 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006797 ATP binding site [chemical binding]; other site 455488006798 Mg2+ binding site [ion binding]; other site 455488006799 G-X-G motif; other site 455488006800 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 455488006801 Chemotaxis phosphatase CheX; Region: CheX; cl15816 455488006802 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006804 active site 455488006805 phosphorylation site [posttranslational modification] 455488006806 intermolecular recognition site; other site 455488006807 dimerization interface [polypeptide binding]; other site 455488006808 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006810 active site 455488006811 phosphorylation site [posttranslational modification] 455488006812 intermolecular recognition site; other site 455488006813 dimerization interface [polypeptide binding]; other site 455488006814 HDOD domain; Region: HDOD; pfam08668 455488006815 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488006816 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 455488006817 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 455488006818 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 455488006819 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 455488006820 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 455488006821 FliP family; Region: FliP; cl00593 455488006822 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 455488006823 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 455488006824 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 455488006825 type III secretion system protein SpaS; Validated; Region: PRK08156 455488006826 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 455488006827 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 455488006828 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 455488006829 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 455488006830 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 455488006831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006832 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 455488006833 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006834 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 455488006835 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488006836 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 455488006837 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 455488006838 DNA binding residues [nucleotide binding] 455488006839 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488006840 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 455488006841 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 455488006842 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 455488006843 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 455488006844 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 455488006845 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 455488006846 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 455488006847 Flagellar L-ring protein; Region: FlgH; cl00905 455488006848 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 455488006849 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 455488006850 Peptidase family M23; Region: Peptidase_M23; pfam01551 455488006851 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 455488006852 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 455488006853 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 455488006854 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 455488006855 flagellin; Provisional; Region: PRK12802 455488006856 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 455488006857 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 455488006858 flagellar capping protein; Reviewed; Region: fliD; PRK08032 455488006859 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 455488006860 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 455488006861 flagellin; Provisional; Region: PRK12802 455488006862 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 455488006863 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 455488006864 Flagellar protein FliS; Region: FliS; cl00654 455488006865 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 455488006866 putative metal binding site; other site 455488006867 PilZ domain; Region: PilZ; cl01260 455488006868 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 455488006869 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 455488006870 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488006871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006872 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 455488006873 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 455488006874 dimer interface [polypeptide binding]; other site 455488006875 putative functional site; other site 455488006876 putative MPT binding site; other site 455488006877 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 455488006878 Helix-turn-helix domains; Region: HTH; cl00088 455488006879 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 455488006880 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 455488006881 Ligand Binding Site [chemical binding]; other site 455488006882 FOG: CBS domain [General function prediction only]; Region: COG0517 455488006883 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_15; cd04803 455488006884 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 455488006885 heme-binding site [chemical binding]; other site 455488006886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488006887 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488006888 dimer interface [polypeptide binding]; other site 455488006889 phosphorylation site [posttranslational modification] 455488006890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006891 ATP binding site [chemical binding]; other site 455488006892 Mg2+ binding site [ion binding]; other site 455488006893 G-X-G motif; other site 455488006894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006895 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006896 active site 455488006897 phosphorylation site [posttranslational modification] 455488006898 intermolecular recognition site; other site 455488006899 dimerization interface [polypeptide binding]; other site 455488006900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006901 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006902 active site 455488006903 phosphorylation site [posttranslational modification] 455488006904 intermolecular recognition site; other site 455488006905 dimerization interface [polypeptide binding]; other site 455488006906 Response regulator receiver domain; Region: Response_reg; pfam00072 455488006907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006908 active site 455488006909 phosphorylation site [posttranslational modification] 455488006910 intermolecular recognition site; other site 455488006911 dimerization interface [polypeptide binding]; other site 455488006912 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488006913 dimer interface [polypeptide binding]; other site 455488006914 phosphorylation site [posttranslational modification] 455488006915 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488006916 ATP binding site [chemical binding]; other site 455488006917 Mg2+ binding site [ion binding]; other site 455488006918 G-X-G motif; other site 455488006919 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488006920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488006921 active site 455488006922 phosphorylation site [posttranslational modification] 455488006923 intermolecular recognition site; other site 455488006924 dimerization interface [polypeptide binding]; other site 455488006925 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 455488006926 Walker A motif; other site 455488006927 ATP binding site [chemical binding]; other site 455488006928 Walker B motif; other site 455488006929 arginine finger; other site 455488006930 Helix-turn-helix domains; Region: HTH; cl00088 455488006931 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 455488006932 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 455488006933 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 455488006934 FOG: CBS domain [General function prediction only]; Region: COG0517 455488006935 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 455488006936 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 455488006937 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 455488006938 Ligand Binding Site [chemical binding]; other site 455488006939 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 455488006940 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 455488006941 NAD binding site [chemical binding]; other site 455488006942 catalytic Zn binding site [ion binding]; other site 455488006943 structural Zn binding site [ion binding]; other site 455488006944 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 455488006945 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 455488006946 Isochorismatase family; Region: Isochorismatase; pfam00857 455488006947 catalytic triad [active] 455488006948 metal binding site [ion binding]; metal-binding site 455488006949 conserved cis-peptide bond; other site 455488006950 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 inactive in...; Region: YhaM_OBF_like; cd04492 455488006951 generic binding surface I; other site 455488006952 generic binding surface II; other site 455488006953 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 455488006954 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 455488006955 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488006956 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 455488006957 active site 455488006958 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 455488006959 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 455488006960 active site 455488006961 HIGH motif; other site 455488006962 KMSKS motif; other site 455488006963 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 455488006964 anticodon binding site; other site 455488006965 tRNA binding surface [nucleotide binding]; other site 455488006966 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 455488006967 dimer interface [polypeptide binding]; other site 455488006968 putative tRNA-binding site [nucleotide binding]; other site 455488006969 DNA polymerase III, delta subunit; Region: holA; TIGR01128 455488006970 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 455488006971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488006972 DivIVA protein; Region: DivIVA; pfam05103 455488006973 DivIVA domain; Region: DivI1A_domain; TIGR03544 455488006974 DNA polymerase I; Provisional; Region: PRK05755 455488006975 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 455488006976 active site 455488006977 metal binding site 1 [ion binding]; metal-binding site 455488006978 putative 5' ssDNA interaction site; other site 455488006979 metal binding site 3; metal-binding site 455488006980 metal binding site 2 [ion binding]; metal-binding site 455488006981 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 455488006982 putative DNA binding site [nucleotide binding]; other site 455488006983 putative metal binding site [ion binding]; other site 455488006984 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 455488006985 active site 455488006986 substrate binding site [chemical binding]; other site 455488006987 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 455488006988 active site 455488006989 DNA binding site [nucleotide binding] 455488006990 catalytic site [active] 455488006991 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 455488006992 phosphopeptide binding site; other site 455488006993 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 455488006994 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 455488006995 dimer interface [polypeptide binding]; other site 455488006996 motif 1; other site 455488006997 active site 455488006998 motif 2; other site 455488006999 motif 3; other site 455488007000 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 455488007001 putative substrate binding site [chemical binding]; other site 455488007002 putative ATP binding site [chemical binding]; other site 455488007003 Recombination protein O N terminal; Region: RecO_N; cl15812 455488007004 DNA repair protein RecO; Region: reco; TIGR00613 455488007005 Recombination protein O C terminal; Region: RecO_C; pfam02565 455488007006 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488007007 TPR repeat; Region: TPR_11; pfam13414 455488007008 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488007009 binding surface 455488007010 TPR motif; other site 455488007011 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488007012 binding surface 455488007013 TPR motif; other site 455488007014 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 455488007015 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 455488007016 FeS/SAM binding site; other site 455488007017 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 455488007018 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455488007019 catalytic residue [active] 455488007020 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 455488007021 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 455488007022 quinone interaction residues [chemical binding]; other site 455488007023 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 455488007024 active site 455488007025 catalytic residues [active] 455488007026 FMN binding site [chemical binding]; other site 455488007027 substrate binding site [chemical binding]; other site 455488007028 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 455488007029 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488007030 chaperone protein DnaJ; Provisional; Region: PRK14299 455488007031 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 455488007032 HSP70 interaction site [polypeptide binding]; other site 455488007033 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 455488007034 substrate binding site [polypeptide binding]; other site 455488007035 dimer interface [polypeptide binding]; other site 455488007036 HEAT repeats; Region: HEAT_2; pfam13646 455488007037 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 455488007038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 455488007039 putative acyl-acceptor binding pocket; other site 455488007040 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 455488007041 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 455488007042 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 455488007043 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 455488007044 active site 455488007045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 455488007046 Coenzyme A binding pocket [chemical binding]; other site 455488007047 Ycf46; Provisional; Region: ycf46; CHL00195 455488007048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007049 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488007050 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 455488007051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007052 Walker A motif; other site 455488007053 ATP binding site [chemical binding]; other site 455488007054 Walker B motif; other site 455488007055 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 455488007056 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 455488007057 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 455488007058 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 455488007059 dimer interface [polypeptide binding]; other site 455488007060 substrate binding site [chemical binding]; other site 455488007061 metal binding sites [ion binding]; metal-binding site 455488007062 serine O-acetyltransferase; Region: cysE; TIGR01172 455488007063 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 455488007064 trimer interface [polypeptide binding]; other site 455488007065 active site 455488007066 substrate binding site [chemical binding]; other site 455488007067 CoA binding site [chemical binding]; other site 455488007068 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 455488007069 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 455488007070 dimer interface [polypeptide binding]; other site 455488007071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488007072 catalytic residue [active] 455488007073 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 455488007074 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 455488007075 GIY-YIG motif/motif A; other site 455488007076 active site 455488007077 catalytic site [active] 455488007078 putative DNA binding site [nucleotide binding]; other site 455488007079 metal binding site [ion binding]; metal-binding site 455488007080 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 455488007081 excinuclease ABC subunit B; Provisional; Region: PRK05298 455488007082 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 455488007083 ATP binding site [chemical binding]; other site 455488007084 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 455488007085 nucleotide binding region [chemical binding]; other site 455488007086 ATP-binding site [chemical binding]; other site 455488007087 Ultra-violet resistance protein B; Region: UvrB; pfam12344 455488007088 UvrB/uvrC motif; Region: UVR; pfam02151 455488007089 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 455488007090 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 455488007091 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 protein; Region: CSP_CDS; cd04458 455488007092 DNA-binding site [nucleotide binding]; DNA binding site 455488007093 RNA-binding motif; other site 455488007094 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 455488007095 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 455488007096 active site 455488007097 HIGH motif; other site 455488007098 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 455488007099 KMSKS motif; other site 455488007100 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 455488007101 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 455488007102 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 455488007103 substrate binding site; other site 455488007104 dimer interface; other site 455488007105 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 455488007106 homotrimer interaction site [polypeptide binding]; other site 455488007107 zinc binding site [ion binding]; other site 455488007108 CDP-binding sites; other site 455488007109 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 455488007110 Competence protein; Region: Competence; cl00471 455488007111 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488007112 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 455488007113 phosphopeptide binding site; other site 455488007114 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 455488007115 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 455488007116 GDP-binding site [chemical binding]; other site 455488007117 ACT binding site; other site 455488007118 IMP binding site; other site 455488007119 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 455488007120 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 455488007121 dimer interface [polypeptide binding]; other site 455488007122 motif 1; other site 455488007123 motif 2; other site 455488007124 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 455488007125 active site 455488007126 motif 3; other site 455488007127 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 455488007128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007129 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 455488007130 putative L-serine binding site [chemical binding]; other site 455488007131 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 455488007132 Helix-turn-helix domains; Region: HTH; cl00088 455488007133 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 455488007134 AMIN domain; Region: AMIN; pfam11741 455488007135 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 455488007136 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455488007137 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 455488007138 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 455488007139 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 455488007140 ligand binding site [chemical binding]; other site 455488007141 flexible hinge region; other site 455488007142 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 455488007143 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 455488007144 dimerization interface [polypeptide binding]; other site 455488007145 putative ATP binding site [chemical binding]; other site 455488007146 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 455488007147 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 455488007148 active site 455488007149 substrate binding site [chemical binding]; other site 455488007150 cosubstrate binding site; other site 455488007151 catalytic site [active] 455488007152 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 455488007153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007154 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 455488007155 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 455488007156 putative active site [active] 455488007157 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 455488007158 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 455488007159 active site 455488007160 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14182 455488007161 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 455488007162 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 455488007163 homodimer interface [polypeptide binding]; other site 455488007164 NADP binding site [chemical binding]; other site 455488007165 substrate binding site [chemical binding]; other site 455488007166 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488007167 active site 455488007168 metal binding site [ion binding]; metal-binding site 455488007169 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 455488007170 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 455488007171 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 455488007172 lipoyl attachment site [posttranslational modification]; other site 455488007173 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 455488007174 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 455488007175 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488007176 catalytic residue [active] 455488007177 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 455488007178 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 455488007179 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488007180 catalytic residue [active] 455488007181 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 455488007182 active site 455488007183 dimer interfaces [polypeptide binding]; other site 455488007184 catalytic residues [active] 455488007185 Gram-negative bacterial tonB protein; Region: TonB; cl10048 455488007186 Transglycosylase; Region: Transgly; cl07896 455488007187 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 455488007188 rRNA binding site [nucleotide binding]; other site 455488007189 predicted 30S ribosome binding site; other site 455488007190 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 protein; Region: CSP_CDS; cd04458 455488007191 DNA-binding site [nucleotide binding]; DNA binding site 455488007192 RNA-binding motif; other site 455488007193 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 455488007194 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 455488007195 YceG-like family; Region: YceG; pfam02618 455488007196 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 455488007197 dimerization interface [polypeptide binding]; other site 455488007198 PrkA AAA domain; Region: AAA_PrkA; smart00763 455488007199 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 455488007200 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 455488007201 SpoVR like protein; Region: SpoVR; pfam04293 455488007202 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 455488007203 Peptidase family M23; Region: Peptidase_M23; pfam01551 455488007204 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 455488007205 PAS domain; Region: PAS_9; pfam13426 455488007206 putative active site [active] 455488007207 heme pocket [chemical binding]; other site 455488007208 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 455488007209 helicase 45; Provisional; Region: PTZ00424 455488007210 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 455488007211 ATP binding site [chemical binding]; other site 455488007212 Mg++ binding site [ion binding]; other site 455488007213 motif III; other site 455488007214 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 455488007215 nucleotide binding region [chemical binding]; other site 455488007216 ATP-binding site [chemical binding]; other site 455488007217 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 455488007218 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 455488007219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488007220 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 455488007221 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 455488007222 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 455488007223 MG2 domain; Region: A2M_N; pfam01835 455488007224 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 455488007225 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488007226 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 455488007227 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 455488007228 motif II; other site 455488007229 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 455488007230 classical (c) SDRs; Region: SDR_c; cd05233 455488007231 NAD(P) binding site [chemical binding]; other site 455488007232 active site 455488007233 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 455488007234 dimer interface [polypeptide binding]; other site 455488007235 [2Fe-2S] cluster binding site [ion binding]; other site 455488007236 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 455488007237 Tetratricopeptide repeat; Region: TPR_9; pfam13371 455488007238 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 455488007239 Protein of unknown function (DUF419); Region: DUF419; cl15265 455488007240 Leucine carboxyl methyltransferase; Region: LCM; cl01306 455488007241 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488007242 binding surface 455488007243 Tetratricopeptide repeat; Region: TPR_16; pfam13432 455488007244 TPR motif; other site 455488007245 Transposase domain (DUF772); Region: DUF772; cl15789 455488007246 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488007247 Transposase domain (DUF772); Region: DUF772; cl15789 455488007248 Protein of unknown function (DUF419); Region: DUF419; cl15265 455488007249 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 455488007250 putative hydrophobic ligand binding site [chemical binding]; other site 455488007251 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 455488007252 dimerization interface [polypeptide binding]; other site 455488007253 putative DNA binding site [nucleotide binding]; other site 455488007254 putative Zn2+ binding site [ion binding]; other site 455488007255 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 455488007256 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; cl15754 455488007257 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488007258 binding surface 455488007259 TPR motif; other site 455488007260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007261 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 455488007262 NAD(P) binding site [chemical binding]; other site 455488007263 active site 455488007264 PAS domain S-box; Region: sensory_box; TIGR00229 455488007265 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 455488007266 putative active site [active] 455488007267 heme pocket [chemical binding]; other site 455488007268 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488007269 ATP binding site [chemical binding]; other site 455488007270 Mg2+ binding site [ion binding]; other site 455488007271 G-X-G motif; other site 455488007272 ATP synthase subunit D; Region: ATP-synt_D; cl00613 455488007273 V-type ATP synthase subunit B; Provisional; Region: PRK04196 455488007274 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 455488007275 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 455488007276 Walker A motif homologous position; other site 455488007277 Walker B motif; other site 455488007278 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 455488007279 V-type ATP synthase subunit A; Provisional; Region: PRK04192 455488007280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007281 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 455488007282 Walker A motif/ATP binding site; other site 455488007283 Walker B motif; other site 455488007284 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 455488007285 ATP synthase subunit C; Region: ATP-synt_C; cl00466 455488007286 V-type ATP synthase subunit I; Validated; Region: PRK05771 455488007287 V-type ATP synthase subunit I; Validated; Region: PRK05771 455488007288 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 455488007289 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 455488007290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007291 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 455488007292 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 455488007293 dimerization interface [polypeptide binding]; other site 455488007294 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488007295 dimer interface [polypeptide binding]; other site 455488007296 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 455488007297 putative CheW interface [polypeptide binding]; other site 455488007298 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 455488007299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488007300 ATP binding site [chemical binding]; other site 455488007301 Mg2+ binding site [ion binding]; other site 455488007302 G-X-G motif; other site 455488007303 Response regulator receiver domain; Region: Response_reg; pfam00072 455488007304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007305 active site 455488007306 phosphorylation site [posttranslational modification] 455488007307 intermolecular recognition site; other site 455488007308 dimerization interface [polypeptide binding]; other site 455488007309 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 455488007310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007311 active site 455488007312 phosphorylation site [posttranslational modification] 455488007313 intermolecular recognition site; other site 455488007314 CheB methylesterase; Region: CheB_methylest; pfam01339 455488007315 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488007316 dimer interface [polypeptide binding]; other site 455488007317 phosphorylation site [posttranslational modification] 455488007318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488007319 ATP binding site [chemical binding]; other site 455488007320 Mg2+ binding site [ion binding]; other site 455488007321 G-X-G motif; other site 455488007322 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 455488007323 Helix-turn-helix domains; Region: HTH; cl00088 455488007324 multidrug resistance protein MdtN; Provisional; Region: PRK10476 455488007325 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488007326 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488007327 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 455488007328 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488007329 Outer membrane efflux protein; Region: OEP; pfam02321 455488007330 Helix-turn-helix domains; Region: HTH; cl00088 455488007331 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488007332 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 455488007333 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 455488007334 nudix motif; other site 455488007335 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 455488007336 Fe-S cluster binding site [ion binding]; other site 455488007337 active site 455488007338 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 455488007339 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 455488007340 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 455488007341 catalytic site [active] 455488007342 G-X2-G-X-G-K; other site 455488007343 hypothetical protein; Provisional; Region: PRK11820 455488007344 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 455488007345 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 455488007346 Trm112p-like protein; Region: Trm112p; cl01066 455488007347 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 455488007348 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 455488007349 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 455488007350 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455488007351 active site 455488007352 nucleotide binding site [chemical binding]; other site 455488007353 HIGH motif; other site 455488007354 KMSKS motif; other site 455488007355 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 455488007356 putative ribose interaction site [chemical binding]; other site 455488007357 putative ADP binding site [chemical binding]; other site 455488007358 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 455488007359 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 455488007360 putative acyl-acceptor binding pocket; other site 455488007361 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 455488007362 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 455488007363 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 455488007364 putative active site [active] 455488007365 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 455488007366 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 455488007367 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 455488007368 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 455488007369 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 455488007370 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 455488007371 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 455488007372 Walker A/P-loop; other site 455488007373 ATP binding site [chemical binding]; other site 455488007374 Q-loop/lid; other site 455488007375 ABC transporter signature motif; other site 455488007376 Walker B; other site 455488007377 D-loop; other site 455488007378 H-loop/switch region; other site 455488007379 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007380 elongation factor G; Reviewed; Region: PRK12740 455488007381 G1 box; other site 455488007382 GTP/Mg2+ binding site [chemical binding]; other site 455488007383 G2 box; other site 455488007384 Switch I region; other site 455488007385 G3 box; other site 455488007386 Switch II region; other site 455488007387 G4 box; other site 455488007388 G5 box; other site 455488007389 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 455488007390 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 455488007391 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 455488007392 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 455488007393 AMP-binding enzyme; Region: AMP-binding; cl15778 455488007394 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488007395 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 455488007396 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 455488007397 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 455488007398 Cytochrome c; Region: Cytochrom_C; cl11414 455488007399 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 455488007400 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488007401 catalytic residue [active] 455488007402 MarC family integral membrane protein; Region: MarC; cl00919 455488007403 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 455488007404 Ligand binding site; other site 455488007405 Putative Catalytic site; other site 455488007406 DXD motif; other site 455488007407 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 455488007408 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 455488007409 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 455488007410 dimerization interface [polypeptide binding]; other site 455488007411 putative DNA binding site [nucleotide binding]; other site 455488007412 putative Zn2+ binding site [ion binding]; other site 455488007413 