-- dump date 20120504_160400 -- class Genbank::misc_feature -- table misc_feature_note -- id note 414684000001 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684000002 Phenylacetic acid-responsive transcriptional repressor [Transcription]; Region: PaaX; COG3327 414684000003 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 414684000004 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 414684000005 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684000006 active site 414684000007 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 414684000008 Helix-turn-helix domains; Region: HTH; cl00088 414684000009 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 414684000010 putative dimerization interface [polypeptide binding]; other site 414684000011 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 414684000012 gating phenylalanine in ion channel; other site 414684000013 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 414684000014 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 414684000015 YCII-related domain; Region: YCII; cl00999 414684000016 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 414684000017 Protein of unknown function (DUF421); Region: DUF421; cl00990 414684000018 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 414684000019 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 414684000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000021 Walker A/P-loop; other site 414684000022 ATP binding site [chemical binding]; other site 414684000023 Q-loop/lid; other site 414684000024 ABC transporter signature motif; other site 414684000025 Walker B; other site 414684000026 D-loop; other site 414684000027 H-loop/switch region; other site 414684000028 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684000029 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000030 putative active site [active] 414684000031 putative metal binding site [ion binding]; other site 414684000032 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000033 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684000034 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 414684000035 N-terminal plug; other site 414684000036 ligand-binding site [chemical binding]; other site 414684000037 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 414684000038 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 414684000039 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 414684000040 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 414684000041 GatB domain; Region: GatB_Yqey; cl11497 414684000042 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 414684000043 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 414684000044 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 414684000045 catalytic residues [active] 414684000046 catalytic nucleophile [active] 414684000047 Recombinase; Region: Recombinase; pfam07508 414684000048 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 414684000049 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 414684000050 non-specific DNA binding site [nucleotide binding]; other site 414684000051 salt bridge; other site 414684000052 sequence-specific DNA binding site [nucleotide binding]; other site 414684000053 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 414684000054 Domain of unknown function (DUF955); Region: DUF955; cl01076 414684000055 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 414684000056 AAA domain; Region: AAA_24; pfam13479 414684000057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000058 Walker A/P-loop; other site 414684000059 ATP binding site [chemical binding]; other site 414684000060 Q-loop/lid; other site 414684000061 ABC transporter signature motif; other site 414684000062 Walker B; other site 414684000063 D-loop; other site 414684000064 H-loop/switch region; other site 414684000065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000066 Family description; Region: UvrD_C_2; cl15862 414684000067 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 414684000068 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 414684000069 Virulence-associated protein E; Region: VirE; pfam05272 414684000070 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 414684000071 ParB-like nuclease domain; Region: ParBc; cl02129 414684000072 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 414684000073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000074 ParB-like nuclease domain; Region: ParBc; cl02129 414684000075 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 414684000076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000077 site-specific DNA methylase, pseudogene;Disrupted reading frame; identified by match to protein family HMM PF00145 414684000078 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 414684000079 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 414684000080 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 414684000081 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 414684000082 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 414684000083 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 414684000084 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 414684000085 amidase catalytic site [active] 414684000086 Zn binding residues [ion binding]; other site 414684000087 substrate binding site [chemical binding]; other site 414684000088 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 414684000089 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 414684000090 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 414684000091 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 414684000092 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684000093 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 414684000094 Putative phage tail protein; Region: Phage-tail_3; pfam13550 414684000095 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 414684000096 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 414684000097 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 414684000098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000100 Virulence protein [General function prediction only]; Region: COG3943 414684000101 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 414684000102 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 414684000103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000105 AIPR protein; Region: AIPR; pfam10592 414684000106 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 414684000107 ATP binding site [chemical binding]; other site 414684000108 putative Mg++ binding site [ion binding]; other site 414684000109 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 414684000110 nucleotide binding region [chemical binding]; other site 414684000111 ATP-dependent helicase HepA; Validated; Region: PRK04914 414684000112 ATP-binding site [chemical binding]; other site 414684000113 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 414684000114 putative active site [active] 414684000115 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 414684000116 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 414684000117 dimer interface [polypeptide binding]; other site 414684000118 putative functional site; other site 414684000119 putative MPT binding site; other site 414684000120 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 414684000121 trimer interface [polypeptide binding]; other site 414684000122 dimer interface [polypeptide binding]; other site 414684000123 putative active site [active] 414684000124 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 414684000125 active site 414684000126 ribulose/triose binding site [chemical binding]; other site 414684000127 phosphate binding site [ion binding]; other site 414684000128 substrate (anthranilate) binding pocket [chemical binding]; other site 414684000129 product (indole) binding pocket [chemical binding]; other site 414684000130 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 414684000131 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 414684000132 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 414684000133 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 414684000134 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 414684000135 glutamine binding [chemical binding]; other site 414684000136 catalytic triad [active] 414684000137 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 414684000138 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 414684000139 DNA binding residues [nucleotide binding] 414684000140 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 414684000141 NodB motif; other site 414684000142 putative active site [active] 414684000143 putative catalytic site [active] 414684000144 Zn binding site [ion binding]; other site 414684000145 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 414684000146 metal-binding site [ion binding] 414684000147 anthranilate synthase component I; Provisional; Region: PRK13573 414684000148 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 414684000149 chorismate binding enzyme; Region: Chorismate_bind; cl10555 414684000150 SurA N-terminal domain; Region: SurA_N_3; cl07813 414684000151 PPIC-type PPIASE domain; Region: Rotamase; cl08278 414684000152 PPIC-type PPIASE domain; Region: Rotamase; cl08278 414684000153 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 414684000154 substrate binding site [chemical binding]; other site 414684000155 dimer interface [polypeptide binding]; other site 414684000156 catalytic triad [active] 414684000157 Preprotein translocase SecG subunit; Region: SecG; cl09123 414684000158 CTP synthetase; Validated; Region: pyrG; PRK05380 414684000159 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 414684000160 Catalytic site [active] 414684000161 active site 414684000162 UTP binding site [chemical binding]; other site 414684000163 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 414684000164 active site 414684000165 putative oxyanion hole; other site 414684000166 catalytic triad [active] 414684000167 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 414684000168 NeuB family; Region: NeuB; cl00496 414684000169 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 414684000170 putative acyl-acceptor binding pocket; other site 414684000171 enolase; Provisional; Region: eno; PRK00077 414684000172 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 414684000173 dimer interface [polypeptide binding]; other site 414684000174 metal binding site [ion binding]; metal-binding site 414684000175 substrate binding pocket [chemical binding]; other site 414684000176 Septum formation initiator; Region: DivIC; cl11433 414684000177 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 414684000178 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 414684000179 tetramer interface [polypeptide binding]; other site 414684000180 TPP-binding site [chemical binding]; other site 414684000181 heterodimer interface [polypeptide binding]; other site 414684000182 phosphorylation loop region [posttranslational modification] 414684000183 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 414684000184 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 414684000185 E3 interaction