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 455488007414 active site residue [active] 455488007415 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 455488007416 4Fe-4S binding domain; Region: Fer4; cl02805 455488007417 4Fe-4S binding domain; Region: Fer4; cl02805 455488007418 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 455488007419 thiosulfate reductase PhsA; Provisional; Region: PRK15488 455488007420 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 455488007421 putative [Fe4-S4] binding site [ion binding]; other site 455488007422 putative molybdopterin cofactor binding site [chemical binding]; other site 455488007423 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 455488007424 putative molybdopterin cofactor binding site; other site 455488007425 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 455488007426 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 455488007427 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 455488007428 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488007429 dimer interface [polypeptide binding]; other site 455488007430 phosphorylation site [posttranslational modification] 455488007431 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488007432 ATP binding site [chemical binding]; other site 455488007433 Mg2+ binding site [ion binding]; other site 455488007434 G-X-G motif; other site 455488007435 Response regulator receiver domain; Region: Response_reg; pfam00072 455488007436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007437 active site 455488007438 phosphorylation site [posttranslational modification] 455488007439 intermolecular recognition site; other site 455488007440 dimerization interface [polypeptide binding]; other site 455488007441 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 455488007442 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 455488007443 putative Iron-sulfur protein interface [polypeptide binding]; other site 455488007444 proximal heme binding site [chemical binding]; other site 455488007445 distal heme binding site [chemical binding]; other site 455488007446 putative dimer interface [polypeptide binding]; other site 455488007447 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 455488007448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007449 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 455488007450 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 455488007451 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 455488007452 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 455488007453 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 455488007454 putative ADP-binding pocket [chemical binding]; other site 455488007455 O-Antigen ligase; Region: Wzy_C; cl04850 455488007456 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 455488007457 putative homodimer interface [polypeptide binding]; other site 455488007458 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 455488007459 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 455488007460 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 455488007461 putative active site [active] 455488007462 putative metal binding site [ion binding]; other site 455488007463 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488007464 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 455488007465 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488007466 catalytic residue [active] 455488007467 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 455488007468 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488007469 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 455488007470 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 455488007471 phosphate binding site [ion binding]; other site 455488007472 putative substrate binding pocket [chemical binding]; other site 455488007473 dimer interface [polypeptide binding]; other site 455488007474 Bacterial sugar transferase; Region: Bac_transf; cl00939 455488007475 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 455488007476 Chain length determinant protein; Region: Wzz; cl15801 455488007477 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 455488007478 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 455488007479 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 455488007480 SLBB domain; Region: SLBB; pfam10531 455488007481 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488007482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007483 active site 455488007484 phosphorylation site [posttranslational modification] 455488007485 intermolecular recognition site; other site 455488007486 dimerization interface [polypeptide binding]; other site 455488007487 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 455488007488 Walker A motif; other site 455488007489 ATP binding site [chemical binding]; other site 455488007490 Walker B motif; other site 455488007491 arginine finger; other site 455488007492 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 455488007493 active site residue [active] 455488007494 Stage II sporulation protein; Region: SpoIID; pfam08486 455488007495 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 455488007496 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 455488007497 homodimer interface [polypeptide binding]; other site 455488007498 substrate-cofactor binding pocket; other site 455488007499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488007500 catalytic residue [active] 455488007501 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488007502 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488007503 Walker A/P-loop; other site 455488007504 ATP binding site [chemical binding]; other site 455488007505 Q-loop/lid; other site 455488007506 ABC transporter signature motif; other site 455488007507 Walker B; other site 455488007508 D-loop; other site 455488007509 H-loop/switch region; other site 455488007510 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488007511 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488007512 FtsX-like permease family; Region: FtsX; cl15850 455488007513 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488007514 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488007515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007516 NAD(P) binding site [chemical binding]; other site 455488007517 active site 455488007518 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 455488007519 putative catalytic site [active] 455488007520 putative metal binding site [ion binding]; other site 455488007521 putative phosphate binding site [ion binding]; other site 455488007522 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 455488007523 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 455488007524 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 455488007525 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 455488007526 dimer interface [polypeptide binding]; other site 455488007527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488007528 catalytic residue [active] 455488007529 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 455488007530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 455488007531 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 455488007532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 455488007533 Low affinity iron permease; Region: Iron_permease; cl12096 455488007534 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 455488007535 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 455488007536 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 455488007537 Ligand Binding Site [chemical binding]; other site 455488007538 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 455488007539 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 455488007540 FAD binding site [chemical binding]; other site 455488007541 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 455488007542 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 455488007543 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 455488007544 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 455488007545 putative catalytic site [active] 455488007546 putative metal binding site [ion binding]; other site 455488007547 putative phosphate binding site [ion binding]; other site 455488007548 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 455488007549 G1 box; other site 455488007550 GTP/Mg2+ binding site [chemical binding]; other site 455488007551 Switch I region; other site 455488007552 G2 box; other site 455488007553 G3 box; other site 455488007554 Switch II region; other site 455488007555 G4 box; other site 455488007556 G5 box; other site 455488007557 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 455488007558 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 455488007559 dephospho-CoA kinase; Region: TIGR00152 455488007560 CoA-binding site [chemical binding]; other site 455488007561 ATP-binding [chemical binding]; other site 455488007562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007563 NAD(P) binding site [chemical binding]; other site 455488007564 active site 455488007565 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 455488007566 active site 2 [active] 455488007567 active site 1 [active] 455488007568 (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 455488007569 active site 455488007570 catalytic site [active] 455488007571 TPR repeat; Region: TPR_11; pfam13414 455488007572 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455488007573 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 455488007574 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 455488007575 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 455488007576 HSP70 interaction site [polypeptide binding]; other site 455488007577 ornithine carbamoyltransferase; Provisional; Region: PRK00779 455488007578 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 455488007579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007580 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 455488007581 inhibitor-cofactor binding pocket; inhibition site 455488007582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488007583 catalytic residue [active] 455488007584 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 455488007585 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 455488007586 Walker A motif; other site 455488007587 ATP binding site [chemical binding]; other site 455488007588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007589 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 455488007590 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 455488007591 active site 455488007592 HslU subunit interaction site [polypeptide binding]; other site 455488007593 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 455488007594 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 455488007595 DNA binding site [nucleotide binding] 455488007596 Int/Topo IB signature motif; other site 455488007597 active site 455488007598 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 455488007599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007600 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 455488007601 DNA topoisomerase I; Validated; Region: PRK06599 455488007602 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 455488007603 active site 455488007604 interdomain interaction site; other site 455488007605 putative metal-binding site [ion binding]; other site 455488007606 nucleotide binding site [chemical binding]; other site 455488007607 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 455488007608 domain I; other site 455488007609 DNA binding groove [nucleotide binding] 455488007610 phosphate binding site [ion binding]; other site 455488007611 domain II; other site 455488007612 domain III; other site 455488007613 nucleotide binding site [chemical binding]; other site 455488007614 catalytic site [active] 455488007615 domain IV; other site 455488007616 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 455488007617 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 455488007618 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 455488007619 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 455488007620 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 455488007621 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 455488007622 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 455488007623 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 455488007624 two component system sensor kinase SsrA; Provisional; Region: PRK15347 455488007625 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 455488007626 dimerization interface [polypeptide binding]; other site 455488007627 GAF domain; Region: GAF_2; pfam13185 455488007628 GAF domain; Region: GAF; cl15785 455488007629 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488007630 metal binding site [ion binding]; metal-binding site 455488007631 active site 455488007632 I-site; other site 455488007633 Response regulator receiver domain; Region: Response_reg; pfam00072 455488007634 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007635 active site 455488007636 phosphorylation site [posttranslational modification] 455488007637 intermolecular recognition site; other site 455488007638 dimerization interface [polypeptide binding]; other site 455488007639 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 455488007640 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 455488007641 active site 455488007642 metal binding site [ion binding]; metal-binding site 455488007643 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 455488007644 Walker A motif; other site 455488007645 ATP binding site [chemical binding]; other site 455488007646 Walker B motif; other site 455488007647 arginine finger; other site 455488007648 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 455488007649 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 455488007650 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 455488007651 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 455488007652 putative ADP-binding pocket [chemical binding]; other site 455488007653 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488007654 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 455488007655 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 455488007656 catalytic residues [active] 455488007657 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 455488007658 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 455488007659 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 455488007660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007661 Walker A motif; other site 455488007662 ATP binding site [chemical binding]; other site 455488007663 Walker B motif; other site 455488007664 PilZ domain; Region: PilZ; cl01260 455488007665 RF-1 domain; Region: RF-1; cl02875 455488007666 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 455488007667 RF-1 domain; Region: RF-1; cl02875 455488007668 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 455488007669 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 455488007670 putative active site [active] 455488007671 catalytic triad [active] 455488007672 putative dimer interface [polypeptide binding]; other site 455488007673 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 455488007674 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 455488007675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488007676 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 455488007677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007678 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488007679 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 455488007680 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488007681 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 455488007682 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 455488007683 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 455488007684 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 455488007685 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 455488007686 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 455488007687 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 455488007688 HIGH motif; other site 455488007689 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 455488007690 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455488007691 active site 455488007692 KMSKS motif; other site 455488007693 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 455488007694 tRNA binding surface [nucleotide binding]; other site 455488007695 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 455488007696 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 455488007697 putative dimer interface [polypeptide binding]; other site 455488007698 putative anticodon binding site; other site 455488007699 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 455488007700 homodimer interface [polypeptide binding]; other site 455488007701 motif 1; other site 455488007702 motif 2; other site 455488007703 active site 455488007704 motif 3; other site 455488007705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007706 Response regulator receiver domain; Region: Response_reg; pfam00072 455488007707 active site 455488007708 phosphorylation site [posttranslational modification] 455488007709 intermolecular recognition site; other site 455488007710 dimerization interface [polypeptide binding]; other site 455488007711 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 455488007712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007713 active site 455488007714 phosphorylation site [posttranslational modification] 455488007715 intermolecular recognition site; other site 455488007716 dimerization interface [polypeptide binding]; other site 455488007717 CheB methylesterase; Region: CheB_methylest; pfam01339 455488007718 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 455488007719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007720 HEAT repeats; Region: HEAT_2; pfam13646 455488007721 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 455488007722 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 455488007723 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 455488007724 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 455488007725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007726 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 455488007727 putative binding surface; other site 455488007728 active site 455488007729 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 455488007730 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488007731 ATP binding site [chemical binding]; other site 455488007732 Mg2+ binding site [ion binding]; other site 455488007733 G-X-G motif; other site 455488007734 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 455488007735 leucyl aminopeptidase; Provisional; Region: PRK00913 455488007736 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 455488007737 putative RNA binding site [nucleotide binding]; other site 455488007738 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 455488007739 homopentamer interface [polypeptide binding]; other site 455488007740 active site 455488007741 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 455488007742 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 455488007743 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 455488007744 dimerization interface [polypeptide binding]; other site 455488007745 active site 455488007746 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 455488007747 Lumazine binding domain; Region: Lum_binding; pfam00677 455488007748 Lumazine binding domain; Region: Lum_binding; pfam00677 455488007749 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 455488007750 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 455488007751 catalytic motif [active] 455488007752 Zn binding site [ion binding]; other site 455488007753 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 455488007754 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 455488007755 ATP cone domain; Region: ATP-cone; pfam03477 455488007756 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 455488007757 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 455488007758 dimer interface [polypeptide binding]; other site 455488007759 glycine-pyridoxal phosphate binding site [chemical binding]; other site 455488007760 active site 455488007761 folate binding site [chemical binding]; other site 455488007762 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 455488007763 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 455488007764 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 455488007765 dimer interface [polypeptide binding]; other site 455488007766 active site 455488007767 Phosphopantetheine attachment site; Region: PP-binding; cl09936 455488007768 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 455488007769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007770 NAD(P) binding site [chemical binding]; other site 455488007771 active site 455488007772 Acyl transferase domain; Region: Acyl_transf_1; cl08282 455488007773 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 455488007774 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 455488007775 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 455488007776 dimer interface [polypeptide binding]; other site 455488007777 active site 455488007778 CoA binding pocket [chemical binding]; other site 455488007779 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 455488007780 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 455488007781 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 455488007782 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 455488007783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007784 active site 455488007785 phosphorylation site [posttranslational modification] 455488007786 intermolecular recognition site; other site 455488007787 dimerization interface [polypeptide binding]; other site 455488007788 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 455488007789 DNA binding residues [nucleotide binding] 455488007790 dimerization interface [polypeptide binding]; other site 455488007791 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 455488007792 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 455488007793 GIY-YIG motif/motif A; other site 455488007794 active site 455488007795 catalytic site [active] 455488007796 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 455488007797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007798 NAD(P) binding site [chemical binding]; other site 455488007799 active site 455488007800 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 455488007801 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 455488007802 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 455488007803 putative active site [active] 455488007804 putative metal binding site [ion binding]; other site 455488007805 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 455488007806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007807 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488007808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007809 NAD(P) binding site [chemical binding]; other site 455488007810 active site 455488007811 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 455488007812 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 455488007813 putative ADP-binding pocket [chemical binding]; other site 455488007814 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 455488007815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007816 Bacterial sugar transferase; Region: Bac_transf; cl00939 455488007817 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 455488007818 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 455488007819 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 455488007820 Phosphopantetheine attachment site; Region: PP-binding; cl09936 455488007821 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 455488007822 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 455488007823 active site 455488007824 dimer interface [polypeptide binding]; other site 455488007825 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 455488007826 Ligand Binding Site [chemical binding]; other site 455488007827 Molecular Tunnel; other site 455488007828 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 455488007829 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 455488007830 homodimer interface [polypeptide binding]; other site 455488007831 NAD binding pocket [chemical binding]; other site 455488007832 ATP binding pocket [chemical binding]; other site 455488007833 Mg binding site [ion binding]; other site 455488007834 active-site loop [active] 455488007835 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 455488007836 AMP-binding enzyme; Region: AMP-binding; cl15778 455488007837 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488007838 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 455488007839 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 455488007840 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 455488007841 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 455488007842 trimer interface [polypeptide binding]; other site 455488007843 active site 455488007844 substrate binding site [chemical binding]; other site 455488007845 CoA binding site [chemical binding]; other site 455488007846 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 455488007847 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 455488007848 active site 455488007849 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 455488007850 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488007851 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 455488007852 MatE; Region: MatE; cl10513 455488007853 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 455488007854 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 455488007855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007856 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 455488007857 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 455488007858 Probable Catalytic site; other site 455488007859 metal-binding site 455488007860 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488007861 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 455488007862 Probable Catalytic site; other site 455488007863 metal-binding site 455488007864 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 455488007865 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 455488007866 Ligand Binding Site [chemical binding]; other site 455488007867 Molecular Tunnel; other site 455488007868 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 455488007869 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 455488007870 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 455488007871 inhibitor-cofactor binding pocket; inhibition site 455488007872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488007873 catalytic residue [active] 455488007874 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 455488007875 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 455488007876 OpgC protein; Region: OpgC_C; cl00792 455488007877 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 455488007878 putative ADP-binding pocket [chemical binding]; other site 455488007879 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional; Region: PRK12775 455488007880 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 455488007881 FAD binding pocket [chemical binding]; other site 455488007882 FAD binding motif [chemical binding]; other site 455488007883 phosphate binding motif [ion binding]; other site 455488007884 beta-alpha-beta structure motif; other site 455488007885 NAD binding pocket [chemical binding]; other site 455488007886 Iron coordination center [ion binding]; other site 455488007887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007888 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 455488007889 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 455488007890 diiron binding motif [ion binding]; other site 455488007891 Rhomboid family; Region: Rhomboid; cl11446 455488007892 RNA polymerase sigma factor; Provisional; Region: PRK12518 455488007893 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488007894 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488007895 active site 455488007896 ATP binding site [chemical binding]; other site 455488007897 substrate binding site [chemical binding]; other site 455488007898 activation loop (A-loop); other site 455488007899 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 455488007900 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 455488007901 cofactor binding site; other site 455488007902 metal binding site [ion binding]; metal-binding site 455488007903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007904 Walker A/P-loop; other site 455488007905 ATP binding site [chemical binding]; other site 455488007906 ABC transporter; Region: ABC_tran; pfam00005 455488007907 Q-loop/lid; other site 455488007908 ABC transporter signature motif; other site 455488007909 Walker B; other site 455488007910 D-loop; other site 455488007911 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488007912 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 455488007913 Response regulator receiver domain; Region: Response_reg; pfam00072 455488007914 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488007915 active site 455488007916 phosphorylation site [posttranslational modification] 455488007917 intermolecular recognition site; other site 455488007918 dimerization interface [polypeptide binding]; other site 455488007919 Sodium:solute symporter family; Region: SSF; cl00456 455488007920 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488007921 dimer interface [polypeptide binding]; other site 455488007922 phosphorylation site [posttranslational modification] 455488007923 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488007924 ATP binding site [chemical binding]; other site 455488007925 Mg2+ binding site [ion binding]; other site 455488007926 G-X-G motif; other site 455488007927 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 455488007928 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; cl15457 455488007929 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 455488007930 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; cl15457 455488007931 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; cl15457 455488007932 LabA_like proteins; Region: LabA_like/DUF88; cl10034 455488007933 putative metal binding site [ion binding]; other site 455488007934 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 455488007935 short chain dehydrogenase; Provisional; Region: PRK06701 455488007936 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 455488007937 NAD binding site [chemical binding]; other site 455488007938 metal binding site [ion binding]; metal-binding site 455488007939 active site 455488007940 Flp/Fap pilin component; Region: Flp_Fap; cl01585 455488007941 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 455488007942 TadE-like protein; Region: TadE; cl10688 455488007943 SAF domain; Region: SAF; cl00555 455488007944 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 455488007945 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 455488007946 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 455488007947 antiporter inner membrane protein; Provisional; Region: PRK11670 455488007948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488007949 AAA domain; Region: AAA_31; pfam13614 455488007950 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 455488007951 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 455488007952 ATP binding site [chemical binding]; other site 455488007953 Walker A motif; other site 455488007954 hexamer interface [polypeptide binding]; other site 455488007955 Walker B motif; other site 455488007956 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 455488007957 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 455488007958 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488007959 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488007960 binding surface 455488007961 TPR motif; other site 455488007962 TadE-like protein; Region: TadE; cl10688 455488007963 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 455488007964 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 455488007965 active site 455488007966 catalytic site [active] 455488007967 substrate binding site [chemical binding]; other site 455488007968 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 455488007969 DNA topoisomerase VI subunit A; Provisional; Region: PRK04342 455488007970 Type IIB DNA topoisomerase; Region: TP6A_N; pfam04406 455488007971 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 455488007972 active site 455488007973 metal binding site [ion binding]; metal-binding site 455488007974 interdomain interaction site; other site 455488007975 DNA topoisomerase VI subunit B; Validated; Region: PRK04184 455488007976 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488007977 ATP binding site [chemical binding]; other site 455488007978 Mg2+ binding site [ion binding]; other site 455488007979 G-X-G motif; other site 455488007980 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 455488007981 anchoring element; other site 455488007982 dimer interface [polypeptide binding]; other site 455488007983 ATP binding site [chemical binding]; other site 455488007984 Peptidase family M48; Region: Peptidase_M48; cl12018 455488007985 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 455488007986 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 455488007987 putative NAD(P) binding site [chemical binding]; other site 455488007988 structural Zn binding site [ion binding]; other site 455488007989 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 455488007990 catalytic triad [active] 455488007991 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 455488007992 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 455488007993 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 455488007994 EamA-like transporter family; Region: EamA; cl01037 455488007995 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 455488007996 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 455488007997 4Fe-4S binding domain; Region: Fer4; cl02805 455488007998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488007999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008000 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 455488008001 Peptidase family M54; Region: Peptidase_M54; cl00835 455488008002 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 455488008003 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 455488008004 nickel binding site [ion binding]; other site 455488008005 Flagellin N-methylase; Region: FliB; cl00497 455488008006 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 455488008007 Cysteine-rich domain; Region: CCG; pfam02754 455488008008 Cysteine-rich domain; Region: CCG; pfam02754 455488008009 FAD binding domain; Region: FAD_binding_4; pfam01565 455488008010 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 455488008011 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 455488008012 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 455488008013 FAD binding domain; Region: FAD_binding_4; pfam01565 455488008014 Heme NO binding; Region: HNOB; cl15268 455488008015 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 455488008016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008018 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 455488008019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 455488008020 Integrase core domain; Region: rve; cl01316 455488008021 transposase/IS protein; Provisional; Region: PRK09183 455488008022 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 455488008023 Walker A motif; other site 455488008024 ATP binding site [chemical binding]; other site 455488008025 Walker B motif; other site 455488008026 arginine finger; other site 455488008027 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 455488008028 Fic/DOC family; Region: Fic; cl00960 455488008029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008030 short chain dehydrogenase; Provisional; Region: PRK07041 455488008031 NAD(P) binding site [chemical binding]; other site 455488008032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008033 Helix-turn-helix domains; Region: HTH; cl00088 455488008034 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR8; cd08273 455488008035 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 455488008036 putative NAD(P) binding site [chemical binding]; other site 455488008037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 455488008038 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 455488008039 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 455488008040 Helix-turn-helix domains; Region: HTH; cl00088 455488008041 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 455488008042 rRNA binding site [nucleotide binding]; other site 455488008043 predicted 30S ribosome binding site; other site 455488008044 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488008045 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 455488008046 homotrimer interaction site [polypeptide binding]; other site 455488008047 putative active site [active] 455488008048 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 455488008049 DNA binding site [nucleotide binding] 455488008050 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488008051 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488008052 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 455488008053 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 455488008054 S-adenosylmethionine binding site [chemical binding]; other site 455488008055 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 455488008056 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 455488008057 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488008058 active site 455488008059 metal binding site [ion binding]; metal-binding site 455488008060 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488008061 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 455488008062 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 455488008063 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 455488008064 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 455488008065 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 455488008066 catalytic core [active] 455488008067 Cupin domain; Region: Cupin_2; cl09118 455488008068 phosphate acetyltransferase; Reviewed; Region: PRK05632 455488008069 DRTGG domain; Region: DRTGG; cl12147 455488008070 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 455488008071 Acetokinase family; Region: Acetate_kinase; cl01029 455488008072 propionate/acetate kinase; Provisional; Region: PRK12379 455488008073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008074 NAD(P) binding site [chemical binding]; other site 455488008075 active site 455488008076 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 455488008077 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 455488008078 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 455488008079 Cupin domain; Region: Cupin_2; cl09118 455488008080 Cytochrome c552; Region: Cytochrom_C552; pfam02335 455488008081 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 455488008082 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 455488008083 AMP-binding enzyme; Region: AMP-binding; cl15778 455488008084 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 455488008085 active site 455488008086 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 455488008087 active site 455488008088 catalytic site [active] 455488008089 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488008090 Transposase domain (DUF772); Region: DUF772; cl15789 455488008091 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488008092 Transposase domain (DUF772); Region: DUF772; cl15789 455488008093 Protein of unknown function, DUF488; Region: DUF488; cl01246 455488008094 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 455488008095 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 455488008096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 455488008097 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 455488008098 dimer interface [polypeptide binding]; other site 455488008099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 455488008100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008101 active site 455488008102 phosphorylation site [posttranslational modification] 455488008103 intermolecular recognition site; other site 455488008104 dimerization interface [polypeptide binding]; other site 455488008105 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 455488008106 DNA binding site [nucleotide binding] 455488008107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488008108 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 455488008109 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008110 dimer interface [polypeptide binding]; other site 455488008111 phosphorylation site [posttranslational modification] 455488008112 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008113 ATP binding site [chemical binding]; other site 455488008114 G-X-G motif; other site 455488008115 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 455488008116 Helix-turn-helix domains; Region: HTH; cl00088 455488008117 Amidase; Region: Amidase; cl11426 455488008118 Amidase; Region: Amidase; cl11426 455488008119 Helix-turn-helix domains; Region: HTH; cl00088 455488008120 PgaD-like protein; Region: PgaD; cl14676 455488008121 N-glycosyltransferase; Provisional; Region: PRK11204 455488008122 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 455488008123 DXD motif; other site 455488008124 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 455488008125 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 455488008126 putative active site [active] 455488008127 putative metal binding site [ion binding]; other site 455488008128 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488008129 Peptidase family M48; Region: Peptidase_M48; cl12018 455488008130 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 455488008131 ATP binding site [chemical binding]; other site 455488008132 substrate interface [chemical binding]; other site 455488008133 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 455488008134 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 455488008135 Walker A motif; other site 455488008136 ATP binding site [chemical binding]; other site 455488008137 Walker B motif; other site 455488008138 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 455488008139 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 455488008140 4Fe-4S binding domain; Region: Fer4; cl02805 455488008141 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 455488008142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008143 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 455488008144 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 455488008145 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 455488008146 putative Iron-sulfur protein interface [polypeptide binding]; other site 455488008147 proximal heme binding site [chemical binding]; other site 455488008148 distal heme binding site [chemical binding]; other site 455488008149 putative dimer interface [polypeptide binding]; other site 455488008150 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 455488008151 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 455488008152 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 455488008153 PA/protease or protease-like domain interface [polypeptide binding]; other site 455488008154 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 455488008155 Zn binding site [ion binding]; other site 455488008156 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488008157 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488008158 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488008159 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488008160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008161 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008162 dimer interface [polypeptide binding]; other site 455488008163 phosphorylation site [posttranslational modification] 455488008164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008165 Mg2+ binding site [ion binding]; other site 455488008166 G-X-G motif; other site 455488008167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008168 Response regulator receiver domain; Region: Response_reg; pfam00072 455488008169 active site 455488008170 phosphorylation site [posttranslational modification] 455488008171 intermolecular recognition site; other site 455488008172 dimerization interface [polypeptide binding]; other site 455488008173 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008174 dimer interface [polypeptide binding]; other site 455488008175 phosphorylation site [posttranslational modification] 455488008176 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008177 ATP binding site [chemical binding]; other site 455488008178 Mg2+ binding site [ion binding]; other site 455488008179 G-X-G motif; other site 455488008180 Response regulator receiver domain; Region: Response_reg; pfam00072 455488008181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008182 active site 455488008183 phosphorylation site [posttranslational modification] 455488008184 intermolecular recognition site; other site 455488008185 dimerization interface [polypeptide binding]; other site 455488008186 circadian clock protein KaiC; Reviewed; Region: PRK09302 455488008187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488008188 Walker A motif; other site 455488008189 ATP binding site [chemical binding]; other site 455488008190 Walker B motif; other site 455488008191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488008192 Walker A motif; other site 455488008193 ATP binding site [chemical binding]; other site 455488008194 Walker B motif; other site 455488008195 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008196 dimer interface [polypeptide binding]; other site 455488008197 phosphorylation site [posttranslational modification] 455488008198 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008199 ATP binding site [chemical binding]; other site 455488008200 G-X-G motif; other site 455488008201 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 455488008202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008203 active site 455488008204 phosphorylation site [posttranslational modification] 455488008205 intermolecular recognition site; other site 455488008206 dimerization interface [polypeptide binding]; other site 455488008207 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 455488008208 DNA binding site [nucleotide binding] 455488008209 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 455488008210 putative hydrophobic ligand binding site [chemical binding]; other site 455488008211 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 455488008212 active site 455488008213 catalytic residues [active] 455488008214 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 455488008215 DNA binding site [nucleotide binding] 455488008216 Int/Topo IB signature motif; other site 455488008217 active site 455488008218 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 455488008219 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 455488008220 NeuB family; Region: NeuB; cl00496 455488008221 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 455488008222 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 455488008223 DEAD-like helicases superfamily; Region: DEXDc; smart00487 455488008224 ATP binding site [chemical binding]; other site 455488008225 Mg++ binding site [ion binding]; other site 455488008226 motif III; other site 455488008227 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 455488008228 nucleotide binding region [chemical binding]; other site 455488008229 ATP-binding site [chemical binding]; other site 455488008230 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 455488008231 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008232 dimer interface [polypeptide binding]; other site 455488008233 phosphorylation site [posttranslational modification] 455488008234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008235 ATP binding site [chemical binding]; other site 455488008236 Mg2+ binding site [ion binding]; other site 455488008237 G-X-G motif; other site 455488008238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008239 active site 455488008240 phosphorylation site [posttranslational modification] 455488008241 intermolecular recognition site; other site 455488008242 dimerization interface [polypeptide binding]; other site 455488008243 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 455488008244 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 455488008245 putative substrate translocation pore; other site 455488008246 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 455488008247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008248 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 455488008249 L-serine binding site [chemical binding]; other site 455488008250 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 455488008251 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488008252 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488008253 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 455488008254 Cytochrome c; Region: Cytochrom_C; cl11414 455488008255 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488008256 urea carboxylase; Region: urea_carbox; TIGR02712 455488008257 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 455488008258 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 455488008259 carboxyltransferase (CT) interaction site; other site 455488008260 biotinylation site [posttranslational modification]; other site 455488008261 Acetyl-CoA carboxylase, central region; Region: ACC_central; pfam08326 455488008262 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 455488008263 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 455488008264 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488008265 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 455488008266 FtsX-like permease family; Region: FtsX; cl15850 455488008267 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488008268 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488008269 Walker A/P-loop; other site 455488008270 ATP binding site [chemical binding]; other site 455488008271 Q-loop/lid; other site 455488008272 ABC transporter signature motif; other site 455488008273 Walker B; other site 455488008274 D-loop; other site 455488008275 H-loop/switch region; other site 455488008276 macrolide transporter subunit MacA; Provisional; Region: PRK11578 455488008277 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488008278 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488008279 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 455488008280 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 455488008281 Histidine kinase; Region: His_kinase; pfam06580 455488008282 Histidine kinase-like ATPases; This family includes several ATP-binding 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 455488008283 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 455488008284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008285 active site 455488008286 phosphorylation site [posttranslational modification] 455488008287 intermolecular recognition site; other site 455488008288 dimerization interface [polypeptide binding]; other site 455488008289 LytTr DNA-binding domain; Region: LytTR; cl04498 455488008290 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 455488008291 FAD binding domain; Region: FAD_binding_4; pfam01565 455488008292 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 455488008293 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 455488008294 L-lactate permease; Region: Lactate_perm; cl00701 455488008295 Cysteine-rich domain; Region: CCG; pfam02754 455488008296 Cysteine-rich domain; Region: CCG; pfam02754 455488008297 iron-sulfur cluster-binding protein; Region: TIGR00273 455488008298 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 455488008299 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 455488008300 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 455488008301 S-adenosylmethionine binding site [chemical binding]; other site 455488008302 TPR repeat; Region: TPR_11; pfam13414 455488008303 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488008304 binding surface 455488008305 TPR motif; other site 455488008306 Protein of unknown function, DUF399; Region: DUF399; cl01139 455488008307 PilZ domain; Region: PilZ; cl01260 455488008308 Predicted methyltransferase [General function prediction only]; Region: COG3897 455488008309 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 455488008310 ATP binding site [chemical binding]; other site 455488008311 Uncharacterized conserved protein [Function unknown]; Region: COG3268 455488008312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008313 NAD(P) binding site [chemical binding]; other site 455488008314 active site 455488008315 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 455488008316 UPF0126 domain; Region: UPF0126; pfam03458 455488008317 Predicted membrane protein [Function unknown]; Region: COG2860 455488008318 GtrA-like protein; Region: GtrA; cl00971 455488008319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 455488008320 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 455488008321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008322 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 455488008323 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 455488008324 homodimer interface [polypeptide binding]; other site 455488008325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488008326 catalytic residue [active] 455488008327 Response regulator receiver domain; Region: Response_reg; pfam00072 455488008328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008329 active site 455488008330 phosphorylation site [posttranslational modification] 455488008331 intermolecular recognition site; other site 455488008332 dimerization interface [polypeptide binding]; other site 455488008333 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 455488008334 non-specific DNA binding site [nucleotide binding]; other site 455488008335 salt bridge; other site 455488008336 sequence-specific DNA binding site [nucleotide binding]; other site 455488008337 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 455488008338 Domain of unknown function (DUF955); Region: DUF955; cl01076 455488008339 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 455488008340 malate synthase A; Region: malate_syn_A; TIGR01344 455488008341 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 455488008342 active site 455488008343 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 455488008344 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 455488008345 tetramer interface [polypeptide binding]; other site 455488008346 active site 455488008347 Mg2+/Mn2+ binding site [ion binding]; other site 455488008348 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488008349 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 455488008350 trehalose synthase; Region: treS_nterm; TIGR02456 455488008351 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 455488008352 active site 455488008353 catalytic site [active] 455488008354 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 455488008355 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 455488008356 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 455488008357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008358 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 455488008359 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 455488008360 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 455488008361 AMP-binding domain protein; Validated; Region: PRK08315 455488008362 AMP-binding enzyme; Region: AMP-binding; cl15778 455488008363 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488008364 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 455488008365 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 455488008366 NADP binding site [chemical binding]; other site 455488008367 dimer interface [polypeptide binding]; other site 455488008368 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 455488008369 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 455488008370 TPP-binding site [chemical binding]; other site 455488008371 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 455488008372 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 455488008373 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 455488008374 dimer interface [polypeptide binding]; other site 455488008375 PYR/PP interface [polypeptide binding]; other site 455488008376 TPP binding site [chemical binding]; other site 455488008377 substrate binding site [chemical binding]; other site 455488008378 pyruvate carboxylase; Reviewed; Region: PRK12999 455488008379 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488008380 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488008381 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 455488008382 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 455488008383 active site 455488008384 catalytic residues [active] 455488008385 metal binding site [ion binding]; metal-binding site 455488008386 homodimer binding site [polypeptide binding]; other site 455488008387 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 455488008388 carboxyltransferase (CT) interaction site; other site 455488008389 biotinylation site [posttranslational modification]; other site 455488008390 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488008391 octamerization interface [polypeptide binding]; other site 455488008392 diferric-oxygen binding site [ion binding]; other site 455488008393 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488008394 octamerization interface [polypeptide binding]; other site 455488008395 diferric-oxygen binding site [ion binding]; other site 455488008396 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 455488008397 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 455488008398 FAD binding domain; Region: FAD_binding_4; pfam01565 455488008399 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 455488008400 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 455488008401 Cysteine-rich domain; Region: CCG; pfam02754 455488008402 glutamate dehydrogenase; Provisional; Region: PRK09414 455488008403 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 455488008404 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 455488008405 NAD(P) binding site [chemical binding]; other site 455488008406 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 455488008407 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 455488008408 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488008409 active site 455488008410 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 455488008411 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 455488008412 NAD(P) binding site [chemical binding]; other site 455488008413 catalytic residues [active] 455488008414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008415 NAD(P) binding site [chemical binding]; other site 455488008416 active site 455488008417 photolyase PhrII; Region: phr2; TIGR00591 455488008418 DNA photolyase; Region: DNA_photolyase; pfam00875 455488008419 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 455488008420 Protein of unknown function (DUF523); Region: DUF523; cl00733 455488008421 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 455488008422 Predicted membrane protein [Function unknown]; Region: COG3671 455488008423 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 455488008424 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 455488008425 DNA-K related protein; Region: DUF3731; pfam12531 455488008426 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 455488008427 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 455488008428 Protein of unknown function DUF72; Region: DUF72; cl00777 455488008429 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 455488008430 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 455488008431 active site 455488008432 catalytic tetrad [active] 455488008433 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 455488008434 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 455488008435 active site 455488008436 catalytic residues [active] 455488008437 metal binding site [ion binding]; metal-binding site 455488008438 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 455488008439 active site 455488008440 catalytic tetrad [active] 455488008441 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 455488008442 intracellular protease, PfpI family; Region: PfpI; TIGR01382 455488008443 proposed catalytic triad [active] 455488008444 conserved cys residue [active] 455488008445 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 455488008446 S-adenosylmethionine binding site [chemical binding]; other site 455488008447 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 455488008448 helicase 45; Provisional; Region: PTZ00424 455488008449 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 455488008450 ATP binding site [chemical binding]; other site 455488008451 Mg++ binding site [ion binding]; other site 455488008452 motif III; other site 455488008453 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 455488008454 nucleotide binding region [chemical binding]; other site 455488008455 ATP-binding site [chemical binding]; other site 455488008456 DbpA RNA binding domain; Region: DbpA; pfam03880 455488008457 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488008458 GAF domain; Region: GAF_2; pfam13185 455488008459 GAF domain; Region: GAF; cl15785 455488008460 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 455488008461 Uncharacterized conserved protein [Function unknown]; Region: COG3760 455488008462 putative deacylase active site [active] 455488008463 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488008464 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 455488008465 metal-binding site 455488008466 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 455488008467 Ligand binding site; other site 455488008468 Putative Catalytic site; other site 455488008469 DXD motif; other site 455488008470 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 455488008471 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488008472 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 455488008473 metal-binding site 455488008474 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488008475 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 455488008476 active site 455488008477 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 455488008478 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 455488008479 putative ADP-binding pocket [chemical binding]; other site 455488008480 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 455488008481 ZU5 domain; Region: ZU5; cl02517 455488008482 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 455488008483 NHL repeat; Region: NHL; pfam01436 455488008484 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488008485 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008486 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008487 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008488 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488008489 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008490 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008491 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008492 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008493 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008494 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488008495 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008496 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008497 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008498 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008499 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008500 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488008501 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008502 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008503 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008504 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008505 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008506 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488008507 PPIC-type PPIASE domain; Region: Rotamase; cl08278 455488008508 PPIC-type PPIASE domain; Region: Rotamase; cl08278 455488008509 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 455488008510 Uncharacterized conserved protein [Function unknown]; Region: COG3391 455488008511 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 455488008512 chaperone protein DnaJ; Provisional; Region: PRK14290 455488008513 chaperone protein DnaJ; Provisional; Region: PRK14276 455488008514 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; cl15457 455488008515 Geobacter CxxxxCH...CXXCH motif (GSu_C4xC__C2xCH); Region: GSu_C4xC__C2xCH; cl15457 455488008516 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 455488008517 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 455488008518 active site 455488008519 dimer interface [polypeptide binding]; other site 455488008520 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 455488008521 dimer interface [polypeptide binding]; other site 455488008522 active site 455488008523 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 455488008524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008525 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 455488008526 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 455488008527 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 455488008528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488008529 homodimer interface [polypeptide binding]; other site 455488008530 catalytic residue [active] 455488008531 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 455488008532 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 455488008533 Ligand Binding Site [chemical binding]; other site 455488008534 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 455488008535 tetrathionate reductase subunit B; Provisional; Region: PRK14993 455488008536 4Fe-4S binding domain; Region: Fer4; cl02805 455488008537 4Fe-4S binding domain; Region: Fer4; cl02805 455488008538 Polysulphide reductase, NrfD; Region: NrfD; cl01295 455488008539 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 455488008540 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 455488008541 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 455488008542 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 455488008543 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 455488008544 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 455488008545 Walker A motif; other site 455488008546 ATP binding site [chemical binding]; other site 455488008547 Walker B motif; other site 455488008548 arginine finger; other site 455488008549 Rubrerythrin [Energy production and conversion]; Region: COG1592 455488008550 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 455488008551 binuclear metal center [ion binding]; other site 455488008552 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 455488008553 iron binding site [ion binding]; other site 455488008554 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 455488008555 dimerization interface [polypeptide binding]; other site 455488008556 putative DNA binding site [nucleotide binding]; other site 455488008557 putative Zn2+ binding site [ion binding]; other site 455488008558 Helix-turn-helix domains; Region: HTH; cl00088 455488008559 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 455488008560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008561 NAD(P) binding site [chemical binding]; other site 455488008562 active site 455488008563 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 455488008564 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 455488008565 active site 455488008566 catalytic tetrad [active] 455488008567 Deoxyhypusine synthase; Region: DS; cl00826 455488008568 Peptidase family M1; Region: Peptidase_M1; pfam01433 455488008569 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 455488008570 Zn binding site [ion binding]; other site 455488008571 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 455488008572 Helix-turn-helix domains; Region: HTH; cl00088 455488008573 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488008574 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 455488008575 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 455488008576 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 455488008577 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 455488008578 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 455488008579 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 455488008580 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 455488008581 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 455488008582 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 455488008583 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 455488008584 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 455488008585 XdhC Rossmann domain; Region: XdhC_C; pfam13478 455488008586 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 455488008587 active site 455488008588 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 455488008589 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 455488008590 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 455488008591 active site 455488008592 Zn binding site [ion binding]; other site 455488008593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 455488008594 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008595 dimer interface [polypeptide binding]; other site 455488008596 phosphorylation site [posttranslational modification] 455488008597 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008598 ATP binding site [chemical binding]; other site 455488008599 Mg2+ binding site [ion binding]; other site 455488008600 G-X-G motif; other site 455488008601 Outer membrane efflux protein; Region: OEP; pfam02321 455488008602 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488008603 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488008604 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 455488008605 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 455488008606 Walker A/P-loop; other site 455488008607 ATP binding site [chemical binding]; other site 455488008608 Q-loop/lid; other site 455488008609 ABC transporter signature motif; other site 455488008610 Walker B; other site 455488008611 D-loop; other site 455488008612 H-loop/switch region; other site 455488008613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488008614 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 455488008615 Walker A/P-loop; other site 455488008616 ATP binding site [chemical binding]; other site 455488008617 Q-loop/lid; other site 455488008618 ABC transporter signature motif; other site 455488008619 Walker B; other site 455488008620 D-loop; other site 455488008621 H-loop/switch region; other site 455488008622 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 455488008623 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488008624 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 455488008625 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488008626 Acetokinase family; Region: Acetate_kinase; cl01029 455488008627 propionate/acetate kinase; Provisional; Region: PRK12379 455488008628 putative phosphoketolase; Provisional; Region: PRK05261 455488008629 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 455488008630 TPP-binding site; other site 455488008631 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 455488008632 XFP C-terminal domain; Region: XFP_C; pfam09363 455488008633 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 455488008634 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 455488008635 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 455488008636 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 455488008637 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 455488008638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488008639 Walker A/P-loop; other site 455488008640 ATP binding site [chemical binding]; other site 455488008641 Q-loop/lid; other site 455488008642 ABC transporter signature motif; other site 455488008643 Walker B; other site 455488008644 D-loop; other site 455488008645 H-loop/switch region; other site 455488008646 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 