surface; other site 414684000186 lipoyl attachment site [posttranslational modification]; other site 414684000187 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 414684000188 alpha subunit interface [polypeptide binding]; other site 414684000189 TPP binding site [chemical binding]; other site 414684000190 heterodimer interface [polypeptide binding]; other site 414684000191 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684000192 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 414684000193 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 414684000194 E3 interaction surface; other site 414684000195 lipoyl attachment site [posttranslational modification]; other site 414684000196 e3 binding domain; Region: E3_binding; pfam02817 414684000197 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 414684000198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000199 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 414684000200 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684000201 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684000202 lipoyl synthase; Provisional; Region: PRK05481 414684000203 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 414684000204 putative coenzyme Q binding site [chemical binding]; other site 414684000205 Competence-damaged protein; Region: CinA; cl00666 414684000206 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 414684000207 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 414684000208 substrate binding site; other site 414684000209 dimer interface; other site 414684000210 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 414684000211 homotrimer interaction site [polypeptide binding]; other site 414684000212 zinc binding site [ion binding]; other site 414684000213 CDP-binding sites; other site 414684000214 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 414684000215 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 414684000216 FMN binding site [chemical binding]; other site 414684000217 active site 414684000218 catalytic residues [active] 414684000219 substrate binding site [chemical binding]; other site 414684000220 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 414684000221 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 414684000222 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684000223 dimer interface [polypeptide binding]; other site 414684000224 phosphorylation site [posttranslational modification] 414684000225 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000226 ATP binding site [chemical binding]; other site 414684000227 Mg2+ binding site [ion binding]; other site 414684000228 G-X-G motif; other site 414684000229 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 414684000230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000231 active site 414684000232 phosphorylation site [posttranslational modification] 414684000233 intermolecular recognition site; other site 414684000234 dimerization interface [polypeptide binding]; other site 414684000235 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 414684000236 Walker A motif; other site 414684000237 ATP binding site [chemical binding]; other site 414684000238 Walker B motif; other site 414684000239 arginine finger; other site 414684000240 Helix-turn-helix domains; Region: HTH; cl00088 414684000241 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 414684000242 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 414684000243 dimerization interface [polypeptide binding]; other site 414684000244 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684000245 dimer interface [polypeptide binding]; other site 414684000246 phosphorylation site [posttranslational modification] 414684000247 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000248 ATP binding site [chemical binding]; other site 414684000249 Mg2+ binding site [ion binding]; other site 414684000250 G-X-G motif; other site 414684000251 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 414684000252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000253 active site 414684000254 phosphorylation site [posttranslational modification] 414684000255 intermolecular recognition site; other site 414684000256 dimerization interface [polypeptide binding]; other site 414684000257 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 414684000258 Walker A motif; other site 414684000259 ATP binding site [chemical binding]; other site 414684000260 Walker B motif; other site 414684000261 arginine finger; other site 414684000262 Helix-turn-helix domains; Region: HTH; cl00088 414684000263 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 414684000264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000265 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 414684000266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000267 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 414684000268 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 414684000269 homodimer interface [polypeptide binding]; other site 414684000270 substrate-cofactor binding pocket; other site 414684000271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684000272 catalytic residue [active] 414684000273 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 414684000274 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 414684000275 motif II; other site 414684000276 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 414684000277 Sm1 motif; other site 414684000278 intra - hexamer interaction site; other site 414684000279 inter - hexamer interaction site [polypeptide binding]; other site 414684000280 nucleotide binding pocket [chemical binding]; other site 414684000281 Sm2 motif; other site 414684000282 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 414684000283 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 414684000284 HflX GTPase family; Region: HflX; cd01878 414684000285 G1 box; other site 414684000286 GTP/Mg2+ binding site [chemical binding]; other site 414684000287 Switch I region; other site 414684000288 G2 box; other site 414684000289 G3 box; other site 414684000290 Switch II region; other site 414684000291 G4 box; other site 414684000292 G5 box; other site 414684000293 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 414684000294 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 414684000295 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 414684000296 putative active site [active] 414684000297 putative substrate binding site [chemical binding]; other site 414684000298 putative cosubstrate binding site; other site 414684000299 catalytic site [active] 414684000300 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 414684000301 active site 414684000302 putative lithium-binding site [ion binding]; other site 414684000303 substrate binding site [chemical binding]; other site 414684000304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000305 NAD(P) binding site [chemical binding]; other site 414684000306 active site 414684000307 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 414684000308 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 414684000309 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 414684000310 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 414684000311 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684000312 DNA binding residues [nucleotide binding] 414684000313 dimer interface [polypeptide binding]; other site 414684000314 Cation efflux family; Region: Cation_efflux; cl00316 414684000315 acyl-coenzyme A oxidase; Region: PLN02526 414684000316 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 414684000317 FAD binding site [chemical binding]; other site 414684000318 substrate binding pocket [chemical binding]; other site 414684000319 catalytic base [active] 414684000320 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 414684000321 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 414684000322 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684000323 Helix-turn-helix domains; Region: HTH; cl00088 414684000324 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 414684000325 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 414684000326 AMP-binding enzyme; Region: AMP-binding; cl15778 414684000327 YdjC-like protein; Region: YdjC; cl01344 414684000328 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 414684000329 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 414684000330 Ligand binding site; other site 414684000331 Putative Catalytic site; other site 414684000332 DXD motif; other site 414684000333 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 414684000334 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 414684000335 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 414684000336 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 414684000337 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 414684000338 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 414684000339 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 414684000340 active site 414684000341 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 414684000342 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 414684000343 S-adenosylmethionine binding site [chemical binding]; other site 414684000344 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 414684000345 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 414684000346 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 414684000347 Amidase; Region: Amidase; cl11426 414684000348 Spore Coat Protein U domain; Region: SCPU; cl02253 414684000349 Spore Coat Protein U domain; Region: SCPU; cl02253 414684000350 Response regulator receiver domain; Region: Response_reg; pfam00072 414684000351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000352 active site 414684000353 phosphorylation site [posttranslational modification] 414684000354 intermolecular recognition site; other site 414684000355 dimerization interface [polypeptide binding]; other site 414684000356 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 414684000357 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684000358 Walker A motif; other site 414684000359 ATP binding site [chemical binding]; other site 414684000360 Walker B motif; other site 414684000361 arginine finger; other site 414684000362 Helix-turn-helix domains; Region: HTH; cl00088 414684000363 ParA-like protein; Provisional; Region: PHA02518 414684000364 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 414684000365 P-loop; other site 414684000366 Magnesium ion binding site [ion binding]; other site 414684000367 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 414684000368 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 414684000369 putative ADP-binding pocket [chemical binding]; other site 414684000370 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 414684000371 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 414684000372 Substrate binding site; other site 414684000373 Cupin domain; Region: Cupin_2; cl09118 414684000374 Helix-turn-helix domains; Region: HTH; cl00088 414684000375 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 414684000376 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 414684000377 