455488008647 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 455488008648 dimer interface [polypeptide binding]; other site 455488008649 conserved gate region; other site 455488008650 putative PBP binding loops; other site 455488008651 ABC-ATPase subunit interface; other site 455488008652 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 455488008653 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 455488008654 dimer interface [polypeptide binding]; other site 455488008655 conserved gate region; other site 455488008656 putative PBP binding loops; other site 455488008657 ABC-ATPase subunit interface; other site 455488008658 RNA polymerase factor sigma-70; Validated; Region: PRK08241 455488008659 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488008660 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488008661 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 455488008662 YCII-related domain; Region: YCII; cl00999 455488008663 YCII-related domain; Region: YCII; cl00999 455488008664 DoxX; Region: DoxX; cl00976 455488008665 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 455488008666 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 455488008667 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488008668 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 455488008669 DNA binding residues [nucleotide binding] 455488008670 Helix-turn-helix domains; Region: HTH; cl00088 455488008671 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 455488008672 dimerization interface [polypeptide binding]; other site 455488008673 short chain dehydrogenase; Provisional; Region: PRK07041 455488008674 classical (c) SDRs; Region: SDR_c; cd05233 455488008675 NAD(P) binding site [chemical binding]; other site 455488008676 active site 455488008677 GTPase RsgA; Reviewed; Region: PRK01889 455488008678 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 455488008679 RNA binding site [nucleotide binding]; other site 455488008680 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 455488008681 GTPase/Zn-binding domain interface [polypeptide binding]; other site 455488008682 GTP/Mg2+ binding site [chemical binding]; other site 455488008683 G4 box; other site 455488008684 G5 box; other site 455488008685 G1 box; other site 455488008686 Switch I region; other site 455488008687 G2 box; other site 455488008688 G3 box; other site 455488008689 Switch II region; other site 455488008690 PilZ domain; Region: PilZ; cl01260 455488008691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008692 active site 455488008693 phosphorylation site [posttranslational modification] 455488008694 intermolecular recognition site; other site 455488008695 dimerization interface [polypeptide binding]; other site 455488008696 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 455488008697 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 455488008698 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 455488008699 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 455488008700 active site 455488008701 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 455488008702 Helix-turn-helix domains; Region: HTH; cl00088 455488008703 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 455488008704 classical (c) SDRs; Region: SDR_c; cd05233 455488008705 NAD(P) binding site [chemical binding]; other site 455488008706 active site 455488008707 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 455488008708 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 455488008709 homodimer interface [polypeptide binding]; other site 455488008710 substrate-cofactor binding pocket; other site 455488008711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488008712 catalytic residue [active] 455488008713 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 455488008714 Cation efflux family; Region: Cation_efflux; cl00316 455488008715 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 455488008716 active site 455488008717 CHRD domain; Region: CHRD; cl06473 455488008718 CHRD domain; Region: CHRD; cl06473 455488008719 CHRD domain; Region: CHRD; cl06473 455488008720 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 455488008721 iron-sulfur cluster [ion binding]; other site 455488008722 [2Fe-2S] cluster binding site [ion binding]; other site 455488008723 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 455488008724 iron-sulfur cluster [ion binding]; other site 455488008725 [2Fe-2S] cluster binding site [ion binding]; other site 455488008726 YceI-like domain; Region: YceI; cl01001 455488008727 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488008728 Helix-turn-helix domains; Region: HTH; cl00088 455488008729 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 455488008730 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 455488008731 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008732 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 455488008733 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 455488008734 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 455488008735 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 455488008736 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 455488008737 Transposase domain (DUF772); Region: DUF772; cl15789 455488008738 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488008739 Transposase domain (DUF772); Region: DUF772; cl15789 455488008740 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 455488008741 Ubiquitin-like proteins; Region: UBQ; cl00155 455488008742 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 455488008743 Protein of unknown function DUF82; Region: DUF82; pfam01927 455488008744 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488008745 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488008746 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 455488008747 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 455488008748 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 455488008749 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 455488008750 putative NAD(P) binding site [chemical binding]; other site 455488008751 putative substrate binding site [chemical binding]; other site 455488008752 catalytic Zn binding site [ion binding]; other site 455488008753 structural Zn binding site [ion binding]; other site 455488008754 dimer interface [polypeptide binding]; other site 455488008755 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 455488008756 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488008757 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 455488008758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488008759 Walker A/P-loop; other site 455488008760 ATP binding site [chemical binding]; other site 455488008761 Q-loop/lid; other site 455488008762 ABC transporter signature motif; other site 455488008763 Walker B; other site 455488008764 D-loop; other site 455488008765 H-loop/switch region; other site 455488008766 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 455488008767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 455488008768 Helix-turn-helix domains; Region: HTH; cl00088 455488008769 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 455488008770 putative effector binding pocket; other site 455488008771 putative dimerization interface [polypeptide binding]; other site 455488008772 Cupin domain; Region: Cupin_2; cl09118 455488008773 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 455488008774 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 455488008775 metal binding site [ion binding]; metal-binding site 455488008776 putative dimer interface [polypeptide binding]; other site 455488008777 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 protein; Region: CSP_CDS; cd04458 455488008778 DNA-binding site [nucleotide binding]; DNA binding site 455488008779 RNA-binding motif; other site 455488008780 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 455488008781 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488008782 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488008783 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488008784 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 455488008785 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 455488008786 dinuclear metal binding motif [ion binding]; other site 455488008787 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 455488008788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488008789 Walker A/P-loop; other site 455488008790 ATP binding site [chemical binding]; other site 455488008791 Q-loop/lid; other site 455488008792 ABC transporter signature motif; other site 455488008793 Walker B; other site 455488008794 D-loop; other site 455488008795 H-loop/switch region; other site 455488008796 NMT1-like family; Region: NMT1_2; cl15260 455488008797 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 455488008798 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 455488008799 dimer interface [polypeptide binding]; other site 455488008800 conserved gate region; other site 455488008801 ABC-ATPase subunit interface; other site 455488008802 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 455488008803 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 455488008804 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 455488008805 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 455488008806 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 455488008807 motif II; other site 455488008808 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 455488008809 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008810 dimer interface [polypeptide binding]; other site 455488008811 phosphorylation site [posttranslational modification] 455488008812 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008813 ATP binding site [chemical binding]; other site 455488008814 Mg2+ binding site [ion binding]; other site 455488008815 G-X-G motif; other site 455488008816 CheB methylesterase; Region: CheB_methylest; pfam01339 455488008817 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 455488008818 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 455488008819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008820 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 455488008821 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488008822 dimer interface [polypeptide binding]; other site 455488008823 phosphorylation site [posttranslational modification] 455488008824 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488008825 ATP binding site [chemical binding]; other site 455488008826 Mg2+ binding site [ion binding]; other site 455488008827 G-X-G motif; other site 455488008828 Response regulator receiver domain; Region: Response_reg; pfam00072 455488008829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488008830 active site 455488008831 phosphorylation site [posttranslational modification] 455488008832 intermolecular recognition site; other site 455488008833 dimerization interface [polypeptide binding]; other site 455488008834 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 455488008835 Putative glucoamylase; Region: Glycoamylase; pfam10091 455488008836 Putative carbohydrate binding domain; Region: CBM_X; cl05621 455488008837 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 455488008838 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 455488008839 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 455488008840 Putative carbohydrate binding domain; Region: CBM_X; cl05621 455488008841 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 455488008842 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 455488008843 Fatty acid desaturase; Region: FA_desaturase; pfam00487 455488008844 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 455488008845 putative di-iron ligands [ion binding]; other site 455488008846 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 455488008847 Protein of unknown function (DUF421); Region: DUF421; cl00990 455488008848 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 455488008849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008850 NAD(P) binding site [chemical binding]; other site 455488008851 short chain dehydrogenase; Provisional; Region: PRK06523 455488008852 active site 455488008853 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 455488008854 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; cl00436 455488008855 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 455488008856 Prostaglandin dehydrogenases; Region: PGDH; cd05288 455488008857 NAD(P) binding site [chemical binding]; other site 455488008858 substrate binding site [chemical binding]; other site 455488008859 dimer interface [polypeptide binding]; other site 455488008860 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 455488008861 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 455488008862 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 455488008863 FOG: CBS domain [General function prediction only]; Region: COG0517 455488008864 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 455488008865 FOG: CBS domain [General function prediction only]; Region: COG0517 455488008866 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 455488008867 FOG: CBS domain [General function prediction only]; Region: COG0517 455488008868 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 455488008869 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 455488008870 dimer interface [polypeptide binding]; other site 455488008871 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 455488008872 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 455488008873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008874 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 455488008875 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 455488008876 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 455488008877 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 455488008878 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488008879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008880 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 455488008881 NAD(P) binding site [chemical binding]; other site 455488008882 active site 455488008883 Cyclophilin-like; Region: Cyclophil_like; cl00950 455488008884 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488008885 binding surface 455488008886 TPR motif; other site 455488008887 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 455488008888 DoxX; Region: DoxX; cl00976 455488008889 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 455488008890 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488008891 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 455488008892 proline aminopeptidase P II; Provisional; Region: PRK10879 455488008893 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 455488008894 active site 455488008895 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 455488008896 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488008897 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 455488008898 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 455488008899 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 455488008900 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488008901 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 455488008902 FeoA domain; Region: FeoA; cl00838 455488008903 FeoA domain; Region: FeoA; cl00838 455488008904 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 455488008905 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 455488008906 G1 box; other site 455488008907 GTP/Mg2+ binding site [chemical binding]; other site 455488008908 Switch I region; other site 455488008909 G2 box; other site 455488008910 G3 box; other site 455488008911 Switch II region; other site 455488008912 G4 box; other site 455488008913 G5 box; other site 455488008914 Nucleoside recognition; Region: Gate; cl00486 455488008915 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 455488008916 Nucleoside recognition; Region: Gate; cl00486 455488008917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008918 NAD(P) binding site [chemical binding]; other site 455488008919 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 455488008920 Transposase domain (DUF772); Region: DUF772; cl15789 455488008921 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488008922 Transposase domain (DUF772); Region: DUF772; cl15789 455488008923 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 455488008924 non-specific DNA binding site [nucleotide binding]; other site 455488008925 salt bridge; other site 455488008926 sequence-specific DNA binding site [nucleotide binding]; other site 455488008927 Domain of unknown function (DUF955); Region: DUF955; cl01076 455488008928 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 455488008929 active site 455488008930 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 455488008931 hypothetical protein; Region: PHA00661 455488008932 hypothetical protein; Region: PHA00661 455488008933 putative protease; Region: PHA00666 455488008934 Family of unknown function (DUF500); Region: DUF500; cl01109 455488008935 ferredoxin-NADP+ reductase; Region: PLN02852 455488008936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488008937 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 455488008938 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 455488008939 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488008940 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488008941 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488008942 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 455488008943 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 455488008944 dimer interface [polypeptide binding]; other site 455488008945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488008946 catalytic residue [active] 455488008947 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 455488008948 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 455488008949 Sel1 repeat; Region: Sel1; cl02723 455488008950 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 455488008951 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 455488008952 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488008953 LemA family; Region: LemA; cl00742 455488008954 Peptidase family M48; Region: Peptidase_M48; cl12018 455488008955 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 455488008956 signal recognition particle protein; Provisional; Region: PRK10867 455488008957 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 455488008958 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 455488008959 P loop; other site 455488008960 GTP binding site [chemical binding]; other site 455488008961 Signal peptide binding domain; Region: SRP_SPB; pfam02978 455488008962 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 455488008963 putative ligand binding pocket/active site [active] 455488008964 putative metal binding site [ion binding]; other site 455488008965 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 455488008966 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 455488008967 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488008968 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488008969 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488008970 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488008971 TPR motif; other site 455488008972 binding surface 455488008973 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488008974 binding surface 455488008975 TPR motif; other site 455488008976 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488008977 binding surface 455488008978 TPR motif; other site 455488008979 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 455488008980 TMP-binding site; other site 455488008981 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 455488008982 putative active site; other site 455488008983 putative metal binding residues [ion binding]; other site 455488008984 signature motif; other site 455488008985 putative triphosphate binding site [ion binding]; other site 455488008986 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488008987 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488008988 active site 455488008989 metal binding site [ion binding]; metal-binding site 455488008990 CotH protein; Region: CotH; pfam08757 455488008991 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 455488008992 phosphopeptide binding site; other site 455488008993 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488008994 binding surface 455488008995 TPR motif; other site 455488008996 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488008997 TPR motif; other site 455488008998 binding surface 455488008999 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009000 binding surface 455488009001 TPR motif; other site 455488009002 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 455488009003 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 455488009004 PilZ domain; Region: PilZ; cl01260 455488009005 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488009006 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 455488009007 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488009008 active site 455488009009 substrate binding site [chemical binding]; other site 455488009010 ATP binding site [chemical binding]; other site 455488009011 TPR repeat; Region: TPR_11; pfam13414 455488009012 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009013 binding surface 455488009014 TPR motif; other site 455488009015 TPR repeat; Region: TPR_11; pfam13414 455488009016 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009017 binding surface 455488009018 TPR motif; other site 455488009019 TPR repeat; Region: TPR_11; pfam13414 455488009020 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009021 binding surface 455488009022 TPR motif; other site 455488009023 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 455488009024 phosphopeptide binding site; other site 455488009025 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 455488009026 phosphopeptide binding site; other site 455488009027 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 455488009028 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 455488009029 Walker A motif; other site 455488009030 ATP binding site [chemical binding]; other site 455488009031 Walker B motif; other site 455488009032 arginine finger; other site 455488009033 Helix-turn-helix domains; Region: HTH; cl00088 455488009034 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488009035 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 455488009036 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455488009037 ligand binding site [chemical binding]; other site 455488009038 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488009039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488009040 active site 455488009041 phosphorylation site [posttranslational modification] 455488009042 intermolecular recognition site; other site 455488009043 dimerization interface [polypeptide binding]; other site 455488009044 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 455488009045 Walker A motif; other site 455488009046 ATP binding site [chemical binding]; other site 455488009047 Walker B motif; other site 455488009048 arginine finger; other site 455488009049 Helix-turn-helix domains; Region: HTH; cl00088 455488009050 Transglycosylase; Region: Transgly; cl07896 455488009051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488009052 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488009053 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 455488009054 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 455488009055 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488009056 dimer interface [polypeptide binding]; other site 455488009057 phosphorylation site [posttranslational modification] 455488009058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488009059 ATP binding site [chemical binding]; other site 455488009060 Mg2+ binding site [ion binding]; other site 455488009061 G-X-G motif; other site 455488009062 Peptidase S46; Region: Peptidase_S46; pfam10459 455488009063 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 455488009064 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 455488009065 Quinolinate synthetase A protein; Region: NadA; cl00420 455488009066 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; cl00083 455488009067 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 455488009068 Found in ATP-dependent protease La (LON); Region: LON; smart00464 455488009069 Found in ATP-dependent protease La (LON); Region: LON; smart00464 455488009070 Mediator complex protein; Region: Med11; pfam10280 455488009071 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 455488009072 Walker A motif; other site 455488009073 ATP binding site [chemical binding]; other site 455488009074 Walker B motif; other site 455488009075 arginine finger; other site 455488009076 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 455488009077 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 455488009078 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 455488009079 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488009080 catalytic residue [active] 455488009081 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 455488009082 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 455488009083 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 455488009084 Walker A motif; other site 455488009085 ATP binding site [chemical binding]; other site 455488009086 Walker B motif; other site 455488009087 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 455488009088 Clp protease; Region: CLP_protease; pfam00574 455488009089 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 455488009090 oligomer interface [polypeptide binding]; other site 455488009091 active site residues [active] 455488009092 trigger factor; Region: tig; TIGR00115 455488009093 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 455488009094 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 455488009095 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 455488009096 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 455488009097 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 455488009098 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 455488009099 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 455488009100 Ligand binding site; other site 455488009101 Putative Catalytic site; other site 455488009102 DXD motif; other site 455488009103 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 455488009104 active site 455488009105 dimerization interface [polypeptide binding]; other site 455488009106 ribonuclease PH; Reviewed; Region: rph; PRK00173 455488009107 Ribonuclease PH; Region: RNase_PH_bact; cd11362 455488009108 hexamer interface [polypeptide binding]; other site 455488009109 active site 455488009110 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 455488009111 active site 455488009112 metal binding site [ion binding]; metal-binding site 455488009113 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 455488009114 dimerization interface [polypeptide binding]; other site 455488009115 putative ATP binding site [chemical binding]; other site 455488009116 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009117 binding surface 455488009118 TPR motif; other site 455488009119 TPR repeat; Region: TPR_11; pfam13414 455488009120 Tetratricopeptide repeat; Region: TPR_12; pfam13424 455488009121 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009122 binding surface 455488009123 TPR motif; other site 455488009124 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 455488009125 RecX family; Region: RecX; cl00936 455488009126 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 455488009127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488009128 ATP binding site [chemical binding]; other site 455488009129 Walker B motif; other site 455488009130 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 455488009131 PLD-like domain; Region: PLDc_2; pfam13091 455488009132 putative active site [active] 455488009133 catalytic site [active] 455488009134 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 455488009135 PLD-like domain; Region: PLDc_2; pfam13091 455488009136 putative active site [active] 455488009137 catalytic site [active] 455488009138 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 455488009139 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 455488009140 23S rRNA interface [nucleotide binding]; other site 455488009141 L3 interface [polypeptide binding]; other site 455488009142 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 455488009143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488009144 Family description; Region: UvrD_C_2; cl15862 455488009145 DoxX; Region: DoxX; cl00976 455488009146 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 455488009147 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 455488009148 CGNR zinc finger; Region: zf-CGNR; pfam11706 455488009149 Cupin domain; Region: Cupin_2; cl09118 455488009150 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 455488009151 Major Facilitator Superfamily; Region: MFS_1; pfam07690 455488009152 putative substrate translocation pore; other site 455488009153 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 455488009154 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 455488009155 active site 455488009156 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 455488009157 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 455488009158 putative C-terminal domain interface [polypeptide binding]; other site 455488009159 putative GSH binding site (G-site) [chemical binding]; other site 455488009160 putative dimer interface [polypeptide binding]; other site 455488009161 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 455488009162 N-terminal domain interface [polypeptide binding]; other site 455488009163 dimer interface [polypeptide binding]; other site 455488009164 substrate binding pocket (H-site) [chemical binding]; other site 455488009165 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488009166 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488009167 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488009168 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 455488009169 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455488009170 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455488009171 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 455488009172 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 455488009173 dimerization interface [polypeptide binding]; other site 455488009174 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488009175 dimer interface [polypeptide binding]; other site 455488009176 phosphorylation site [posttranslational modification] 455488009177 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488009178 ATP binding site [chemical binding]; other site 455488009179 Mg2+ binding site [ion binding]; other site 455488009180 G-X-G motif; other site 455488009181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488009182 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 455488009183 Walker A/P-loop; other site 455488009184 ATP binding site [chemical binding]; other site 455488009185 Q-loop/lid; other site 455488009186 ABC transporter signature motif; other site 455488009187 Walker B; other site 455488009188 D-loop; other site 455488009189 H-loop/switch region; other site 455488009190 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488009191 Walker A/P-loop; other site 455488009192 ATP binding site [chemical binding]; other site 455488009193 Q-loop/lid; other site 455488009194 ABC transporter signature motif; other site 455488009195 Walker B; other site 455488009196 D-loop; other site 455488009197 H-loop/switch region; other site 455488009198 Peptidase family M23; Region: Peptidase_M23; pfam01551 455488009199 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 455488009200 active site 455488009201 dimerization interface [polypeptide binding]; other site 455488009202 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 455488009203 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 455488009204 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 455488009205 catalytic residues [active] 455488009206 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 455488009207 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 455488009208 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 455488009209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455488009210 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455488009211 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488009212 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 455488009213 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 455488009214 dimer interface [polypeptide binding]; other site 455488009215 catalytic triad [active] 455488009216 acetyl-CoA synthetase; Provisional; Region: PRK00174 455488009217 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 455488009218 AMP-binding enzyme; Region: AMP-binding; cl15778 455488009219 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488009220 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 455488009221 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 455488009222 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 455488009223 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 455488009224 glutathione S-transferase; Provisional; Region: PRK15113 455488009225 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488009226 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 455488009227 N-terminal domain interface [polypeptide binding]; other site 455488009228 putative dimer interface [polypeptide binding]; other site 455488009229 putative substrate binding pocket (H-site) [chemical binding]; other site 455488009230 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488009231 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488009232 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488009233 dimer interface [polypeptide binding]; other site 455488009234 putative CheW interface [polypeptide binding]; other site 455488009235 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 455488009236 Protein of unknown function, DUF481; Region: DUF481; cl01213 455488009237 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 455488009238 ATP binding site [chemical binding]; other site 455488009239 putative Mg++ binding site [ion binding]; other site 455488009240 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 455488009241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488009242 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 455488009243 PQ loop repeat; Region: PQ-loop; cl12056 455488009244 Protein of unknown function, DUF488; Region: DUF488; cl01246 455488009245 RF-1 domain; Region: RF-1; cl02875 455488009246 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488009247 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488009248 Walker A/P-loop; other site 455488009249 ATP binding site [chemical binding]; other site 455488009250 Q-loop/lid; other site 455488009251 ABC transporter signature motif; other site 455488009252 Walker B; other site 455488009253 D-loop; other site 455488009254 H-loop/switch region; other site 455488009255 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488009256 FtsX-like permease family; Region: FtsX; cl15850 455488009257 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488009258 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 455488009259 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 455488009260 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 455488009261 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488009262 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488009263 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009264 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009265 binding surface 455488009266 TPR motif; other site 455488009267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009268 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488009269 Protein of unknown function, DUF482; Region: DUF482; pfam04339 455488009270 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 455488009271 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 455488009272 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 455488009273 maleylacetoacetate isomerase; Region: maiA; TIGR01262 455488009274 C-terminal domain interface [polypeptide binding]; other site 455488009275 GSH binding site (G-site) [chemical binding]; other site 455488009276 putative dimer interface [polypeptide binding]; other site 455488009277 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 455488009278 dimer interface [polypeptide binding]; other site 455488009279 N-terminal domain interface [polypeptide binding]; other site 455488009280 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 455488009281 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 455488009282 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 455488009283 dimer interface [polypeptide binding]; other site 455488009284 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 455488009285 active site 455488009286 Fe binding site [ion binding]; other site 455488009287 Cupin domain; Region: Cupin_2; cl09118 455488009288 alanine racemase; Reviewed; Region: alr; PRK00053 455488009289 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 455488009290 active site 455488009291 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 455488009292 dimer interface [polypeptide binding]; other site 455488009293 substrate binding site [chemical binding]; other site 455488009294 catalytic residues [active] 455488009295 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 455488009296 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 455488009297 homodimer interface [polypeptide binding]; other site 455488009298 substrate-cofactor binding pocket; other site 455488009299 catalytic residue [active] 455488009300 Helix-turn-helix domains; Region: HTH; cl00088 455488009301 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 455488009302 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 455488009303 motif 1; other site 455488009304 dimer interface [polypeptide binding]; other site 455488009305 active site 455488009306 motif 2; other site 455488009307 Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]; Region: PheT; COG0072 455488009308 motif 3; other site 455488009309 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 455488009310 Amidase; Region: Amidase; cl11426 455488009311 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 455488009312 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 455488009313 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 455488009314 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 455488009315 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 455488009316 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 455488009317 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 455488009318 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 455488009319 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 455488009320 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 455488009321 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 455488009322 generic binding surface II; other site 455488009323 generic binding surface I; other site 455488009324 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 455488009325 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 455488009326 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 455488009327 DNA binding residues [nucleotide binding] 455488009328 dimerization interface [polypeptide binding]; other site 455488009329 threonine dehydratase; Provisional; Region: PRK08198 455488009330 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 455488009331 tetramer interface [polypeptide binding]; other site 455488009332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488009333 catalytic residue [active] 455488009334 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 455488009335 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488009336 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488009337 active site 455488009338 ATP binding site [chemical binding]; other site 455488009339 substrate binding site [chemical binding]; other site 455488009340 activation loop (A-loop); other site 455488009341 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 455488009342 structural tetrad; other site 455488009343 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 455488009344 structural tetrad; other site 455488009345 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 455488009346 structural tetrad; other site 455488009347 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 455488009348 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 455488009349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488009350 catalytic residue [active] 455488009351 biotin synthase; Region: bioB; TIGR00433 455488009352 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 455488009353 FeS/SAM binding site; other site 455488009354 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 455488009355 Plant protein of unknown function (DUF946); Region: DUF946; pfam06101 455488009356 DNA repair protein RadA; Provisional; Region: PRK11823 455488009357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488009358 Walker A motif; other site 455488009359 ATP binding site [chemical binding]; other site 455488009360 Walker B motif; other site 455488009361 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 455488009362 glycerol kinase; Provisional; Region: glpK; PRK00047 455488009363 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 455488009364 N- and C-terminal domain interface [polypeptide binding]; other site 455488009365 active site 455488009366 MgATP binding site [chemical binding]; other site 455488009367 catalytic site [active] 455488009368 metal binding site [ion binding]; metal-binding site 455488009369 glycerol binding site [chemical binding]; other site 455488009370 homotetramer interface [polypeptide binding]; other site 455488009371 homodimer interface [polypeptide binding]; other site 455488009372 FBP binding site [chemical binding]; other site 455488009373 protein IIAGlc interface [polypeptide binding]; other site 455488009374 Esterase/lipase [General function prediction only]; Region: COG1647 455488009375 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 455488009376 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 455488009377 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 455488009378 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; cl00284 455488009379 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; cl00284 455488009380 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 455488009381 Uncharacterized conserved protein [Function unknown]; Region: COG3391 455488009382 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 455488009383 intersubunit interface [polypeptide binding]; other site 455488009384 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 455488009385 dimer interface [polypeptide binding]; other site 455488009386 putative PBP binding regions; other site 455488009387 ABC-ATPase subunit interface; other site 455488009388 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 455488009389 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 455488009390 Walker A/P-loop; other site 455488009391 ATP binding site [chemical binding]; other site 455488009392 Q-loop/lid; other site 455488009393 ABC transporter signature motif; other site 455488009394 Walker B; other site 455488009395 D-loop; other site 455488009396 H-loop/switch region; other site 455488009397 Domain of unknown function (DUF222); Region: DUF222; pfam02720 455488009398 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 455488009399 active site 455488009400 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 455488009401 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 455488009402 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 455488009403 active site 455488009404 tetramer interface; other site 455488009405 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488009406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488009407 active site 455488009408 phosphorylation site [posttranslational modification] 455488009409 intermolecular recognition site; other site 455488009410 dimerization interface [polypeptide binding]; other site 455488009411 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 455488009412 Walker A motif; other site 455488009413 ATP binding site [chemical binding]; other site 455488009414 Walker B motif; other site 455488009415 arginine finger; other site 455488009416 Helix-turn-helix domains; Region: HTH; cl00088 455488009417 Response regulator receiver domain; Region: Response_reg; pfam00072 455488009418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488009419 active site 455488009420 phosphorylation site [posttranslational modification] 455488009421 intermolecular recognition site; other site 455488009422 dimerization interface [polypeptide binding]; other site 455488009423 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488009424 dimer interface [polypeptide binding]; other site 455488009425 phosphorylation site [posttranslational modification] 455488009426 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488009427 ATP binding site [chemical binding]; other site 455488009428 G-X-G motif; other site 455488009429 Response regulator receiver domain; Region: Response_reg; pfam00072 455488009430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488009431 active site 455488009432 phosphorylation site [posttranslational modification] 455488009433 intermolecular recognition site; other site 455488009434 dimerization interface [polypeptide binding]; other site 455488009435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488009436 metal binding site [ion binding]; metal-binding site 455488009437 active site 455488009438 I-site; other site 455488009439 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 455488009440 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 455488009441 pteridine reductase; Provisional; Region: PRK09135 455488009442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009443 NAD(P) binding site [chemical binding]; other site 455488009444 active site 455488009445 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 455488009446 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488009447 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 455488009448 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 455488009449 NAD binding site [chemical binding]; other site 455488009450 homotetramer interface [polypeptide binding]; other site 455488009451 homodimer interface [polypeptide binding]; other site 455488009452 substrate binding site [chemical binding]; other site 455488009453 active site 455488009454 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009455 TPR motif; other site 455488009456 Tetratricopeptide repeat; Region: TPR_12; pfam13424 455488009457 binding surface 455488009458 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 455488009459 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 455488009460 GTP binding site; other site 455488009461 CrcB-like protein; Region: CRCB; cl09114 455488009462 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 455488009463 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 455488009464 S-adenosylmethionine binding site [chemical binding]; other site 455488009465 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 455488009466 Pirin-related protein [General function prediction only]; Region: COG1741 455488009467 Cupin domain; Region: Cupin_2; cl09118 455488009468 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 455488009469 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 455488009470 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 455488009471 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 455488009472 Transposase domain (DUF772); Region: DUF772; cl15789 455488009473 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488009474 Transposase domain (DUF772); Region: DUF772; cl15789 455488009475 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 455488009476 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 455488009477 MPN+ (JAMM) motif; other site 455488009478 Zinc-binding site [ion binding]; other site 455488009479 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 455488009480 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 455488009481 ATP binding site [chemical binding]; other site 455488009482 substrate interface [chemical binding]; other site 455488009483 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 455488009484 active site residue [active] 455488009485 Ubiquitin-like proteins; Region: UBQ; cl00155 455488009486 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 455488009487 putative homotetramer interface [polypeptide binding]; other site 455488009488 putative homodimer interface [polypeptide binding]; other site 455488009489 putative allosteric switch controlling residues; other site 455488009490 putative metal binding site [ion binding]; other site 455488009491 putative homodimer-homodimer interface [polypeptide binding]; other site 455488009492 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 455488009493 putative homotetramer interface [polypeptide binding]; other site 455488009494 putative homodimer interface [polypeptide binding]; other site 455488009495 putative allosteric switch controlling residues; other site 455488009496 putative metal binding site [ion binding]; other site 455488009497 putative homodimer-homodimer interface [polypeptide binding]; other site 455488009498 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 455488009499 metal-binding site [ion binding] 455488009500 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 455488009501 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 455488009502 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488009503 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 455488009504 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 455488009505 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 455488009506 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488009507 YCII-related domain; Region: YCII; cl00999 455488009508 Phosphoesterase family; Region: Phosphoesterase; cl15450 455488009509 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488009510 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 455488009511 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 455488009512 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 455488009513 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 455488009514 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 455488009515 active site 455488009516 catalytic tetrad [active] 455488009517 Helix-turn-helix domains; Region: HTH; cl00088 455488009518 LysR family transcriptional regulator; Provisional; Region: PRK14997 455488009519 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 455488009520 dimerization interface [polypeptide binding]; other site 455488009521 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 455488009522 catalytic residues [active] 455488009523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 455488009524 putative lipid kinase; Reviewed; Region: PRK13057 455488009525 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 455488009526 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; cl00436 455488009527 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488009528 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 455488009529 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488009530 dimer interface [polypeptide binding]; other site 455488009531 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 455488009532 putative CheW interface [polypeptide binding]; other site 455488009533 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 455488009534 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488009535 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488009536 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 455488009537 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 455488009538 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488009539 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 455488009540 IMP binding site; other site 455488009541 dimer interface [polypeptide binding]; other site 455488009542 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 455488009543 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 455488009544 active site residue [active] 455488009545 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 455488009546 active site residue [active] 455488009547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488009548 Response regulator receiver domain; Region: Response_reg; pfam00072 455488009549 active site 455488009550 phosphorylation site [posttranslational modification] 455488009551 intermolecular recognition site; other site 455488009552 dimerization interface [polypeptide binding]; other site 455488009553 HEAT repeats; Region: HEAT_2; pfam13646 455488009554 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 455488009555 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 455488009556 DXD motif; other site 455488009557 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 455488009558 HflK protein; Region: hflK; TIGR01933 455488009559 HflC protein; Region: hflC; TIGR01932 455488009560 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 455488009561 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 455488009562 hypothetical protein; Validated; Region: PRK07121 455488009563 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 455488009564 Peptidase family M48; Region: Peptidase_M48; cl12018 455488009565 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488009566 transposase/IS protein; Provisional; Region: PRK09183 455488009567 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 455488009568 Walker A motif; other site 455488009569 ATP binding site [chemical binding]; other site 455488009570 Walker B motif; other site 455488009571 arginine finger; other site 455488009572 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 455488009573 Integrase core domain; Region: rve; cl01316 455488009574 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 455488009575 NTP binding site [chemical binding]; other site 455488009576 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488009577 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 455488009578 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 455488009579 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 455488009580 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 455488009581 DNA binding site [nucleotide binding] 455488009582 Int/Topo IB signature motif; other site 455488009583 active site 455488009584 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 455488009585 putative active site [active] 455488009586 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 455488009587 TPR repeat; Region: TPR_11; pfam13414 455488009588 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009589 binding surface 455488009590 TPR motif; other site 455488009591 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 455488009592 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 455488009593 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455488009594 catalytic residue [active] 455488009595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009596 L-aspartate oxidase; Provisional; Region: PRK09077 455488009597 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 455488009598 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488009599 active site 455488009600 ParB-like nuclease domain; Region: ParBc; cl02129 455488009601 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 455488009602 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 455488009603 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 455488009604 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488009605 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 455488009606 DNA binding residues [nucleotide binding] 455488009607 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 455488009608 Predicted amidohydrolase [General function prediction only]; Region: COG0388 455488009609 putative active site [active] 455488009610 catalytic triad [active] 455488009611 dimer interface [polypeptide binding]; other site 455488009612 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 455488009613 Interdomain contacts; other site 455488009614 Cytokine receptor motif; other site 455488009615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009616 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 455488009617 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 455488009618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009619 TIGR01777 family protein; Region: yfcH 455488009620 NAD(P) binding site [chemical binding]; other site 455488009621 active site 455488009622 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 455488009623 active site 455488009624 putative substrate binding region [chemical binding]; other site 455488009625 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 455488009626 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 455488009627 active site 455488009628 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 455488009629 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 455488009630 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 455488009631 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 455488009632 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 455488009633 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 455488009634 putative substrate binding region [chemical binding]; other site 455488009635 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 455488009636 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 455488009637 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 455488009638 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 455488009639 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 455488009640 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 455488009641 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 455488009642 catalytic residue [active] 455488009643 putative FPP diphosphate binding site; other site 455488009644 putative FPP binding hydrophobic cleft; other site 455488009645 dimer interface [polypeptide binding]; other site 455488009646 putative IPP diphosphate binding site; other site 455488009647 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488009648 active site 455488009649 ATP binding site [chemical binding]; other site 455488009650 Phosphotransferase enzyme family; Region: APH; pfam01636 455488009651 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 455488009652 substrate binding site [chemical binding]; other site 455488009653 activation loop (A-loop); other site 455488009654 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 455488009655 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 455488009656 Walker A motif; other site 455488009657 ATP binding site [chemical binding]; other site 455488009658 Walker B motif; other site 455488009659 aspartate kinase; Reviewed; Region: PRK06635 455488009660 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 455488009661 putative nucleotide binding site [chemical binding]; other site 455488009662 putative catalytic residues [active] 455488009663 putative Mg ion binding site [ion binding]; other site 455488009664 putative aspartate binding site [chemical binding]; other site 455488009665 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 455488009666 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 455488009667 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 455488009668 oligomerisation interface [polypeptide binding]; other site 455488009669 mobile loop; other site 455488009670 roof hairpin; other site 455488009671 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 455488009672 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 455488009673 ring oligomerisation interface [polypeptide binding]; other site 455488009674 ATP/Mg binding site [chemical binding]; other site 455488009675 stacking interactions; other site 455488009676 hinge regions; other site 455488009677 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488009678 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488009679 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009680 TPR motif; other site 455488009681 binding surface 455488009682 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 455488009683 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 455488009684 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 455488009685 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 455488009686 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 455488009687 Spore Coat Protein U domain; Region: SCPU; cl02253 455488009688 Spore Coat Protein U domain; Region: SCPU; cl02253 455488009689 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 455488009690 active site 455488009691 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 455488009692 amphipathic channel; other site 455488009693 Asn-Pro-Ala signature motifs; other site 455488009694 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 455488009695 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 455488009696 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 455488009697 active site 455488009698 Family description; Region: VCBS; pfam13517 455488009699 Family description; Region: VCBS; pfam13517 455488009700 Family description; Region: VCBS; pfam13517 455488009701 Stigma-specific protein, Stig1; Region: Stig1; pfam04885 455488009702 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 455488009703 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 455488009704 minor groove reading motif; other site 455488009705 helix-hairpin-helix signature motif; other site 455488009706 substrate binding pocket [chemical binding]; other site 455488009707 active site 455488009708 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 455488009709 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 455488009710 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 455488009711 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 455488009712 tetramer interfaces [polypeptide binding]; other site 455488009713 binuclear metal-binding site [ion binding]; other site 455488009714 competence damage-inducible protein A; Provisional; Region: PRK00549 455488009715 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 455488009716 putative MPT binding site; other site 455488009717 Competence-damaged protein; Region: CinA; cl00666 455488009718 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 455488009719 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488009720 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 455488009721 Surface antigen; Region: Bac_surface_Ag; cl03097 455488009722 protein RecA; Region: tigrfam_recA; TIGR02012 455488009723 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 455488009724 hexamer interface [polypeptide binding]; other site 455488009725 Walker A motif; other site 455488009726 ATP binding site [chemical binding]; other site 455488009727 Walker B motif; other site 455488009728 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 455488009729 catalytic residues [active] 455488009730 catalytic nucleophile [active] 455488009731 Recombinase; Region: Recombinase; pfam07508 455488009732 Beta protein; Region: Beta_protein; pfam14350 455488009733 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 455488009734 active site 455488009735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009737 Restriction endonuclease; Region: Mrr_cat; cl00516 455488009738 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 455488009739 Fe-S cluster binding site [ion binding]; other site 455488009740 DNA binding site [nucleotide binding] 455488009741 active site 455488009742 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 455488009743 G1 box; other site 455488009744 GTP/Mg2+ binding site [chemical binding]; other site 455488009745 G2 box; other site 455488009746 Switch I region; other site 455488009747 G3 box; other site 455488009748 Switch II region; other site 455488009749 G4 box; other site 455488009750 G5 box; other site 455488009751 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 455488009752 recombination protein RecR; Reviewed; Region: recR; PRK00076 455488009753 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 455488009754 RecR protein; Region: RecR; pfam02132 455488009755 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 455488009756 putative active site [active] 455488009757 putative metal-binding site [ion binding]; other site 455488009758 tetramer interface [polypeptide binding]; other site 455488009759 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 455488009760 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 455488009761 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 455488009762 Walker A motif; other site 455488009763 ATP binding site [chemical binding]; other site 455488009764 Walker B motif; other site 455488009765 arginine finger; other site 455488009766 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 455488009767 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 455488009768 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 455488009769 nucleoside/Zn binding site; other site 455488009770 dimer interface [polypeptide binding]; other site 455488009771 catalytic motif [active] 455488009772 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 455488009773 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 455488009774 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 455488009775 FeS/SAM binding site; other site 455488009776 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488009777 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 455488009778 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488009779 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 455488009780 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 455488009781 Permutation of conserved domain; other site 455488009782 active site 455488009783 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 455488009784 GAF domain; Region: GAF; cl15785 455488009785 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455488009786 ligand binding site [chemical binding]; other site 455488009787 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 455488009788 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009789 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488009790 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488009791 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488009792 active site 455488009793 ATP binding site [chemical binding]; other site 455488009794 substrate binding site [chemical binding]; other site 455488009795 activation loop (A-loop); other site 455488009796 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 455488009797 phosphopeptide binding site; other site 455488009798 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 455488009799 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 455488009800 Walker A motif; other site 455488009801 ATP binding site [chemical binding]; other site 455488009802 Walker B motif; other site 455488009803 arginine finger; other site 455488009804 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 455488009805 DNA binding residues [nucleotide binding] 455488009806 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 455488009807 active site 455488009808 phosphorylation site [posttranslational modification] 455488009809 hydrogenase 4 subunit B; Validated; Region: PRK06521 455488009810 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488009811 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488009812 NADH dehydrogenase; Region: NADHdh; cl00469 455488009813 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 455488009814 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 455488009815 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 455488009816 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 455488009817 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 455488009818 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 455488009819 4Fe-4S binding domain; Region: Fer4; cl02805 455488009820 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 455488009821 PspC domain; Region: PspC; cl00864 455488009822 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 455488009823 S-adenosylmethionine binding site [chemical binding]; other site 455488009824 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488009825 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 455488009826 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 455488009827 active site 455488009828 aconitate hydratase; Validated; Region: PRK09277 455488009829 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 455488009830 substrate binding site [chemical binding]; other site 455488009831 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 455488009832 ligand binding site [chemical binding]; other site 455488009833 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 455488009834 substrate binding site [chemical binding]; other site 455488009835 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 455488009836 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 455488009837 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 455488009838 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 455488009839 oxalacetate binding site [chemical binding]; other site 455488009840 citrylCoA binding site [chemical binding]; other site 455488009841 coenzyme A binding site [chemical binding]; other site 455488009842 catalytic triad [active] 455488009843 Peptidase family M23; Region: Peptidase_M23; pfam01551 455488009844 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 455488009845 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 455488009846 RNA binding site [nucleotide binding]; other site 455488009847 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 455488009848 RNA binding site [nucleotide binding]; other site 455488009849 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 455488009850 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 455488009851 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 455488009852 catalytic site [active] 455488009853 active site 455488009854 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 455488009855 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 455488009856 active site 455488009857 substrate-binding site [chemical binding]; other site 455488009858 metal-binding site [ion binding] 455488009859 GTP binding site [chemical binding]; other site 455488009860 NRDE protein; Region: NRDE; cl01315 455488009861 Protein of unknown function (DUF971); Region: DUF971; cl01414 455488009862 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 455488009863 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 455488009864 SmpB-tmRNA interface; other site 455488009865 Pantoate-beta-alanine ligase; Region: PanC; cd00560 455488009866 pantoate--beta-alanine ligase; Region: panC; TIGR00018 455488009867 active site 455488009868 ATP-binding site [chemical binding]; other site 455488009869 pantoate-binding site; other site 455488009870 HXXH motif; other site 455488009871 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 455488009872 oligomerization interface [polypeptide binding]; other site 455488009873 active site 455488009874 metal binding site [ion binding]; metal-binding site 455488009875 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 455488009876 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 455488009877 Substrate-binding site [chemical binding]; other site 455488009878 Substrate specificity [chemical binding]; other site 455488009879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488009881 UGMP family protein; Validated; Region: PRK09604 455488009882 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 455488009883 Response regulator receiver domain; Region: Response_reg; pfam00072 455488009884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488009885 active site 455488009886 phosphorylation site [posttranslational modification] 455488009887 intermolecular recognition site; other site 455488009888 dimerization interface [polypeptide binding]; other site 455488009889 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488009890 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488009891 TPR motif; other site 455488009892 binding surface 455488009893 Tetratricopeptide repeat; Region: TPR_16; pfam13432 455488009894 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488009895 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 455488009896 