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 414684000378 FliG C-terminal domain; Region: FliG_C; pfam01706 414684000379 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 414684000380 FliP family; Region: FliP; cl00593 414684000381 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684000382 flagellar assembly protein H; Validated; Region: fliH; PRK06032 414684000383 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 414684000384 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 414684000385 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 414684000386 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 414684000387 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 414684000388 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684000389 MgtE intracellular N domain; Region: MgtE_N; cl15244 414684000390 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 414684000391 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 414684000392 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 414684000393 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 414684000394 FHIPEP family; Region: FHIPEP; pfam00771 414684000395 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 414684000396 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 414684000397 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 414684000398 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684000399 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684000400 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 414684000401 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684000402 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 414684000403 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 414684000404 Walker A motif/ATP binding site; other site 414684000405 Walker B motif; other site 414684000406 Phosphate transporter family; Region: PHO4; cl00396 414684000407 Phosphate transporter family; Region: PHO4; cl00396 414684000408 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 414684000409 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 414684000410 Flagellar protein FlbT; Region: FlbT; cl11455 414684000411 Flagellar protein FlaF; Region: FlaF; cl11454 414684000412 flagellin; Reviewed; Region: PRK12687 414684000413 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684000414 Rod binding protein; Region: Rod-binding; cl01626 414684000415 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 414684000416 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 414684000417 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684000418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000419 active site 414684000420 phosphorylation site [posttranslational modification] 414684000421 intermolecular recognition site; other site 414684000422 dimerization interface [polypeptide binding]; other site 414684000423 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 414684000424 DNA binding site [nucleotide binding] 414684000425 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 414684000426 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684000427 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 414684000428 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 414684000429 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 414684000430 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684000431 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 414684000432 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684000433 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 414684000434 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684000435 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684000436 ligand binding site [chemical binding]; other site 414684000437 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684000438 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 414684000439 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684000440 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 414684000441 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684000442 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684000443 SAF domain; Region: SAF; cl00555 414684000444 Flagellar L-ring protein; Region: FlgH; cl00905 414684000445 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 414684000446 Predicted transcriptional regulator [Transcription]; Region: COG2932 414684000447 non-specific DNA binding site [nucleotide binding]; other site 414684000448 salt bridge; other site 414684000449 sequence-specific DNA binding site [nucleotide binding]; other site 414684000450 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 414684000451 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 414684000452 FlgD Ig-like domain; Region: FlgD_ig; cl15790 414684000453 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 414684000454 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 414684000455 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684000456 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684000457 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 414684000458 intersubunit interface [polypeptide binding]; other site 414684000459 active site 414684000460 Zn2+ binding site [ion binding]; other site 414684000461 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 414684000462 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 414684000463 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 414684000464 active site 414684000465 catalytic site [active] 414684000466 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 414684000467 active site 414684000468 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 414684000469 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 414684000470 putative acyl-acceptor binding pocket; other site 414684000471 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684000472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000473 NAD(P) binding site [chemical binding]; other site 414684000474 active site 414684000475 Methyltransferase domain; Region: Methyltransf_31; pfam13847 414684000476 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 414684000477 S-adenosylmethionine binding site [chemical binding]; other site 414684000478 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 414684000479 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684000480 PYR/PP interface [polypeptide binding]; other site 414684000481 dimer interface [polypeptide binding]; other site 414684000482 TPP binding site [chemical binding]; other site 414684000483 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 414684000484 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 414684000485 TPP-binding site [chemical binding]; other site 414684000486 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 414684000487 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: APH; cd05150 414684000488 Phosphotransferase enzyme family; Region: APH; pfam01636 414684000489 active site 414684000490 ATP binding site [chemical binding]; other site 414684000491 antibiotic binding site [chemical binding]; other site 414684000492 Helix-turn-helix domains; Region: HTH; cl00088 414684000493 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 414684000494 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 414684000495 putative dimerization interface [polypeptide binding]; other site 414684000496 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 414684000497 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 414684000498 dimer interface [polypeptide binding]; other site 414684000499 catalytic residue [active] 414684000500 metal binding site [ion binding]; metal-binding site 414684000501 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 414684000502 multimerization interface [polypeptide binding]; other site 414684000503 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 414684000504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000505 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 414684000506 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 414684000507 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 414684000508 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 414684000509 PhoD-like phosphatase; Region: PhoD; pfam09423 414684000510 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000511 putative active site [active] 414684000512 putative metal binding site [ion binding]; other site 414684000513 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000514 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 414684000515 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 414684000516 ligand binding site [chemical binding]; other site 414684000517 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 414684000518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000519 Walker A/P-loop; other site 414684000520 ATP binding site [chemical binding]; other site 414684000521 Q-loop/lid; other site 414684000522 ABC transporter signature motif; other site 414684000523 Walker B; other site 414684000524 D-loop; other site 414684000525 H-loop/switch region; other site 414684000526 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 414684000527 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 414684000528 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 414684000529 TM-ABC transporter signature motif; other site 414684000530 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 414684000531 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 414684000532 TM-ABC transporter signature motif; other site 414684000533 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 414684000534 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 414684000535 active site 414684000536 metal binding site [ion binding]; metal-binding site 414684000537 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 414684000538 TIR domain; Region: TIR_2; cl15770 414684000539 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 414684000540 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 414684000541 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 414684000542 Ligand Binding Site [chemical binding]; other site 414684000543 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684000544 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 414684000545 CoenzymeA binding site [chemical binding]; other site 414684000546 subunit interaction site [polypeptide binding]; other site 414684000547 PHB binding site; other site 414684000548 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 414684000549 putative active site [active] 414684000550 putative catalytic site [active] 414684000551 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 414684000552 RNA polymerase sigma factor; Provisional; Region: PRK12511 414684000553 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684000554 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 414684000555 DNA binding residues [nucleotide binding] 414684000556 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 414684000557 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 414684000558 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 414684000559 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 