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 455488009897 HSP70 interaction site [polypeptide binding]; other site 455488009898 Protein phosphatase 2C; Region: PP2C; pfam00481 455488009899 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 455488009900 active site 455488009901 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 455488009902 Substrate binding site; other site 455488009903 metal-binding site 455488009904 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 455488009905 MFS_1 like family; Region: MFS_1_like; pfam12832 455488009906 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 455488009907 active site 455488009908 substrate binding site [chemical binding]; other site 455488009909 catalytic site [active] 455488009910 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 455488009911 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 455488009912 ligand binding site [chemical binding]; other site 455488009913 flexible hinge region; other site 455488009914 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 455488009915 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 455488009916 metal binding triad; other site 455488009917 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 455488009918 Sodium:solute symporter family; Region: SSF; cl00456 455488009919 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 455488009920 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 455488009921 putative substrate translocation pore; other site 455488009922 metabolite-proton symporter; Region: 2A0106; TIGR00883 455488009923 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488009924 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488009925 active site 455488009926 ATP binding site [chemical binding]; other site 455488009927 substrate binding site [chemical binding]; other site 455488009928 activation loop (A-loop); other site 455488009929 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 455488009930 Ligand Binding Site [chemical binding]; other site 455488009931 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488009932 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488009933 active site 455488009934 metal binding site [ion binding]; metal-binding site 455488009935 Protein of unknown function, DUF485; Region: DUF485; cl01231 455488009936 Sodium:solute symporter family; Region: SSF; cl00456 455488009937 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 455488009938 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 455488009939 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 455488009940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488009941 dimer interface [polypeptide binding]; other site 455488009942 putative CheW interface [polypeptide binding]; other site 455488009943 Phosphotransferase enzyme family; Region: APH; pfam01636 455488009944 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 455488009945 active site 455488009946 ATP binding site [chemical binding]; other site 455488009947 substrate binding site [chemical binding]; other site 455488009948 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 455488009949 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 455488009950 dimer interface [polypeptide binding]; other site 455488009951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488009952 catalytic residue [active] 455488009953 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 455488009954 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 455488009955 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 455488009956 homodimer interface [polypeptide binding]; other site 455488009957 substrate-cofactor binding pocket; other site 455488009958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488009959 catalytic residue [active] 455488009960 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 455488009961 putative substrate translocation pore; other site 455488009962 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 455488009963 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 455488009964 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 455488009965 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 455488009966 Cache domain; Region: Cache_2; cl07034 455488009967 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 455488009968 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488009969 dimer interface [polypeptide binding]; other site 455488009970 putative CheW interface [polypeptide binding]; other site 455488009971 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 455488009972 active site 455488009973 FMN binding site [chemical binding]; other site 455488009974 substrate binding site [chemical binding]; other site 455488009975 homotetramer interface [polypeptide binding]; other site 455488009976 catalytic residue [active] 455488009977 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 455488009978 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 455488009979 PUA domain; Region: PUA; cl00607 455488009980 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 455488009981 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 455488009982 S-adenosylmethionine binding site [chemical binding]; other site 455488009983 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 455488009984 ligand binding site [chemical binding]; other site 455488009985 flexible hinge region; other site 455488009986 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 455488009987 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 455488009988 active site 455488009989 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 455488009990 PAS domain; Region: PAS_9; pfam13426 455488009991 putative active site [active] 455488009992 heme pocket [chemical binding]; other site 455488009993 GAF domain; Region: GAF; cl15785 455488009994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488009995 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488009996 dimer interface [polypeptide binding]; other site 455488009997 phosphorylation site [posttranslational modification] 455488009998 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488009999 ATP binding site [chemical binding]; other site 455488010000 Mg2+ binding site [ion binding]; other site 455488010001 G-X-G motif; other site 455488010002 O-methyltransferase; Region: Methyltransf_3; pfam01596 455488010003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010004 Transposase domain (DUF772); Region: DUF772; cl15789 455488010005 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488010006 Transposase domain (DUF772); Region: DUF772; cl15789 455488010007 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 455488010008 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 455488010009 motif 1; other site 455488010010 dimer interface [polypeptide binding]; other site 455488010011 active site 455488010012 motif 2; other site 455488010013 motif 3; other site 455488010014 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488010015 Zn binding site [ion binding]; other site 455488010016 PAS domain; Region: PAS_9; pfam13426 455488010017 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 455488010018 putative active site [active] 455488010019 heme pocket [chemical binding]; other site 455488010020 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 455488010021 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 455488010022 putative active site [active] 455488010023 heme pocket [chemical binding]; other site 455488010024 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488010025 dimer interface [polypeptide binding]; other site 455488010026 phosphorylation site [posttranslational modification] 455488010027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488010028 ATP binding site [chemical binding]; other site 455488010029 Mg2+ binding site [ion binding]; other site 455488010030 G-X-G motif; other site 455488010031 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488010032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010033 active site 455488010034 phosphorylation site [posttranslational modification] 455488010035 intermolecular recognition site; other site 455488010036 dimerization interface [polypeptide binding]; other site 455488010037 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 455488010038 Walker A motif; other site 455488010039 ATP binding site [chemical binding]; other site 455488010040 Walker B motif; other site 455488010041 arginine finger; other site 455488010042 Helix-turn-helix domains; Region: HTH; cl00088 455488010043 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 455488010044 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 455488010045 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 455488010046 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 455488010047 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488010048 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 455488010049 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488010050 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 455488010051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010052 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 455488010053 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488010054 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 455488010055 DNA binding residues [nucleotide binding] 455488010056 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 455488010057 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 455488010058 glycogen binding site [chemical binding]; other site 455488010059 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488010060 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488010061 active site 455488010062 ATP binding site [chemical binding]; other site 455488010063 substrate binding site [chemical binding]; other site 455488010064 activation loop (A-loop); other site 455488010065 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488010066 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488010067 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 455488010068 phosphopeptide binding site; other site 455488010069 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 455488010070 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 455488010071 substrate binding site [chemical binding]; other site 455488010072 oxyanion hole (OAH) forming residues; other site 455488010073 trimer interface [polypeptide binding]; other site 455488010074 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 455488010075 carboxyltransferase (CT) interaction site; other site 455488010076 biotinylation site [posttranslational modification]; other site 455488010077 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 455488010078 CoenzymeA binding site [chemical binding]; other site 455488010079 subunit interaction site [polypeptide binding]; other site 455488010080 PHB binding site; other site 455488010081 PilZ domain; Region: PilZ; cl01260 455488010082 Response regulator receiver domain; Region: Response_reg; pfam00072 455488010083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010084 active site 455488010085 phosphorylation site [posttranslational modification] 455488010086 intermolecular recognition site; other site 455488010087 dimerization interface [polypeptide binding]; other site 455488010088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010089 NAD(P) binding site [chemical binding]; other site 455488010090 active site 455488010091 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 455488010092 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455488010093 ligand binding site [chemical binding]; other site 455488010094 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 455488010095 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 455488010096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488010097 catalytic residue [active] 455488010098 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 455488010099 NMT1-like family; Region: NMT1_2; cl15260 455488010100 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 455488010101 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 455488010102 putative PBP binding loops; other site 455488010103 dimer interface [polypeptide binding]; other site 455488010104 ABC-ATPase subunit interface; other site 455488010105 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 455488010106 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 455488010107 Walker A/P-loop; other site 455488010108 ATP binding site [chemical binding]; other site 455488010109 Q-loop/lid; other site 455488010110 ABC transporter signature motif; other site 455488010111 Walker B; other site 455488010112 D-loop; other site 455488010113 H-loop/switch region; other site 455488010114 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 455488010115 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 455488010116 [4Fe-4S] binding site [ion binding]; other site 455488010117 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 455488010118 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 455488010119 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 455488010120 molybdopterin cofactor binding site; other site 455488010121 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 455488010122 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 455488010123 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 455488010124 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 455488010125 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 455488010126 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 455488010127 short chain dehydrogenase; Provisional; Region: PRK08278 455488010128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010129 NAD(P) binding site [chemical binding]; other site 455488010130 active site 455488010131 cell division protein MraZ; Reviewed; Region: PRK00326 455488010132 MraZ protein; Region: MraZ; pfam02381 455488010133 MraZ protein; Region: MraZ; pfam02381 455488010134 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 455488010135 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 455488010136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010137 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 455488010138 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 455488010139 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488010140 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 455488010141 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 455488010142 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 455488010143 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455488010144 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455488010145 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 455488010146 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 455488010147 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455488010148 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 455488010149 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 455488010150 Mg++ binding site [ion binding]; other site 455488010151 putative catalytic motif [active] 455488010152 putative substrate binding site [chemical binding]; other site 455488010153 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 455488010154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010155 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455488010156 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455488010157 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 455488010158 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 455488010159 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 455488010160 active site 455488010161 homodimer interface [polypeptide binding]; other site 455488010162 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 455488010163 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 455488010164 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455488010165 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455488010166 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: PRK14652 455488010167 FAD binding domain; Region: FAD_binding_4; pfam01565 455488010168 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 455488010169 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 455488010170 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 455488010171 ATP-grasp domain; Region: ATP-grasp_4; cl03087 455488010172 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488010173 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488010174 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488010175 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 455488010176 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 455488010177 Cell division protein FtsQ; Region: FtsQ; pfam03799 455488010178 cell division protein FtsA; Region: ftsA; TIGR01174 455488010179 Cell division protein FtsA; Region: FtsA; cl11496 455488010180 Cell division protein FtsA; Region: FtsA; cl11496 455488010181 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 455488010182 cell division protein FtsZ; Validated; Region: PRK09330 455488010183 nucleotide binding site [chemical binding]; other site 455488010184 SulA interaction site; other site 455488010185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488010186 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 455488010187 putative hydrophobic ligand binding site [chemical binding]; other site 455488010188 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 455488010189 dimerization interface [polypeptide binding]; other site 455488010190 putative DNA binding site [nucleotide binding]; other site 455488010191 putative Zn2+ binding site [ion binding]; other site 455488010192 Putative esterase; Region: Esterase; pfam00756 455488010193 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 455488010194 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 455488010195 motif 1; other site 455488010196 active site 455488010197 motif 2; other site 455488010198 motif 3; other site 455488010199 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 455488010200 DHHA1 domain; Region: DHHA1; pfam02272 455488010201 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; cl15754 455488010202 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488010203 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488010204 Walker A/P-loop; other site 455488010205 ATP binding site [chemical binding]; other site 455488010206 Q-loop/lid; other site 455488010207 ABC transporter signature motif; other site 455488010208 Walker B; other site 455488010209 D-loop; other site 455488010210 H-loop/switch region; other site 455488010211 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 455488010212 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455488010213 catalytic residue [active] 455488010214 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455488010215 putative peptidoglycan binding site; other site 455488010216 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455488010217 putative peptidoglycan binding site; other site 455488010218 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 455488010219 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 455488010220 FMN binding site [chemical binding]; other site 455488010221 active site 455488010222 catalytic residues [active] 455488010223 substrate binding site [chemical binding]; other site 455488010224 Helix-turn-helix domains; Region: HTH; cl00088 455488010225 ZIP Zinc transporter; Region: Zip; pfam02535 455488010226 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 455488010227 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 455488010228 Helix-turn-helix domains; Region: HTH; cl00088 455488010229 DNA binding residues [nucleotide binding] 455488010230 dimerization interface [polypeptide binding]; other site 455488010231 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 455488010232 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 455488010233 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 455488010234 protein binding site [polypeptide binding]; other site 455488010235 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 455488010236 Catalytic dyad [active] 455488010237 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 455488010238 Ligand Binding Site [chemical binding]; other site 455488010239 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 455488010240 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 455488010241 Histidine kinase-like ATPases; This family includes several ATP-binding 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 455488010242 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 455488010243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010244 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 455488010245 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 455488010246 metal binding site 2 [ion binding]; metal-binding site 455488010247 putative DNA binding helix; other site 455488010248 metal binding site 1 [ion binding]; metal-binding site 455488010249 dimer interface [polypeptide binding]; other site 455488010250 structural Zn2+ binding site [ion binding]; other site 455488010251 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 455488010252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488010253 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 455488010254 dimer interface [polypeptide binding]; other site 455488010255 ssDNA binding site [nucleotide binding]; other site 455488010256 tetramer (dimer of dimers) interface [polypeptide binding]; other site 455488010257 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 455488010258 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 455488010259 GIY-YIG motif/motif A; other site 455488010260 putative active site [active] 455488010261 putative metal binding site [ion binding]; other site 455488010262 TPR repeat; Region: TPR_11; pfam13414 455488010263 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488010264 binding surface 455488010265 TPR motif; other site 455488010266 Tetratricopeptide repeat; Region: TPR_16; pfam13432 455488010267 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 455488010268 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 455488010269 motif II; other site 455488010270 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 455488010271 putative DNA binding site [nucleotide binding]; other site 455488010272 putative Zn2+ binding site [ion binding]; other site 455488010273 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 455488010274 putative hydrophobic ligand binding site [chemical binding]; other site 455488010275 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 455488010276 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 455488010277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 455488010278 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 455488010279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 455488010280 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 455488010281 active site 455488010282 dimer interface [polypeptide binding]; other site 455488010283 Helix-turn-helix domains; Region: HTH; cl00088 455488010284 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 455488010285 hypothetical protein; Reviewed; Region: PRK00024 455488010286 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 455488010287 MPN+ (JAMM) motif; other site 455488010288 Zinc-binding site [ion binding]; other site 455488010289 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 455488010290 Peptidase family C69; Region: Peptidase_C69; pfam03577 455488010291 YceI-like domain; Region: YceI; cl01001 455488010292 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 455488010293 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 455488010294 metal binding site [ion binding]; metal-binding site 455488010295 putative dimer interface [polypeptide binding]; other site 455488010296 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 455488010297 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 455488010298 trimer interface [polypeptide binding]; other site 455488010299 active site 455488010300 substrate binding site [chemical binding]; other site 455488010301 CoA binding site [chemical binding]; other site 455488010302 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 455488010303 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 455488010304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488010305 homodimer interface [polypeptide binding]; other site 455488010306 catalytic residue [active] 455488010307 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 455488010308 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 455488010309 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 455488010310 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 455488010311 glutathione s-transferase; Provisional; Region: PTZ00057 455488010312 GSH binding site (G-site) [chemical binding]; other site 455488010313 C-terminal domain interface [polypeptide binding]; other site 455488010314 dimer interface [polypeptide binding]; other site 455488010315 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 455488010316 dimer interface [polypeptide binding]; other site 455488010317 N-terminal domain interface [polypeptide binding]; other site 455488010318 substrate binding pocket (H-site) [chemical binding]; other site 455488010319 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 455488010320 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 455488010321 P-loop; other site 455488010322 Magnesium ion binding site [ion binding]; other site 455488010323 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 455488010324 Magnesium ion binding site [ion binding]; other site 455488010325 HEAT repeats; Region: HEAT_2; pfam13646 455488010326 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 455488010327 Major Facilitator Superfamily; Region: MFS_1; pfam07690 455488010328 putative substrate translocation pore; other site 455488010329 FOG: CBS domain [General function prediction only]; Region: COG0517 455488010330 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 455488010331 Transporter associated domain; Region: CorC_HlyC; cl08393 455488010332 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 455488010333 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 455488010334 putative active site [active] 455488010335 catalytic triad [active] 455488010336 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 455488010337 Response regulator receiver domain; Region: Response_reg; pfam00072 455488010338 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010339 active site 455488010340 phosphorylation site [posttranslational modification] 455488010341 intermolecular recognition site; other site 455488010342 dimerization interface [polypeptide binding]; other site 455488010343 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 455488010344 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 455488010345 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 455488010346 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 455488010347 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 455488010348 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 455488010349 classical (c) SDRs; Region: SDR_c; cd05233 455488010350 NAD(P) binding site [chemical binding]; other site 455488010351 active site 455488010352 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 455488010353 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455488010354 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488010355 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488010356 seryl-tRNA synthetase; Provisional; Region: PRK05431 455488010357 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 455488010358 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 455488010359 dimer interface [polypeptide binding]; other site 455488010360 active site 455488010361 motif 1; other site 455488010362 motif 2; other site 455488010363 motif 3; other site 455488010364 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 455488010365 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488010366 dimer interface [polypeptide binding]; other site 455488010367 phosphorylation site [posttranslational modification] 455488010368 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488010369 ATP binding site [chemical binding]; other site 455488010370 Mg2+ binding site [ion binding]; other site 455488010371 G-X-G motif; other site 455488010372 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 455488010373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010374 active site 455488010375 phosphorylation site [posttranslational modification] 455488010376 intermolecular recognition site; other site 455488010377 dimerization interface [polypeptide binding]; other site 455488010378 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 455488010379 DNA binding site [nucleotide binding] 455488010380 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 455488010381 pyruvate carboxylase subunit B; Validated; Region: PRK09282 455488010382 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488010383 Outer membrane efflux protein; Region: OEP; pfam02321 455488010384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010385 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 455488010386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010387 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 455488010388 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 455488010389 putative transposase OrfB; Reviewed; Region: PHA02517 455488010390 HTH-like domain; Region: HTH_21; pfam13276 455488010391 Integrase core domain; Region: rve; cl01316 455488010392 Integrase core domain; Region: rve_3; cl15866 455488010393 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 455488010394 DNA-binding interface [nucleotide binding]; DNA binding site 455488010395 DNA-sulfur modification-associated; Region: DndB; cl14002 455488010396 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 455488010397 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; cl00083 455488010398 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 455488010399 PLD-like domain; Region: PLDc_2; pfam13091 455488010400 putative homodimer interface [polypeptide binding]; other site 455488010401 putative active site [active] 455488010402 catalytic site [active] 455488010403 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 455488010404 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 455488010405 ATP binding site [chemical binding]; other site 455488010406 putative Mg++ binding site [ion binding]; other site 455488010407 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 455488010408 nucleotide binding region [chemical binding]; other site 455488010409 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 455488010410 Predicted transcriptional regulator [Transcription]; Region: COG4189 455488010411 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 455488010412 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 455488010413 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 455488010414 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488010415 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 455488010416 ATP-dependent helicase; Provisional; Region: PRK13767 455488010417 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 455488010418 ATP binding site [chemical binding]; other site 455488010419 putative Mg++ binding site [ion binding]; other site 455488010420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488010421 DEAD/H associated; Region: DEAD_assoc; pfam08494 455488010422 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 455488010423 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 455488010424 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 455488010425 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 455488010426 Family description; Region: UvrD_C_2; cl15862 455488010427 SEC-C motif; Region: SEC-C; pfam02810 455488010428 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455488010429 OsmC-like protein; Region: OsmC; cl00767 455488010430 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 455488010431 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 455488010432 B12 binding site [chemical binding]; other site 455488010433 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 455488010434 substrate-cofactor binding pocket; other site 455488010435 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 455488010436 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 455488010437 chorismate binding enzyme; Region: Chorismate_bind; cl10555 455488010438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010439 phosphorylation site [posttranslational modification] 455488010440 intermolecular recognition site; other site 455488010441 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 455488010442 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 455488010443 active site 455488010444 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 455488010445 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 455488010446 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 455488010447 dimerization interface [polypeptide binding]; other site 455488010448 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488010449 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488010450 dimer interface [polypeptide binding]; other site 455488010451 putative CheW interface [polypeptide binding]; other site 455488010452 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 455488010453 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 455488010454 active site 455488010455 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 455488010456 active site 455488010457 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 455488010458 putative NADP binding site [chemical binding]; other site 455488010459 active site 455488010460 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 455488010461 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 455488010462 active site 455488010463 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 455488010464 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 455488010465 active site 455488010466 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 455488010467 Acyl transferase domain; Region: Acyl_transf_1; cl08282 455488010468 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 455488010469 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488010470 Helix-turn-helix domains; Region: HTH; cl00088 455488010471 WYL domain; Region: WYL; cl14852 455488010472 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 455488010473 active site 455488010474 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 455488010475 S-adenosylmethionine binding site [chemical binding]; other site 455488010476 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 455488010477 putative catalytic residues [active] 455488010478 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 455488010479 Acetokinase family; Region: Acetate_kinase; cl01029 455488010480 propionate/acetate kinase; Provisional; Region: PRK12379 455488010481 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 455488010482 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 455488010483 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 455488010484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488010485 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 455488010486 Walker A/P-loop; other site 455488010487 ATP binding site [chemical binding]; other site 455488010488 Q-loop/lid; other site 455488010489 ABC transporter signature motif; other site 455488010490 Walker B; other site 455488010491 D-loop; other site 455488010492 H-loop/switch region; other site 455488010493 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 455488010494 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455488010495 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 455488010496 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488010497 Walker A/P-loop; other site 455488010498 ATP binding site [chemical binding]; other site 455488010499 Q-loop/lid; other site 455488010500 ABC transporter signature motif; other site 455488010501 Walker B; other site 455488010502 D-loop; other site 455488010503 H-loop/switch region; other site 455488010504 ABC transporter; Region: ABC_tran_2; pfam12848 455488010505 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488010506 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 455488010507 putative dimer interface [polypeptide binding]; other site 455488010508 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488010509 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 455488010510 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 455488010511 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 455488010512 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 455488010513 benzoate transport; Region: 2A0115; TIGR00895 455488010514 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 455488010515 putative substrate translocation pore; other site 455488010516 RmuC family; Region: RmuC; pfam02646 455488010517 Predicted transcriptional regulator [Transcription]; Region: COG2378 455488010518 WYL domain; Region: WYL; cl14852 455488010519 WYL domain; Region: WYL; cl14852 455488010520 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 455488010521 putative acyl-acceptor binding pocket; other site 455488010522 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 455488010523 Amidase; Region: Amidase; cl11426 455488010524 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 455488010525 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 455488010526 putative DNA binding site [nucleotide binding]; other site 455488010527 catalytic residue [active] 455488010528 putative H2TH interface [polypeptide binding]; other site 455488010529 putative catalytic residues [active] 455488010530 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 455488010531 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 455488010532 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 455488010533 Malic enzyme, N-terminal domain; Region: malic; pfam00390 455488010534 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 455488010535 putative NAD(P) binding site [chemical binding]; other site 455488010536 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 455488010537 homoserine dehydrogenase; Provisional; Region: PRK06270 455488010538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010539 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 455488010540 Domain of unknown function DUF302; Region: DUF302; cl01364 455488010541 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 455488010542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 455488010543 Domain of unknown function (DUF222); Region: DUF222; pfam02720 455488010544 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 455488010545 active site 455488010546 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 455488010547 FtsX-like permease family; Region: FtsX; cl15850 455488010548 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 455488010549 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488010550 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488010551 Walker A/P-loop; other site 455488010552 ATP binding site [chemical binding]; other site 455488010553 Q-loop/lid; other site 455488010554 ABC transporter signature motif; other site 455488010555 Walker B; other site 455488010556 D-loop; other site 455488010557 H-loop/switch region; other site 455488010558 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 455488010559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 455488010560 Smr domain; Region: Smr; cl02619 455488010561 Outer membrane efflux protein; Region: OEP; pfam02321 455488010562 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488010563 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488010564 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 455488010565 Protein export membrane protein; Region: SecD_SecF; cl14618 455488010566 MgtE intracellular N domain; Region: MgtE_N; cl15244 455488010567 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 455488010568 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 455488010569 Divalent cation transporter; Region: MgtE; cl00786 455488010570 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 455488010571 active site 455488010572 dimer interface [polypeptide binding]; other site 455488010573 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488010574 prolyl-tRNA synthetase; Provisional; Region: PRK09194 455488010575 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 455488010576 dimer interface [polypeptide binding]; other site 455488010577 motif 1; other site 455488010578 active site 455488010579 motif 2; other site 455488010580 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 455488010581 putative deacylase active site [active] 455488010582 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 455488010583 active site 455488010584 motif 3; other site 455488010585 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 455488010586 anticodon binding site; other site 455488010587 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 455488010588 GcpE protein; Region: GcpE; pfam04551 455488010589 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 455488010590 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 455488010591 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488010592 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 455488010593 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 455488010594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 455488010595 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 455488010596 trimer interface [polypeptide binding]; other site 455488010597 dimer interface [polypeptide binding]; other site 455488010598 putative active site [active] 455488010599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010600 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 455488010601 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 455488010602 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 455488010603 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 455488010604 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 455488010605 Substrate binding site; other site 455488010606 Mg++ binding site; other site 455488010607 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 455488010608 active site 455488010609 substrate binding site [chemical binding]; other site 455488010610 CoA binding site [chemical binding]; other site 455488010611 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 455488010612 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 455488010613 glutaminase active site [active] 455488010614 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 455488010615 dimer interface [polypeptide binding]; other site 455488010616 active site 455488010617 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 455488010618 dimer interface [polypeptide binding]; other site 455488010619 active site 455488010620 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 455488010621 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 455488010622 Protein of unknown function (DUF2378); Region: DUF2378; cl15288 455488010623 recombinase A; Provisional; Region: recA; PRK09354 455488010624 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 455488010625 hexamer interface [polypeptide binding]; other site 455488010626 Walker A motif; other site 455488010627 ATP binding site [chemical binding]; other site 455488010628 Walker B motif; other site 455488010629 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 455488010630 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 455488010631 MOFRL family; Region: MOFRL; pfam05161 455488010632 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 455488010633 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 455488010634 putative active site [active] 455488010635 substrate binding site [chemical binding]; other site 455488010636 putative cosubstrate binding site; other site 455488010637 catalytic site [active] 455488010638 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 455488010639 substrate binding site [chemical binding]; other site 455488010640 16S rRNA methyltransferase B; Provisional; Region: PRK14902 455488010641 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 455488010642 putative RNA binding site [nucleotide binding]; other site 455488010643 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 455488010644 S-adenosylmethionine binding site [chemical binding]; other site 455488010645 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 455488010646 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 455488010647 substrate binding site [chemical binding]; other site 455488010648 hexamer interface [polypeptide binding]; other site 455488010649 metal binding site [ion binding]; metal-binding site 455488010650 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 455488010651 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cd09593 455488010652 ligand binding site [chemical binding]; other site 455488010653 active site 455488010654 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 455488010655 TMAO/DMSO reductase; Reviewed; Region: PRK05363 455488010656 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 455488010657 Moco binding site; other site 455488010658 metal coordination site [ion binding]; other site 455488010659 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 455488010660 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 455488010661 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 455488010662 DctM-like transporters; Region: DctM; pfam06808 455488010663 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 455488010664 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 455488010665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010666 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 455488010667 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 455488010668 putative active site [active] 455488010669 catalytic site [active] 455488010670 putative metal binding site [ion binding]; other site 455488010671 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 455488010672 active site 455488010673 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 455488010674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488010675 Walker A/P-loop; other site 455488010676 ATP binding site [chemical binding]; other site 455488010677 Q-loop/lid; other site 455488010678 ABC transporter signature motif; other site 455488010679 Walker B; other site 455488010680 D-loop; other site 455488010681 H-loop/switch region; other site 455488010682 ABC transporter; Region: ABC_tran_2; pfam12848 455488010683 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 455488010684 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 455488010685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 455488010686 putative substrate translocation pore; other site 455488010687 Transposase IS200 like; Region: Y1_Tnp; cl00848 455488010688 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 455488010689 active site 455488010690 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488010691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010692 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 455488010693 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 455488010694 Walker A/P-loop; other site 455488010695 ATP binding site [chemical binding]; other site 455488010696 Q-loop/lid; other site 455488010697 ABC transporter signature motif; other site 455488010698 Walker B; other site 455488010699 D-loop; other site 455488010700 H-loop/switch region; other site 455488010701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 455488010702 NMT1-like family; Region: NMT1_2; cl15260 455488010703 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 455488010704 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 455488010705 NlpC/P60 family; Region: NLPC_P60; cl11438 455488010706 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 455488010707 active site 455488010708 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 455488010709 PhoU domain; Region: PhoU; pfam01895 455488010710 PhoU domain; Region: PhoU; pfam01895 455488010711 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 455488010712 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 455488010713 Walker A/P-loop; other site 455488010714 ATP binding site [chemical binding]; other site 455488010715 Q-loop/lid; other site 455488010716 ABC transporter signature motif; other site 455488010717 Walker B; other site 455488010718 D-loop; other site 455488010719 H-loop/switch region; other site 455488010720 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 455488010721 dimer interface [polypeptide binding]; other site 455488010722 conserved gate region; other site 455488010723 putative PBP binding loops; other site 455488010724 ABC-ATPase subunit interface; other site 455488010725 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 455488010726 dimer interface [polypeptide binding]; other site 455488010727 conserved gate region; other site 455488010728 putative PBP binding loops; other site 455488010729 ABC-ATPase subunit interface; other site 455488010730 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 455488010731 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 455488010732 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 455488010733 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 455488010734 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488010735 dimer interface [polypeptide binding]; other site 455488010736 phosphorylation site [posttranslational modification] 455488010737 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488010738 ATP binding site [chemical binding]; other site 455488010739 Mg2+ binding site [ion binding]; other site 455488010740 G-X-G motif; other site 455488010741 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 455488010742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010743 active site 455488010744 phosphorylation site [posttranslational modification] 455488010745 intermolecular recognition site; other site 455488010746 dimerization interface [polypeptide binding]; other site 455488010747 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 455488010748 DNA binding site [nucleotide binding] 455488010749 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455488010750 ligand binding site [chemical binding]; other site 455488010751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455488010752 metal binding site [ion binding]; metal-binding site 455488010753 active site 455488010754 I-site; other site 455488010755 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 455488010756 THUMP domain; Region: THUMP; cl12076 455488010757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010758 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488010759 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 455488010760 putative substrate translocation pore; other site 455488010761 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; cl00083 455488010762 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 455488010763 CoenzymeA binding site [chemical binding]; other site 455488010764 subunit interaction site [polypeptide binding]; other site 455488010765 PHB binding site; other site 455488010766 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 455488010767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 455488010768 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 455488010769 Major Facilitator Superfamily; Region: MFS_1; pfam07690 455488010770 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 455488010771 putative substrate translocation pore; other site 455488010772 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 455488010773 active site residue [active] 455488010774 Protein of unknown function (DUF423); Region: DUF423; cl01008 455488010775 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 455488010776 aromatic arch; other site 455488010777 DCoH dimer interaction site [polypeptide binding]; other site 455488010778 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 455488010779 DCoH tetramer interaction site [polypeptide binding]; other site 455488010780 substrate binding site [chemical binding]; other site 455488010781 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 455488010782 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 455488010783 putative active site [active] 455488010784 putative metal binding site [ion binding]; other site 455488010785 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488010786 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 455488010787 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 455488010788 NAD-dependent deacetylase; Provisional; Region: PRK00481 455488010789 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 455488010790 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 455488010791 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 455488010792 intersubunit interface [polypeptide binding]; other site 455488010793 Protein of unknown function (DUF525); Region: DUF525; cl01119 455488010794 Transposase domain (DUF772); Region: DUF772; cl15789 455488010795 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 455488010796 Transposase domain (DUF772); Region: DUF772; cl15789 455488010797 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 455488010798 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 455488010799 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 455488010800 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 455488010801 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 455488010802 active site 455488010803 catalytic site [active] 455488010804 (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 455488010805 active site 455488010806 catalytic site [active] 455488010807 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 455488010808 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 455488010809 catalytic residues [active] 455488010810 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488010811 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; cl00083 455488010812 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 455488010813 pyruvate phosphate dikinase; Provisional; Region: PRK09279 455488010814 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 455488010815 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 455488010816 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 455488010817 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 455488010818 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 455488010819 Ligand Binding Site [chemical binding]; other site 455488010820 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 455488010821 CPxP motif; other site 455488010822 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488010823 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 455488010824 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488010825 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 455488010826 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488010827 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 455488010828 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 455488010829 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 455488010830 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 455488010831 tetramerization interface [polypeptide binding]; other site 455488010832 active site 455488010833 anthranilate synthase component I; Provisional; Region: PRK13565 455488010834 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 455488010835 chorismate binding enzyme; Region: Chorismate_bind; cl10555 455488010836 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 455488010837 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 455488010838 glutamine binding [chemical binding]; other site 455488010839 catalytic triad [active] 455488010840 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 455488010841 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 455488010842 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 455488010843 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 455488010844 active site 455488010845 ribulose/triose binding site [chemical binding]; other site 455488010846 phosphate binding site [ion binding]; other site 455488010847 substrate (anthranilate) binding pocket [chemical binding]; other site 455488010848 product (indole) binding pocket [chemical binding]; other site 455488010849 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 455488010850 active site 455488010851 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 455488010852 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 455488010853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488010854 catalytic residue [active] 455488010855 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 455488010856 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 455488010857 substrate binding site [chemical binding]; other site 455488010858 active site 455488010859 catalytic residues [active] 455488010860 heterodimer interface [polypeptide binding]; other site 455488010861 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 455488010862 NeuB family; Region: NeuB; cl00496 455488010863 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 455488010864 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488010865 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 455488010866 Helix-turn-helix domains; Region: HTH; cl00088 455488010867 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 455488010868 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 455488010869 active site 455488010870 intersubunit interactions; other site 455488010871 catalytic residue [active] 455488010872 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 455488010873 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 455488010874 putative active site [active] 455488010875 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 455488010876 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 455488010877 intersubunit interface [polypeptide binding]; other site 455488010878 active site 455488010879 Zn2+ binding site [ion binding]; other site 455488010880 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 455488010881 catalytic center binding site [active] 455488010882 ATP binding site [chemical binding]; other site 455488010883 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 455488010884 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 455488010885 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 455488010886 dihydrodipicolinate reductase; Provisional; Region: PRK00048 455488010887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010888 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 455488010889 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 455488010890 dihydrodipicolinate synthase; Region: dapA; TIGR00674 455488010891 dimer interface [polypeptide binding]; other site 455488010892 active site 455488010893 catalytic residue [active] 455488010894 diaminopimelate decarboxylase; Region: lysA; TIGR01048 455488010895 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 455488010896 active site 455488010897 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 455488010898 substrate binding site [chemical binding]; other site 455488010899 catalytic residues [active] 455488010900 dimer interface [polypeptide binding]; other site 455488010901 argininosuccinate lyase; Provisional; Region: PRK00855 455488010902 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 455488010903 active sites [active] 455488010904 tetramer interface [polypeptide binding]; other site 455488010905 OsmC-like protein; Region: OsmC; cl00767 455488010906 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 455488010907 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 455488010908 dimer interface [polypeptide binding]; other site 455488010909 substrate binding site [chemical binding]; other site 455488010910 metal binding site [ion binding]; metal-binding site 455488010911 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 455488010912 Nucleoside recognition; Region: Gate; cl00486 455488010913 Nucleoside recognition; Region: Gate; cl00486 455488010914 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 455488010915 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 455488010916 active site 455488010917 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 455488010918 active site 2 [active] 455488010919 active site 1 [active] 455488010920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488010921 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 455488010922 HSP70 interaction site [polypeptide binding]; other site 455488010923 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 455488010924 4Fe-4S binding domain; Region: Fer4; cl02805 455488010925 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 455488010926 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 455488010927 NAD(P) binding site [chemical binding]; other site 455488010928 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 455488010929 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 455488010930 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 455488010931 active site 455488010932 OPT oligopeptide transporter protein; Region: OPT; cl14607 455488010933 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 455488010934 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 455488010935 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 455488010936 Catalytic domain of Protein Kinases; Region: PKc; cd00180 455488010937 active site 455488010938 ATP binding site [chemical binding]; other site 455488010939 substrate binding site [chemical binding]; other site 455488010940 activation loop (A-loop); other site 455488010941 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 455488010942 interface (dimer of trimers) [polypeptide binding]; other site 455488010943 Substrate-binding/catalytic site; other site 455488010944 Zn-binding sites [ion binding]; other site 455488010945 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 455488010946 dimer interface [polypeptide binding]; other site 455488010947 substrate binding site [chemical binding]; other site 455488010948 metal binding sites [ion binding]; metal-binding site 455488010949 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 455488010950 octamerization interface [polypeptide binding]; other site 455488010951 diferric-oxygen binding site [ion binding]; other site 455488010952 Arginase family; Region: Arginase; cl00306 455488010953 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 455488010954 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 455488010955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488010956 homodimer interface [polypeptide binding]; other site 455488010957 catalytic residue [active] 455488010958 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 455488010959 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 455488010960 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488010961 Outer membrane efflux protein; Region: OEP; pfam02321 455488010962 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 455488010963 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; cl15754 455488010964 Helix-turn-helix domains; Region: HTH; cl00088 455488010965 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 455488010966 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 455488010967 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 455488010968 active site 455488010969 Dehydratase family; Region: ILVD_EDD; cl00340 455488010970 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 455488010971 putative active site [active] 455488010972 putative CoA binding site [chemical binding]; other site 455488010973 nudix motif; other site 455488010974 metal binding site [ion binding]; metal-binding site 455488010975 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 455488010976 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488010977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010978 active site 455488010979 phosphorylation site [posttranslational modification] 455488010980 intermolecular recognition site; other site 455488010981 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 455488010982 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 455488010983 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 455488010984 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 455488010985 active site 455488010986 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 455488010987 lipoyl attachment site [posttranslational modification]; other site 455488010988 Response regulator receiver domain; Region: Response_reg; pfam00072 455488010989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488010990 active site 455488010991 phosphorylation site [posttranslational modification] 455488010992 intermolecular recognition site; other site 455488010993 dimerization interface [polypeptide binding]; other site 455488010994 PAS fold; Region: PAS; pfam00989 455488010995 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 455488010996 putative active site [active] 455488010997 heme pocket [chemical binding]; other site 455488010998 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 455488010999 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 455488011000 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011001 ATP binding site [chemical binding]; other site 455488011002 Mg2+ binding site [ion binding]; other site 455488011003 G-X-G motif; other site 455488011004 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 455488011005 dimerization interface [polypeptide binding]; other site 455488011006 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 455488011007 dimerization interface [polypeptide binding]; other site 455488011008 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 455488011009 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 455488011010 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 455488011011 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 455488011012 dimerization interface [polypeptide binding]; other site 455488011013 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 455488011014 dimerization interface [polypeptide binding]; other site 455488011015 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 455488011016 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 455488011017 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 455488011018 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 455488011019 GAF domain; Region: GAF_2; pfam13185 455488011020 GAF domain; Region: GAF; cl15785 455488011021 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 455488011022 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011023 dimer interface [polypeptide binding]; other site 455488011024 phosphorylation site [posttranslational modification] 455488011025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011026 ATP binding site [chemical binding]; other site 455488011027 Mg2+ binding site [ion binding]; other site 455488011028 G-X-G motif; other site 455488011029 Response regulator receiver domain; Region: Response_reg; pfam00072 455488011030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011031 active site 455488011032 phosphorylation site [posttranslational modification] 455488011033 intermolecular recognition site; other site 455488011034 dimerization interface [polypeptide binding]; other site 455488011035 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011036 active site 455488011037 trehalose synthase; Region: treS_nterm; TIGR02456 455488011038 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 455488011039 Ca binding site [ion binding]; other site 455488011040 active site 455488011041 catalytic site [active] 455488011042 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 455488011043 active site 455488011044 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 455488011045 carbohydrate binding site [chemical binding]; other site 455488011046 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 455488011047 trimer interface; other site 455488011048 sugar binding site [chemical binding]; other site 455488011049 DOMON-like domain of various glycoside hydrolases; Region: DOMON_glucodextranase_like; cd09626 455488011050 putative ligand binding site [chemical binding]; other site 455488011051 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 455488011052 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 455488011053 dimer interface [polypeptide binding]; other site 455488011054 conserved gate region; other site 455488011055 putative PBP binding loops; other site 455488011056 ABC-ATPase subunit interface; other site 455488011057 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 455488011058 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 455488011059 dimer interface [polypeptide binding]; other site 455488011060 conserved gate region; other site 455488011061 putative PBP binding loops; other site 455488011062 ABC-ATPase subunit interface; other site 455488011063 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 455488011064 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 455488011065 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 455488011066 Walker A/P-loop; other site 455488011067 ATP binding site [chemical binding]; other site 455488011068 Q-loop/lid; other site 455488011069 ABC transporter signature motif; other site 455488011070 Walker B; other site 455488011071 D-loop; other site 455488011072 H-loop/switch region; other site 455488011073 TOBE domain; Region: TOBE_2; cl01440 455488011074 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 455488011075 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 455488011076 active site 455488011077 catalytic site [active] 455488011078 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 455488011079 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 455488011080 Uncharacterized conserved protein [Function unknown]; Region: COG3461 455488011081 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 455488011082 Response regulator receiver domain; Region: Response_reg; pfam00072 455488011083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011084 active site 455488011085 phosphorylation site [posttranslational modification] 455488011086 intermolecular recognition site; other site 455488011087 dimerization interface [polypeptide binding]; other site 455488011088 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 455488011089 Predicted exporter [General function prediction only]; Region: COG4258 455488011090 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 455488011091 active site 455488011092 metal binding site [ion binding]; metal-binding site 455488011093 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 455488011094 putative acyl-acceptor binding pocket; other site 455488011095 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488011096 putative acyl-acceptor binding pocket; other site 455488011097 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 455488011098 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 455488011099 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 455488011100 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 455488011101 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 455488011102 DoxX; Region: DoxX; cl00976 455488011103 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 455488011104 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455488011105 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488011106 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 455488011107 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455488011108 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455488011109 Walker A/P-loop; other site 455488011110 ATP binding site [chemical binding]; other site 455488011111 Q-loop/lid; other site 455488011112 ABC transporter signature motif; other site 455488011113 Walker B; other site 455488011114 D-loop; other site 455488011115 H-loop/switch region; other site 455488011116 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488011117 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 455488011118 FtsX-like permease family; Region: FtsX; cl15850 455488011119 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455488011120 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 455488011121 FtsX-like permease family; Region: FtsX; cl15850 455488011122 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 455488011123 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 455488011124 Catalytic site [active] 455488011125 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 455488011126 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK03180 455488011127 Adenylation domain of archaeal and bacterial LigB-like DNA ligases; Region: Adenylation_DNA_ligase_Arch_LigB; cd07901 455488011128 active site 455488011129 DNA binding site [nucleotide binding] 455488011130 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 455488011131 DNA binding site [nucleotide binding] 455488011132 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; cd00518 455488011133 nickel binding site [ion binding]; other site 455488011134 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 455488011135 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 455488011136 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 455488011137 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 455488011138 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 455488011139 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 455488011140 4Fe-4S binding domain; Region: Fer4; cl02805 455488011141 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 455488011142 CPxP motif; other site 455488011143 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 455488011144 active site 455488011145 phosphorylation site [posttranslational modification] 455488011146 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 455488011147 30S subunit binding site; other site 455488011148 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 455488011149 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 455488011150 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 455488011151 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 455488011152 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 455488011153 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 455488011154 Walker A/P-loop; other site 455488011155 ATP binding site [chemical binding]; other site 455488011156 Q-loop/lid; other site 455488011157 ABC transporter signature motif; other site 455488011158 Walker B; other site 455488011159 D-loop; other site 455488011160 H-loop/switch region; other site 455488011161 OstA-like protein; Region: OstA; cl00844 455488011162 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 455488011163 putative acyl-acceptor binding pocket; other site 455488011164 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 455488011165 NeuB family; Region: NeuB; cl00496 455488011166 CTP synthetase; Validated; Region: pyrG; PRK05380 455488011167 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 455488011168 Catalytic site [active] 455488011169 active site 455488011170 UTP binding site [chemical binding]; other site 455488011171 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 455488011172 active site 455488011173 putative oxyanion hole; other site 455488011174 catalytic triad [active] 455488011175 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 455488011176 Ligand binding site; other site 455488011177 oligomer interface; other site 455488011178 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 455488011179 active site 455488011180 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 455488011181 homodimer interface [polypeptide binding]; other site 455488011182 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 455488011183 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 455488011184 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 455488011185 active site 455488011186 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 455488011187 GTPase CgtA; Reviewed; Region: obgE; PRK12299 455488011188 GTP1/OBG; Region: GTP1_OBG; pfam01018 455488011189 Obg GTPase; Region: Obg; cd01898 455488011190 G1 box; other site 455488011191 GTP/Mg2+ binding site [chemical binding]; other site 455488011192 Switch I region; other site 455488011193 G2 box; other site 455488011194 G3 box; other site 455488011195 Switch II region; other site 455488011196 G4 box; other site 455488011197 G5 box; other site 455488011198 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 455488011199 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 455488011200 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 455488011201 Ion channel; Region: Ion_trans_2; cl11596 455488011202 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 455488011203 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 455488011204 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 455488011205 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 455488011206 GatB domain; Region: GatB_Yqey; cl11497 455488011207 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 455488011208 Amidase; Region: Amidase; cl11426 455488011209 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 455488011210 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 455488011211 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 455488011212 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488011213 TPR motif; other site 455488011214 TPR repeat; Region: TPR_11; pfam13414 455488011215 binding surface 455488011216 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 455488011217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011218 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 455488011219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011220 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 455488011221 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455488011222 ligand binding site [chemical binding]; other site 455488011223 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 455488011224 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 455488011225 Yip1 domain; Region: Yip1; cl12048 455488011226 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 455488011227 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 455488011228 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 455488011229 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 455488011230 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 455488011231 SLBB domain; Region: SLBB; pfam10531 455488011232 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 455488011233 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 455488011234 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 455488011235 putative dimer interface [polypeptide binding]; other site 455488011236 [2Fe-2S] cluster binding site [ion binding]; other site 455488011237 PilZ domain; Region: PilZ; cl01260 455488011238 Response regulator receiver domain; Region: Response_reg; pfam00072 455488011239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011240 active site 455488011241 phosphorylation site [posttranslational modification] 455488011242 intermolecular recognition site; other site 455488011243 dimerization interface [polypeptide binding]; other site 455488011244 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488011245 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455488011246 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 455488011247 IHF - DNA interface [nucleotide binding]; other site 455488011248 IHF dimer interface [polypeptide binding]; other site 455488011249 PilZ domain; Region: PilZ; cl01260 455488011250 amidophosphoribosyltransferase; Provisional; Region: PRK09123 455488011251 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 455488011252 active site 455488011253 tetramer interface [polypeptide binding]; other site 455488011254 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 455488011255 active site 455488011256 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 455488011257 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 455488011258 active site 455488011259 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 455488011260 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 455488011261 PilZ domain; Region: PilZ; cl01260 455488011262 PilZ domain; Region: PilZ; cl01260 455488011263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011264 active site 455488011265 phosphorylation site [posttranslational modification] 455488011266 intermolecular recognition site; other site 455488011267 dimerization interface [polypeptide binding]; other site 455488011268 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 455488011269 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 455488011270 dimerization interface [polypeptide binding]; other site 455488011271 ATP binding site [chemical binding]; other site 455488011272 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 455488011273 dimerization interface [polypeptide binding]; other site 455488011274 ATP binding site [chemical binding]; other site 455488011275 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 455488011276 DNA helicase, putative; Region: TIGR00376 455488011277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011278 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011279 Family description; Region: UvrD_C_2; cl15862 455488011280 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455488011281 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011282 dimer interface [polypeptide binding]; other site 455488011283 phosphorylation site [posttranslational modification] 455488011284 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011285 ATP binding site [chemical binding]; other site 455488011286 Mg2+ binding site [ion binding]; other site 455488011287 G-X-G motif; other site 455488011288 Response regulator receiver domain; Region: Response_reg; pfam00072 455488011289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011290 active site 455488011291 phosphorylation site [posttranslational modification] 455488011292 intermolecular recognition site; other site 455488011293 dimerization interface [polypeptide binding]; other site 455488011294 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 455488011295 active site 455488011296 Smr domain; Region: Smr; cl02619 455488011297 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 455488011298 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 455488011299 30S subunit binding site; other site 455488011300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011301 active site 455488011302 phosphorylation site [posttranslational modification] 455488011303 intermolecular recognition site; other site 455488011304 dimerization interface [polypeptide binding]; other site 455488011305 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 455488011306 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011307 dimer interface [polypeptide binding]; other site 455488011308 phosphorylation site [posttranslational modification] 455488011309 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011310 ATP binding site [chemical binding]; other site 455488011311 G-X-G motif; other site 455488011312 Response regulator receiver domain; Region: Response_reg; pfam00072 455488011313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011314 active site 455488011315 phosphorylation site [posttranslational modification] 455488011316 intermolecular recognition site; other site 455488011317 dimerization interface [polypeptide binding]; other site 455488011318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011319 ATP binding site [chemical binding]; other site 455488011320 Mg2+ binding site [ion binding]; other site 455488011321 G-X-G motif; other site 455488011322 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 455488011323 dimerization interface [polypeptide binding]; other site 455488011324 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011325 phosphorylation site [posttranslational modification] 455488011326 dimer interface [polypeptide binding]; other site 455488011327 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011328 ATP binding site [chemical binding]; other site 455488011329 Mg2+ binding site [ion binding]; other site 455488011330 G-X-G motif; other site 455488011331 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 455488011332 Phosphate transporter family; Region: PHO4; cl00396 455488011333 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14470 455488011334 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 455488011335 FeS/SAM binding site; other site 455488011336 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 455488011337 active site 455488011338 DNA binding site [nucleotide binding] 455488011339 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 455488011340 pyruvate kinase; Provisional; Region: PRK05826 455488011341 domain interfaces; other site 455488011342 active site 455488011343 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 455488011344 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 455488011345 active site 455488011346 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 455488011347 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455488011348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 455488011349 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488011350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011351 active site 455488011352 phosphorylation site [posttranslational modification] 455488011353 intermolecular recognition site; other site 455488011354 dimerization interface [polypeptide binding]; other site 455488011355 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 455488011356 Walker A motif; other site 455488011357 ATP binding site [chemical binding]; other site 455488011358 Walker B motif; other site 455488011359 arginine finger; other site 455488011360 Helix-turn-helix domains; Region: HTH; cl00088 455488011361 FtsH Extracellular; Region: FtsH_ext; pfam06480 455488011362 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 455488011363 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 455488011364 Walker A motif; other site 455488011365 ATP binding site [chemical binding]; other site 455488011366 Walker B motif; other site 455488011367 arginine finger; other site 455488011368 Peptidase family M41; Region: Peptidase_M41; pfam01434 455488011369 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 455488011370 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 455488011371 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 455488011372 putative active site [active] 455488011373 catalytic site [active] 455488011374 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 455488011375 putative active site [active] 455488011376 catalytic site [active] 455488011377 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 455488011378 GDYXXLXY protein; Region: GDYXXLXY; cl02066 455488011379 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 455488011380 dimerization interface [polypeptide binding]; other site 455488011381 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011382 dimer interface [polypeptide binding]; other site 455488011383 phosphorylation site [posttranslational modification] 455488011384 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011385 ATP binding site [chemical binding]; other site 455488011386 Mg2+ binding site [ion binding]; other site 455488011387 G-X-G motif; other site 455488011388 triacylglycerol lipase; Region: PLN02872 455488011389 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 455488011390 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488011391 Nitrogen regulatory protein P-II; Region: P-II; cl00412 455488011392 Nitrogen regulatory protein P-II; Region: P-II; smart00938 455488011393 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 455488011394 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011395 dimer interface [polypeptide binding]; other site 455488011396 phosphorylation site [posttranslational modification] 455488011397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011398 ATP binding site [chemical binding]; other site 455488011399 Mg2+ binding site [ion binding]; other site 455488011400 G-X-G motif; other site 455488011401 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455488011402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011403 active site 455488011404 phosphorylation site [posttranslational modification] 455488011405 intermolecular recognition site; other site 455488011406 dimerization interface [polypeptide binding]; other site 455488011407 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 455488011408 Walker A motif; other site 455488011409 ATP binding site [chemical binding]; other site 455488011410 Walker B motif; other site 455488011411 arginine finger; other site 455488011412 Helix-turn-helix domains; Region: HTH; cl00088 455488011413 glutamine synthetase, type I; Region: GlnA; TIGR00653 455488011414 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 455488011415 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 455488011416 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 455488011417 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 455488011418 Major Facilitator Superfamily; Region: MFS_1; pfam07690 455488011419 putative substrate translocation pore; other site 455488011420 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 455488011421 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 455488011422 Walker A/P-loop; other site 455488011423 ATP binding site [chemical binding]; other site 455488011424 Q-loop/lid; other site 455488011425 ABC transporter signature motif; other site 455488011426 Walker B; other site 455488011427 D-loop; other site 455488011428 H-loop/switch region; other site 455488011429 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 455488011430 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 455488011431 Walker A/P-loop; other site 455488011432 ATP binding site [chemical binding]; other site 455488011433 Q-loop/lid; other site 455488011434 ABC transporter signature motif; other site 455488011435 Walker B; other site 455488011436 D-loop; other site 455488011437 H-loop/switch region; other site 455488011438 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 455488011439 TM-ABC transporter signature motif; other site 455488011440 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 455488011441 TM-ABC transporter signature motif; other site 455488011442 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 455488011443 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 455488011444 putative ligand binding site [chemical binding]; other site 455488011445 Response regulator receiver domain; Region: Response_reg; pfam00072 455488011446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011447 active site 455488011448 phosphorylation site [posttranslational modification] 455488011449 intermolecular recognition site; other site 455488011450 dimerization interface [polypeptide binding]; other site 455488011451 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 455488011452 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455488011453 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 455488011454 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 455488011455 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 455488011456 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 455488011457 MoxR-like ATPases [General function prediction only]; Region: COG0714 455488011458 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 455488011459 Walker A motif; other site 455488011460 ATP binding site [chemical binding]; other site 455488011461 Walker B motif; other site 455488011462 arginine finger; other site 455488011463 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 455488011464 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 455488011465 TPR motif; other site 455488011466 binding surface 455488011467 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 455488011468 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 455488011469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455488011470 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 455488011471 DNA binding residues [nucleotide binding] 455488011472 tyrosine kinase; Provisional; Region: PRK11519 455488011473 Chain length determinant protein; Region: Wzz; cl15801 455488011474 Chain length determinant protein; Region: Wzz; cl15801 455488011475 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 455488011476 P loop; other site 455488011477 Nucleotide binding site [chemical binding]; other site 455488011478 DTAP/Switch II; other site 455488011479 Switch I; other site 455488011480 polysaccharide export protein Wza; Provisional; Region: PRK15078 455488011481 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 455488011482 Low molecular weight phosphatase family; Region: LMWPc; cd00115 455488011483 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 455488011484 active site 455488011485 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 455488011486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488011487 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 455488011488 NAD(P) binding site [chemical binding]; other site 455488011489 homodimer interface [polypeptide binding]; other site 455488011490 substrate binding site [chemical binding]; other site 455488011491 active site 455488011492 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 455488011493 putative trimer interface [polypeptide binding]; other site 455488011494 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 455488011495 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 455488011496 Mg++ binding site [ion binding]; other site 455488011497 putative catalytic motif [active] 455488011498 putative substrate binding site [chemical binding]; other site 455488011499 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 455488011500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488011501 NAD(P) binding site [chemical binding]; other site 455488011502 active site 455488011503 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 455488011504 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 455488011505 putative NAD(P) binding site [chemical binding]; other site 455488011506 active site 455488011507 putative substrate binding site [chemical binding]; other site 455488011508 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 455488011509 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 455488011510 putative ADP-binding pocket [chemical binding]; other site 455488011511 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 455488011512 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 455488011513 putative ADP-binding pocket [chemical binding]; other site 455488011514 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 455488011515 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 455488011516 putative ADP-binding pocket [chemical binding]; other site 455488011517 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 455488011518 MatE; Region: MatE; cl10513 455488011519 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 455488011520 MatE; Region: MatE; cl10513 455488011521 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 455488011522 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 455488011523 NAD binding site [chemical binding]; other site 455488011524 substrate binding site [chemical binding]; other site 455488011525 homodimer interface [polypeptide binding]; other site 455488011526 active site 455488011527 Cupin domain; Region: Cupin_2; cl09118 455488011528 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 455488011529 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 455488011530 substrate binding site; other site 455488011531 tetramer interface; other site 455488011532 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 455488011533 NADP binding site [chemical binding]; other site 455488011534 active site 455488011535 putative substrate binding site [chemical binding]; other site 455488011536 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 455488011537 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 455488011538 NADP binding site [chemical binding]; other site 455488011539 active site 455488011540 putative substrate binding site [chemical binding]; other site 455488011541 GDP-mannose 4,6-dehydratase; Region: PLN02653 455488011542 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 455488011543 NADP-binding site; other site 455488011544 homotetramer interface [polypeptide binding]; other site 455488011545 substrate binding site [chemical binding]; other site 455488011546 homodimer interface [polypeptide binding]; other site 455488011547 active site 455488011548 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 455488011549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488011550 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 455488011551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488011552 Domain of unknown function (DUF222); Region: DUF222; pfam02720 455488011553 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 455488011554 active site 455488011555 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 455488011556 Ligand binding site; other site 455488011557 Putative Catalytic site; other site 455488011558 DXD motif; other site 455488011559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488011560 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 455488011561 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 455488011562 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 455488011563 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 455488011564 active site 455488011565 homodimer interface [polypeptide binding]; other site 455488011566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488011567 TIGR01777 family protein; Region: yfcH 455488011568 NAD(P) binding site [chemical binding]; other site 455488011569 active site 455488011570 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]; Region: eRF1; COG1503 455488011571 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 455488011572 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 455488011573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455488011574 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 455488011575 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 455488011576 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 455488011577 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 455488011578 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 455488011579 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 455488011580 PAS domain; Region: PAS_9; pfam13426 455488011581 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 455488011582 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011583 dimer interface [polypeptide binding]; other site 455488011584 phosphorylation site [posttranslational modification] 455488011585 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011586 ATP binding site [chemical binding]; other site 455488011587 Mg2+ binding site [ion binding]; other site 455488011588 G-X-G motif; other site 455488011589 Protein of unknown function DUF111; Region: DUF111; cl03398 455488011590 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 455488011591 AIR carboxylase; Region: AIRC; cl00310 455488011592 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 455488011593 Chemotaxis phosphatase CheX; Region: CheX; cl15816 455488011594 Chemotaxis phosphatase CheX; Region: CheX; cl15816 455488011595 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 455488011596 putative binding surface; other site 455488011597 active site 455488011598 P2 response regulator binding domain; Region: P2; pfam07194 455488011599 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 455488011600 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011601 ATP binding site [chemical binding]; other site 455488011602 Mg2+ binding site [ion binding]; other site 455488011603 G-X-G motif; other site 455488011604 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 455488011605 Response regulator receiver domain; Region: Response_reg; pfam00072 455488011606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 455488011607 active site 455488011608 phosphorylation site [posttranslational modification] 455488011609 intermolecular recognition site; other site 455488011610 dimerization interface [polypeptide binding]; other site 455488011611 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 455488011612 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 455488011613 dimerization interface [polypeptide binding]; other site 455488011614 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455488011615 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 455488011616 dimer interface [polypeptide binding]; other site 455488011617 putative CheW interface [polypeptide binding]; other site 455488011618 thiamine monophosphate kinase; Provisional; Region: PRK05731 455488011619 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 455488011620 ATP binding site [chemical binding]; other site 455488011621 dimerization interface [polypeptide binding]; other site 455488011622 Sensory domain found in PocR; Region: PocR; pfam10114 455488011623 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 455488011624 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 455488011625 dimer interface [polypeptide binding]; other site 455488011626 phosphorylation site [posttranslational modification] 455488011627 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 455488011628 ATP binding site [chemical binding]; other site 455488011629 Mg2+ binding site [ion binding]; other site 455488011630 G-X-G motif; other site 455488011631 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 455488011632 G1 box; other site 455488011633 GTP/Mg2+ binding site [chemical binding]; other site 455488011634 G2 box; other site 455488011635 Switch I region; other site 455488011636 G3 box; other site 455488011637 Switch II region; other site 455488011638 G4 box; other site 455488011639 G5 box; other site 455488011640 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 455488011641 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011642 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 455488011643 active site 455488011644 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 455488011645 putative substrate binding region [chemical binding]; other site 455488011646 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 455488011647 putative ligand binding site [chemical binding]; other site 455488011648 chaperone protein DnaJ; Provisional; Region: PRK10767 455488011649 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 455488011650 HSP70 interaction site [polypeptide binding]; other site 455488011651 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 455488011652 Zn binding sites [ion binding]; other site 455488011653 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 455488011654 dimer interface [polypeptide binding]; other site 455488011655 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455488011656 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 455488011657 dimer interface [polypeptide binding]; other site 455488011658 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 455488011659 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 455488011660 HrcA protein C terminal domain; Region: HrcA; pfam01628 455488011661 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 455488011662 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 455488011663 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 455488011664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011665 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 455488011666 nucleotide binding region [chemical binding]; other site 455488011667 ATP-binding site [chemical binding]; other site 455488011668 TRCF domain; Region: TRCF; cl04088 455488011669 SurA N-terminal domain; Region: SurA_N_3; cl07813 455488011670 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 455488011671 PPIC-type PPIASE domain; Region: Rotamase; cl08278 455488011672 PPIC-type PPIASE domain; Region: Rotamase; cl08278 455488011673 SurA N-terminal domain; Region: SurA_N_3; cl07813 455488011674 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 455488011675 PPIC-type PPIASE domain; Region: Rotamase; cl08278 455488011676 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 455488011677 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 455488011678 GTP-binding protein YchF; Reviewed; Region: PRK09601 455488011679 YchF GTPase; Region: YchF; cd01900 455488011680 G1 box; other site 455488011681 GTP/Mg2+ binding site [chemical binding]; other site 455488011682 Switch I region; other site 455488011683 G2 box; other site 455488011684 Switch II region; other site 455488011685 G3 box; other site 455488011686 G4 box; other site 455488011687 G5 box; other site 455488011688 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 455488011689 Plant ATP synthase F0; Region: YMF19; cl07975 455488011690 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 455488011691 ATP synthase subunit C; Region: ATP-synt_C; cl00466 455488011692 ATP synthase A chain; Region: ATP-synt_A; cl00413 455488011693 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 455488011694 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 455488011695 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 455488011696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455488011697 catalytic residue [active] 455488011698 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 455488011699 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 455488011700 inhibitor-cofactor binding pocket; inhibition site 455488011701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455488011702 catalytic residue [active] 455488011703 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455488011704 DNA gyrase subunit A; Validated; Region: PRK05560 455488011705 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 455488011706 CAP-like domain; other site 455488011707 active site 455488011708 primary dimer interface [polypeptide binding]; other site 455488011709 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455488011710 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455488011711 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455488011712 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455488011713 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455488011714 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 455488011715 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 455488011716 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 455488011717 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 455488011718 alpha subunit interaction interface [polypeptide binding]; other site 455488011719 Walker A motif; other site 455488011720 ATP binding site [chemical binding]; other site 455488011721 Walker B motif; other site 455488011722 inhibitor binding site; inhibition site 455488011723 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 455488011724 ATP synthase; Region: ATP-synt; cl00365 455488011725 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 455488011726 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 455488011727 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 455488011728 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 455488011729 beta subunit interaction interface [polypeptide binding]; other site 455488011730 Walker A motif; other site 455488011731 ATP binding site [chemical binding]; other site 455488011732 Walker B motif; other site 455488011733 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 455488011734 Plant ATP synthase F0; Region: YMF19; cl07975 455488011735 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 455488011736 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 455488011737 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 455488011738 putative dimer interface [polypeptide binding]; other site 455488011739 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 455488011740 ParB-like partition proteins; Region: parB_part; TIGR00180 455488011741 ParB-like nuclease domain; Region: ParBc; cl02129 455488011742 KorB domain; Region: KorB; pfam08535 455488011743 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 455488011744 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 455488011745 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 455488011746 Magnesium ion binding site [ion binding]; other site 455488011747 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; cl15754 455488011748 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 455488011749 G-X-X-G motif; other site 455488011750 R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich...; Region: R3H; cl00297 455488011751 RxxxH motif; other site 455488011752 membrane protein insertase; Provisional; Region: PRK01318 455488011753 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 455488011754 Haemolytic domain; Region: Haemolytic; cl00506 455488011755 Ribonuclease P; Region: Ribonuclease_P; cl00457 455488011756 Ribosomal protein L34; Region: Ribosomal_L34; cl00370