414684000560 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 414684000561 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 414684000562 N- and C-terminal domain interface [polypeptide binding]; other site 414684000563 glycerol kinase; Provisional; Region: glpK; PRK00047 414684000564 active site 414684000565 MgATP binding site [chemical binding]; other site 414684000566 catalytic site [active] 414684000567 metal binding site [ion binding]; metal-binding site 414684000568 glycerol binding site [chemical binding]; other site 414684000569 homotetramer interface [polypeptide binding]; other site 414684000570 homodimer interface [polypeptide binding]; other site 414684000571 FBP binding site [chemical binding]; other site 414684000572 protein IIAGlc interface [polypeptide binding]; other site 414684000573 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 414684000574 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 414684000575 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 414684000576 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 414684000577 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 414684000578 substrate binding site [chemical binding]; other site 414684000579 catalytic Zn binding site [ion binding]; other site 414684000580 NAD binding site [chemical binding]; other site 414684000581 structural Zn binding site [ion binding]; other site 414684000582 dimer interface [polypeptide binding]; other site 414684000583 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684000584 dimer interface [polypeptide binding]; other site 414684000585 phosphorylation site [posttranslational modification] 414684000586 sensory histidine kinase CreC; Provisional; Region: PRK11100 414684000587 Histidine kinase-like ATPases; This family includes several ATP-binding 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 414684000588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684000589 Helix-turn-helix domains; Region: HTH; cl00088 414684000590 WHG domain; Region: WHG; pfam13305 414684000591 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 414684000592 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684000593 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 414684000594 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684000595 Protein export membrane protein; Region: SecD_SecF; cl14618 414684000596 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 414684000597 Zn binding site [ion binding]; other site 414684000598 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 414684000599 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684000600 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000601 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 414684000602 N-terminal plug; other site 414684000603 ligand-binding site [chemical binding]; other site 414684000604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684000605 Helix-turn-helix domains; Region: HTH; cl00088 414684000606 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684000607 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 414684000608 multidrug efflux protein; Reviewed; Region: PRK09579 414684000609 Heme NO binding; Region: HNOB; cl15268 414684000610 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 414684000611 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 414684000612 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 414684000613 FeS/SAM binding site; other site 414684000614 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 414684000615 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 414684000616 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 414684000617 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 414684000618 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 414684000619 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 414684000620 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 414684000621 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 414684000622 putative active site [active] 414684000623 catalytic site [active] 414684000624 putative metal binding site [ion binding]; other site 414684000625 PhoD-like phosphatase; Region: PhoD; pfam09423 414684000626 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000627 putative active site [active] 414684000628 putative metal binding site [ion binding]; other site 414684000629 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000630 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684000631 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 414684000632 N-terminal plug; other site 414684000633 ligand-binding site [chemical binding]; other site 414684000634 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000635 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 414684000636 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 414684000637 Phytase; Region: Phytase; pfam02333 414684000638 Cache domain; Region: Cache_2; cl07034 414684000639 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 414684000640 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 414684000641 dimerization interface [polypeptide binding]; other site 414684000642 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000643 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000644 dimer interface [polypeptide binding]; other site 414684000645 putative CheW interface [polypeptide binding]; other site 414684000646 Cache domain; Region: Cache_2; cl07034 414684000647 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000648 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000649 dimer interface [polypeptide binding]; other site 414684000650 putative CheW interface [polypeptide binding]; other site 414684000651 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 414684000652 Uncharacterized conserved protein [Function unknown]; Region: COG2898 414684000653 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 414684000654 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 414684000655 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 414684000656 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 414684000657 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684000658 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684000659 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684000660 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 414684000661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 414684000662 Zn2+ binding site [ion binding]; other site 414684000663 Mg2+ binding site [ion binding]; other site 414684000664 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684000665 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684000666 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 414684000667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000668 Walker A/P-loop; other site 414684000669 ATP binding site [chemical binding]; other site 414684000670 Q-loop/lid; other site 414684000671 ABC transporter signature motif; other site 414684000672 Walker B; other site 414684000673 D-loop; other site 414684000674 H-loop/switch region; other site 414684000675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000676 Walker A/P-loop; other site 414684000677 ATP binding site [chemical binding]; other site 414684000678 Q-loop/lid; other site 414684000679 ABC transporter signature motif; other site 414684000680 Walker B; other site 414684000681 D-loop; other site 414684000682 H-loop/switch region; other site 414684000683 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 414684000684 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684000685 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684000686 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 414684000687 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 414684000688 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 414684000689 Helix-turn-helix domains; Region: HTH; cl00088 414684000690 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 414684000691 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 414684000692 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684000693 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 414684000694 N-terminal plug; other site 414684000695 ligand-binding site [chemical binding]; other site 414684000696 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 414684000697 Cytochrome c; Region: Cytochrom_C; cl11414 414684000698 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 414684000699 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684000700 Helix-turn-helix domains; Region: HTH; cl00088 414684000701 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 414684000702 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 414684000703 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 414684000704 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 414684000705 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 414684000706 active site 414684000707 catalytic tetrad [active] 414684000708 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 414684000709 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684000710 intersubunit interface [polypeptide binding]; other site 414684000711 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 414684000712 ABC-ATPase subunit interface; other site 414684000713 dimer interface [polypeptide binding]; other site 414684000714 putative PBP binding regions; other site 414684000715 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 414684000716 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 414684000717 Walker A/P-loop; other site 414684000718 ATP binding site [chemical binding]; other site 414684000719 Q-loop/lid; other site 414684000720 ABC transporter signature motif; other site 414684000721 Walker B; other site 414684000722 D-loop; other site 414684000723 H-loop/switch region; other site 414684000724 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 414684000725 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 414684000726 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 414684000727 FeS/SAM binding site; other site 414684000728 pseudogene;identified by match to protein family HMM PF00005 414684000729 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 414684000730 ATP cone domain; Region: ATP-cone; pfam03477 414684000731 Class III ribonucleotide reductase; Region: RNR_III; cd01675 414684000732 effector binding site; other site 414684000733 active site 414684000734 Zn binding site [ion binding]; other site 414684000735 glycine loop; other site 414684000736 cobyric acid synthase; Provisional; Region: PRK00784 414684000737 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000738 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 414684000739 catalytic triad [active] 414684000740 CobD/Cbib protein; Region: CobD_Cbib; cl00561 414684000741 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000742 Walker A motif; other site 414684000743 ATP binding site [chemical binding]; other site 414684000744 Walker B motif; other site 414684000745 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 414684000746 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 414684000747 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 414684000748 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684000749 catalytic residue [active] 414684000750 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 414684000751 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 414684000752 N-terminal plug; other site 414684000753 ligand-binding site [chemical binding]; other site 414684000754 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 414684000755 PAS fold; Region: PAS_3; pfam08447 414684000756 putative active site [active] 414684000757 heme pocket [chemical binding]; other site 414684000758 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 414684000759 PAS domain; Region: PAS_9; pfam13426 414684000760 putative active site [active] 414684000761 heme pocket [chemical binding]; other site 414684000762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000763 dimer interface [polypeptide binding]; other site 414684000764 putative CheW interface [polypeptide binding]; other site 414684000765 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684000766 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684000767 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684000768 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 414684000769 outer membrane receptor FepA; Provisional; Region: PRK13528 414684000770 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 414684000771 N-terminal plug; other site 414684000772 ligand-binding site [chemical binding]; other site 414684000773 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 414684000774 PAS domain; Region: PAS_9; pfam13426 414684000775 putative active site [active] 414684000776 heme pocket [chemical binding]; other site 414684000777 hypothetical protein; Provisional; Region: PRK13560 414684000778 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 414684000779 hypothetical protein; Provisional; Region: PRK13559 414684000780 Histidine kinase; Region: HisKA_2; cl06527 414684000781 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684000782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000783 active site 414684000784 phosphorylation site [posttranslational modification] 414684000785 intermolecular recognition site; other site 414684000786 dimerization interface [polypeptide binding]; other site 414684000787 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 414684000788 putative binding surface; other site 414684000789 active site 414684000790 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 414684000791 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000792 ATP binding site [chemical binding]; other site 414684000793 Mg2+ binding site [ion binding]; other site 414684000794 G-X-G motif; other site 414684000795 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 414684000796 Response regulator receiver domain; Region: Response_reg; pfam00072 414684000797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000798 active site 414684000799 phosphorylation site [posttranslational modification] 414684000800 intermolecular recognition site; other site 414684000801 dimerization interface [polypeptide binding]; other site 414684000802 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684000803 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 414684000804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000805 HEAT repeats; Region: HEAT_2; pfam13646 414684000806 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 414684000807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000808 active site 414684000809 phosphorylation site [posttranslational modification] 414684000810 intermolecular recognition site; other site 414684000811 dimerization interface [polypeptide binding]; other site 414684000812 CheB methylesterase; Region: CheB_methylest; pfam01339 414684000813 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 414684000814 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 414684000815 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 414684000816 putative CheA interaction surface; other site 414684000817 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000818 dimer interface [polypeptide binding]; other site 414684000819 putative CheW interface [polypeptide binding]; other site 414684000820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000821 dimer interface [polypeptide binding]; other site 414684000822 putative CheW interface [polypeptide binding]; other site 414684000823 PAS fold; Region: PAS; pfam00989 414684000824 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 414684000825 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684000826 dimer interface [polypeptide binding]; other site 414684000827 phosphorylation site [posttranslational modification] 414684000828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000829 phosphorylation site [posttranslational modification] 414684000830 intermolecular recognition site; other site 414684000831 serine;Alternate names identified by match to protein family HMM PF01584 414684000832 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 414684000833 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 414684000834 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 414684000835 Response regulator receiver domain; Region: Response_reg; pfam00072 414684000836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000837 active site 414684000838 phosphorylation site [posttranslational modification] 414684000839 intermolecular recognition site; other site 414684000840 dimerization interface [polypeptide binding]; other site 414684000841 bacterio-opsin activator; Provisional; Region: PRK13558 414684000842 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 414684000843 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684000844 dimer interface [polypeptide binding]; other site 414684000845 phosphorylation site [posttranslational modification] 414684000846 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000847 ATP binding site [chemical binding]; other site 414684000848 G-X-G motif; other site 414684000849 Response regulator receiver domain; Region: Response_reg; pfam00072 414684000850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000851 active site 414684000852 phosphorylation site [posttranslational modification] 414684000853 intermolecular recognition site; other site 414684000854 dimerization interface [polypeptide binding]; other site 414684000855 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000856 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000857 dimer interface [polypeptide binding]; other site 414684000858 putative CheW interface [polypeptide binding]; other site 414684000859 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 414684000860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000861 active site 414684000862 phosphorylation site [posttranslational modification] 414684000863 intermolecular recognition site; other site 414684000864 dimerization interface [polypeptide binding]; other site 414684000865 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 414684000866 dimerization interface [polypeptide binding]; other site 414684000867 DNA binding residues [nucleotide binding] 414684000868 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684000869 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 414684000870 Probable Catalytic site; other site 414684000871 metal-binding site 414684000872 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 414684000873 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 414684000874 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 414684000875 Walker A/P-loop; other site 414684000876 ATP binding site [chemical binding]; other site 414684000877 Q-loop/lid; other site 414684000878 ABC transporter signature motif; other site 414684000879 Walker B; other site 414684000880 D-loop; other site 414684000881 H-loop/switch region; other site 414684000882 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 414684000883 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 414684000884 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 414684000885 SapC; Region: SapC; pfam07277 414684000886 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 414684000887 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 414684000888 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 414684000889 alpha subunit interaction interface [polypeptide binding]; other site 414684000890 Walker A motif; other site 414684000891 ATP binding site [chemical binding]; other site 414684000892 Walker B motif; other site 414684000893 inhibitor binding site; inhibition site 414684000894 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684000895 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 414684000896 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 414684000897 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 414684000898 ATP synthase A chain; Region: ATP-synt_A; cl00413 414684000899 ATP synthase subunit C; Region: ATP-synt_C; cl00466 414684000900 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 414684000901 Plant ATP synthase F0; Region: YMF19; cl07975 414684000902 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 414684000903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684000904 Walker A motif; other site 414684000905 ATP binding site [chemical binding]; other site 414684000906 Walker B motif; other site 414684000907 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684000908 ATP synthase; Region: ATP-synt; cl00365 414684000909 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 414684000910 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 414684000911 active site 414684000912 catalytic residues [active] 414684000913 metal binding site [ion binding]; metal-binding site 414684000914 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684000915 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684000916 active site 414684000917 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 414684000918 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 414684000919 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000920 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000921 dimer interface [polypeptide binding]; other site 414684000922 putative CheW interface [polypeptide binding]; other site 414684000923 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 414684000924 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684000925 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 414684000926 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 414684000927 carboxyltransferase (CT) interaction site; other site 414684000928 biotinylation site [posttranslational modification]; other site 414684000929 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 414684000930 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 414684000931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000932 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 414684000933 dimerization interface [polypeptide binding]; other site 414684000934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000935 dimer interface [polypeptide binding]; other site 414684000936 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684000937 putative CheW interface [polypeptide binding]; other site 414684000938 Ion channel; Region: Ion_trans_2; cl11596 414684000939 enoyl-CoA hydratase; Provisional; Region: PRK05995 414684000940 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 414684000941 substrate binding site [chemical binding]; other site 414684000942 oxyanion hole (OAH) forming residues; other site 414684000943 trimer interface [polypeptide binding]; other site 414684000944 flagellin; Reviewed; Region: PRK08869 414684000945 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 414684000946 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684000947 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684000948 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 414684000949 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 414684000950 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 414684000951 structural tetrad; other site 414684000952 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 414684000953 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 414684000954 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 414684000955 Fatty acid desaturase; Region: FA_desaturase; pfam00487 414684000956 Di-iron ligands [ion binding]; other site 414684000957 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 414684000958 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 414684000959 putative catalytic residue [active] 414684000960 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 414684000961 NADP binding site [chemical binding]; other site 414684000962 homodimer interface [polypeptide binding]; other site 414684000963 active site 414684000964 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cd00598 414684000965 active site 414684000966 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 414684000967 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 414684000968 dimer interface [polypeptide binding]; other site 414684000969 active site 414684000970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684000971 Helix-turn-helix domains; Region: HTH; cl00088 414684000972 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 414684000973 ligand binding site [chemical binding]; other site 414684000974 flexible hinge region; other site 414684000975 Domain of unknown function DUF20; Region: UPF0118; pfam01594 414684000976 isovaleryl-CoA dehydrogenase; Region: PLN02519 414684000977 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 414684000978 substrate binding site [chemical binding]; other site 414684000979 FAD binding site [chemical binding]; other site 414684000980 catalytic base [active] 414684000981 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 414684000982 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 414684000983 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 414684000984 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 414684000985 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000986 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 414684000987 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 414684000988 MgtE intracellular N domain; Region: MgtE_N; cl15244 414684000989 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 414684000990 Divalent cation transporter; Region: MgtE; cl00786 414684000991 malic enzyme; Reviewed; Region: PRK12862 414684000992 Malic enzyme, N-terminal domain; Region: malic; pfam00390 414684000993 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 414684000994 putative NAD(P) binding site [chemical binding]; other site 414684000995 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 414684000996 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 414684000997 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 414684000998 dinuclear metal binding motif [ion binding]; other site 414684000999 Acylphosphatase; Region: Acylphosphatase; cl00551 414684001000 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 414684001001 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684001002 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684001003 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 414684001004 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 414684001005 carboxyltransferase (CT) interaction site; other site 414684001006 biotinylation site [posttranslational modification]; other site 414684001007 hypothetical protein; Provisional; Region: PHA02752 414684001008 2TM domain; Region: 2TM; pfam13239 414684001009 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 414684001010 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 414684001011 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 414684001012 SCP-2 sterol transfer family; Region: SCP2; cl01225 414684001013 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 414684001014 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684001015 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684001016 ATP12 chaperone protein; Region: ATP12; cl02228 414684001017 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 414684001018 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 414684001019 motif II; other site 414684001020 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 414684001021 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 414684001022 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 414684001023 active site 414684001024 CrcB-like protein; Region: CRCB; cl09114 414684001025 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684001026 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 414684001027 N-terminal plug; other site 414684001028 ligand-binding site [chemical binding]; other site 414684001029 recombination factor protein RarA; Reviewed; Region: PRK13342 414684001030 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 414684001031 Walker A motif; other site 414684001032 ATP binding site [chemical binding]; other site 414684001033 Walker B motif; other site 414684001034 arginine finger; other site 414684001035 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 414684001036 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 414684001037 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 414684001038 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 414684001039 protein binding site [polypeptide binding]; other site 414684001040 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 414684001041 protein binding site [polypeptide binding]; other site 414684001042 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 414684001043 aspartate racemase; Region: asp_race; TIGR00035 414684001044 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 414684001045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001046 active site 414684001047 phosphorylation site [posttranslational modification] 414684001048 intermolecular recognition site; other site 414684001049 dimerization interface [polypeptide binding]; other site 414684001050 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 414684001051 DNA binding site [nucleotide binding] 414684001052 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 414684001053 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 414684001054 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 414684001055 Ligand Binding Site [chemical binding]; other site 414684001056 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 414684001057 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684001058 dimer interface [polypeptide binding]; other site 414684001059 phosphorylation site [posttranslational modification] 414684001060 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001061 ATP binding site [chemical binding]; other site 414684001062 Mg2+ binding site [ion binding]; other site 414684001063 G-X-G motif; other site 414684001064 K+-transporting ATPase, c chain; Region: KdpC; cl00944 414684001065 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 414684001066 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684001067 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684001068 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 414684001069 Helix-turn-helix domains; Region: HTH; cl00088 414684001070 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 414684001071 dimerization interface [polypeptide binding]; other site 414684001072 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 414684001073 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 414684001074 dimer interface [polypeptide binding]; other site 414684001075 decamer (pentamer of dimers) interface [polypeptide binding]; other site 414684001076 catalytic triad [active] 414684001077 peroxidatic and resolving cysteines [active] 414684001078 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 414684001079 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 414684001080 Helix-turn-helix domains; Region: HTH; cl00088 414684001081 gamma-glutamyl kinase; Provisional; Region: PRK05429 414684001082 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 414684001083 nucleotide binding site [chemical binding]; other site 414684001084 homotetrameric interface [polypeptide binding]; other site 414684001085 putative phosphate binding site [ion binding]; other site 414684001086 putative allosteric binding site; other site 414684001087 PUA domain; Region: PUA; cl00607 414684001088 GTPase CgtA; Reviewed; Region: obgE; PRK12299 414684001089 GTP1/OBG; Region: GTP1_OBG; pfam01018 414684001090 Obg GTPase; Region: Obg; cd01898 414684001091 G1 box; other site 414684001092 GTP/Mg2+ binding site [chemical binding]; other site 414684001093 Switch I region; other site 414684001094 G2 box; other site 414684001095 G3 box; other site 414684001096 Switch II region; other site 414684001097 G4 box; other site 414684001098 G5 box; other site 414684001099 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 414684001100 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 414684001101 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684001102 AAA domain; Region: AAA_27; pfam13514 414684001103 Walker A/P-loop; other site 414684001104 ATP binding site [chemical binding]; other site 414684001105 AAA domain; Region: AAA_27; pfam13514 414684001106 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 414684001107 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 414684001108 active site 414684001109 metal binding site [ion binding]; metal-binding site 414684001110 DNA binding site [nucleotide binding] 414684001111 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 414684001112 active site 414684001113 Domain of unknown function (DUF305); Region: DUF305; cl15795 414684001114 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 414684001115 ferredoxin-type protein; Provisional; Region: PRK10194 414684001116 4Fe-4S binding domain; Region: Fer4; cl02805 414684001117 NapD protein; Region: NapD; cl01163 414684001118 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 414684001119 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 414684001120 [4Fe-4S] binding site [ion binding]; other site 414684001121 molybdopterin cofactor binding site; other site 414684001122 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 414684001123 molybdopterin cofactor binding site; other site 414684001124 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 414684001125 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 414684001126 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 414684001127 active site 414684001128 copper-transporting P-type ATPase;identified by match to protein family HMM PF03927 414684001129 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 414684001130 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 414684001131 hypothetical protein; Provisional; Region: PRK00183 414684001132 SEC-C motif; Region: SEC-C; pfam02810 414684001133 SEC-C motif; Region: SEC-C; pfam02810 414684001134 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684001135 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684001136 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 414684001137 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 414684001138 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 414684001139 FAD binding pocket [chemical binding]; other site 414684001140 conserved FAD binding motif [chemical binding]; other site 414684001141 phosphate binding motif [ion binding]; other site 414684001142 beta-alpha-beta structure motif; other site 414684001143 NAD binding pocket [chemical binding]; other site 414684001144 Dihaem cytochrome c; Region: DHC; pfam09626 414684001145 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 414684001146 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 414684001147 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 414684001148 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 414684001149 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684001150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001151 active site 414684001152 phosphorylation site [posttranslational modification] 414684001153 intermolecular recognition site; other site 414684001154 dimerization interface [polypeptide binding]; other site 414684001155 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 414684001156 DNA binding site [nucleotide binding] 414684001157 sensor protein PhoQ; Provisional; Region: PRK10815 414684001158 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001159 ATP binding site [chemical binding]; other site 414684001160 Mg2+ binding site [ion binding]; other site 414684001161 G-X-G motif; other site 414684001162 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684001163 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 414684001164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684001165 dimer interface [polypeptide binding]; other site 414684001166 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684001167 putative CheW interface [polypeptide binding]; other site 414684001168 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 414684001169 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 414684001170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684001171 catalytic residue [active] 414684001172 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 414684001173 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 414684001174 trimerization site [polypeptide binding]; other site 414684001175 active site 414684001176 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 414684001177 NifU-like domain; Region: NifU; cl00484 414684001178 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 414684001179 NifQ; Region: NifQ; pfam04891 414684001180 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 414684001181 Integrase core domain; Region: rve; cl01316 414684001182 Winged helix-turn helix; Region: HTH_29; pfam13551 414684001183 Helix-turn-helix domains; Region: HTH; cl00088 414684001184 Winged helix-turn helix; Region: HTH_33; pfam13592 414684001185 Macro domain, Poa1p_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_Poa1p_like; cd02901 414684001186 ADP-ribose binding site [chemical binding]; other site 414684001187 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 414684001188 Domain of unknown function DUF59; Region: DUF59; cl00941 414684001189 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 414684001190 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 414684001191 trimerization site [polypeptide binding]; other site 414684001192 active site 414684001193 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 414684001194 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 414684001195 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684001196 catalytic residue [active] 414684001197 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 414684001198 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 414684001199 FeS assembly ATPase SufC; Region: sufC; TIGR01978 414684001200 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 414684001201 Walker A/P-loop; other site 414684001202 ATP binding site [chemical binding]; other site 414684001203 Q-loop/lid; other site 414684001204 ABC transporter signature motif; other site 414684001205 Walker B; other site 414684001206 D-loop; other site 414684001207 H-loop/switch region; other site 414684001208 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 414684001209 putative ABC transporter; Region: ycf24; CHL00085 414684001210 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 414684001211 Helix-turn-helix domains; Region: HTH; cl00088 414684001212 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684001213 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684001214 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684001215 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 414684001216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684001218 active site 414684001219 phosphorylation site [posttranslational modification] 414684001220 intermolecular recognition site; other site 414684001221 dimerization interface [polypeptide binding]; other site 414684001222 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 414684001223 DNA binding site [nucleotide binding] 414684001224 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684001225 phosphorylation site [posttranslational modification] 414684001226 dimer interface [polypeptide binding]; other site 414684001227 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001228 ATP binding site [chemical binding]; other site 414684001229 Mg2+ binding site [ion binding]; other site 414684001230 G-X-G motif; other site 414684001231 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 414684001232 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 414684001233 ligand binding site [chemical binding]; other site 414684001234 flexible hinge region; other site 414684001235 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 414684001236 FOG: CBS domain [General function prediction only]; Region: COG0517 414684001237 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 414684001238 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 414684001239 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 414684001240 Walker A/P-loop; other site 414684001241 ATP binding site [chemical binding]; other site 414684001242 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 414684001243 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 414684001244 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 414684001245 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 414684001246 ABC transporter signature motif; other site 414684001247 Walker B; other site 414684001248 D-loop; other site 414684001249 H-loop/switch region; other site 414684001250 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684001251 Protein of unknown function (DUF721); Region: DUF721; cl02324 414684001252 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 414684001253 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 414684001254 minor groove reading motif; other site 414684001255 helix-hairpin-helix signature motif; other site 414684001256 substrate binding pocket [chemical binding]; other site 414684001257 active site 414684001258 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 414684001259 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 414684001260 DNA binding and oxoG recognition site [nucleotide binding] 414684001261 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 414684001262 Spore Coat Protein U domain; Region: SCPU; cl02253 414684001263 glycogen branching enzyme; Provisional; Region: PRK05402 414684001264 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 414684001265 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 414684001266 active site 414684001267 catalytic site [active] 414684001268 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 414684001269 trehalose synthase; Region: treS_nterm; TIGR02456 414684001270 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 414684001271 active site 414684001272 catalytic site [active] 414684001273 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 414684001274 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 414684001275 Phosphotransferase enzyme family; Region: APH; pfam01636 414684001276 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 414684001277 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684001278 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 414684001279 active site 414684001280 catalytic site [active] 414684001281 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 414684001282 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 414684001283 active site 414684001284 homodimer interface [polypeptide binding]; other site 414684001285 catalytic site [active] 414684001286 acceptor binding site [chemical binding]; other site 414684001287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684001288 active site 414684001289 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 414684001290 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 414684001291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684001292 catalytic residue [active] 414684001293 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 414684001294 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 414684001295 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 414684001296 active site 414684001297 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684001298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001299 NAD(P) binding site [chemical binding]; other site 414684001300 active site 414684001301 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 414684001302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001303 NAD(P) binding site [chemical binding]; other site 414684001304 active site 414684001305 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 414684001306 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 414684001307 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 414684001308 FeS/SAM binding site; other site 414684001309 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 414684001310 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 414684001311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684001312 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 414684001313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684001314 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 414684001315 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 414684001316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684001317 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 414684001318 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 414684001319 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 414684001320 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 414684001321 active site 414684001322 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 414684001323 TIGR03440 family protein; Region: unchr_TIGR03440 414684001324 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 414684001325 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 414684001326 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684001327 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 414684001328 Ligand binding site; other site 414684001329 DXD motif; other site 414684001330 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 414684001331 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684001332 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 414684001333 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684001334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684001335 dimer interface [polypeptide binding]; other site 414684001336 putative CheW interface [polypeptide binding]; other site 414684001337 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 414684001338 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 414684001339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 414684001340 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 414684001341 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 414684001342 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 414684001343 HicB family; Region: HicB; pfam05534 414684001344 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 414684001345 substrate binding site [chemical binding]; other site 414684001346 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 414684001347 oxyanion hole (OAH) forming residues; other site 414684001348 trimer interface [polypeptide binding]; other site 414684001349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001350 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684001351 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684001352 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 414684001353 Prostaglandin dehydrogenases; Region: PGDH; cd05288 414684001354 NAD(P) binding site [chemical binding]; other site 414684001355 substrate binding site [chemical binding]; other site 414684001356 dimer interface [polypeptide binding]; other site 414684001357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001358 NAD(P) binding site [chemical binding]; other site 414684001359 short chain dehydrogenase; Validated; Region: PRK07069 414684001360 active site 414684001361 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 414684001362 classical (c) SDRs; Region: SDR_c; cd05233 414684001363 NAD(P) binding site [chemical binding]; other site 414684001364 active site 414684001365 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 414684001366 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 414684001367 putative active site [active] 414684001368 putative substrate binding site [chemical binding]; other site 414684001369 ATP binding site [chemical binding]; other site 414684001370 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_9; cd04666 414684001371 nudix motif; other site 414684001372 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 414684001373 heme binding pocket [chemical binding]; other site 414684001374 heme ligand [chemical binding]; other site 414684001375 conserved hypothetical protein, pseudogene;identified by match to protein family HMM PF00107 414684001376 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 414684001377 C-terminal peptidase (prc); Region: prc; TIGR00225 414684001378 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 414684001379 protein binding site [polypeptide binding]; other site 414684001380 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 414684001381 Catalytic dyad [active] 414684001382 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 414684001383 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 414684001384 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 414684001385 inhibitor-cofactor binding pocket; inhibition site 414684001386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684001387 catalytic residue [active] 414684001388 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 414684001389 Amidinotransferase; Region: Amidinotransf; cl12043 414684001390 Helix-turn-helix domains; Region: HTH; cl00088 414684001391 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 414684001392 putative DNA binding site [nucleotide binding]; other site 414684001393 putative Zn2+ binding site [ion binding]; other site 414684001394 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 414684001395 CPxP motif; other site 414684001396 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 414684001397 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 414684001398 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 414684001399 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 414684001400 substrate binding pocket [chemical binding]; other site 414684001401 chain length determination region; other site 414684001402 substrate-Mg2+ binding site; other site 414684001403 catalytic residues [active] 414684001404 aspartate-rich region 1; other site 414684001405 active site lid residues [active] 414684001406 aspartate-rich region 2; other site 414684001407 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 414684001408 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 414684001409 TPP-binding site; other site 414684001410 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 414684001411 PYR/PP interface [polypeptide binding]; other site 414684001412 dimer interface [polypeptide binding]; other site 414684001413 TPP binding site [chemical binding]; other site 414684001414 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684001415 Entericidin EcnA/B family; Region: Entericidin; cl02322 414684001416 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 414684001417 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 414684001418 RNA binding surface [nucleotide binding]; other site 414684001419 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 414684001420 S-adenosylmethionine binding site [chemical binding]; other site 414684001421 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 414684001422 tandem repeat interface [polypeptide binding]; other site 414684001423 oligomer interface [polypeptide binding]; other site 414684001424 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 414684001425 active site residues [active] 414684001426 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 414684001427 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 414684001428 tandem repeat interface [polypeptide binding]; other site 414684001429 oligomer interface [polypeptide binding]; other site 414684001430 active site residues [active] 414684001431 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 414684001432 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 414684001433 chorismate binding enzyme; Region: Chorismate_bind; cl10555 414684001434 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; cd00449 414684001435 substrate-cofactor binding pocket; other site 414684001436 homodimer interface [polypeptide binding]; other site 414684001437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684001438 catalytic residue [active] 414684001439 Protein of unknown function (DUF466); Region: DUF466; cl01082 414684001440 carbon starvation protein A; Provisional; Region: PRK15015 414684001441 Carbon starvation protein CstA; Region: CstA; pfam02554 414684001442 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 414684001443 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 414684001444 active site 414684001445 catalytic site [active] 414684001446 substrate binding site [chemical binding]; other site 414684001447 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 414684001448 Tetramer interface [polypeptide binding]; other site 414684001449 active site 414684001450 FMN-binding site [chemical binding]; other site 414684001451 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 414684001452 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 414684001453 NAD binding site [chemical binding]; other site 414684001454 homotetramer interface [polypeptide binding]; other site 414684001455 homodimer interface [polypeptide binding]; other site 414684001456 substrate binding site [chemical binding]; other site 414684001457 active site 414684001458 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 414684001459 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 414684001460 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 414684001461 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 414684001462 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 414684001463 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 414684001464 HSP70 interaction site [polypeptide binding]; other site 414684001465 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 414684001466 substrate binding site [polypeptide binding]; other site 414684001467 dimer interface [polypeptide binding]; other site 414684001468 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684001469 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 414684001470 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 414684001471 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 414684001472 Cation efflux family; Region: Cation_efflux; cl00316 414684001473 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684001474 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 414684001475 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 414684001476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684001477 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 414684001478 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 414684001479 metal binding site 2 [ion binding]; metal-binding site 414684001480 putative DNA binding helix; other site 414684001481 metal binding site 1 [ion binding]; metal-binding site 414684001482 dimer interface [polypeptide binding]; other site 414684001483 structural Zn2+ binding site [ion binding]; other site 414684001484 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 414684001485 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 414684001486 short chain dehydrogenase; Provisional; Region: PRK06101 414684001487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001488 NAD(P) binding site [chemical binding]; other site 414684001489 active site 414684001490 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 414684001491 Pantoate-beta-alanine ligase; Region: PanC; cd00560 414684001492 pantoate--beta-alanine ligase; Region: panC; TIGR00018 414684001493 active site 414684001494 ATP-binding site [chemical binding]; other site 414684001495 pantoate-binding site; other site 414684001496 HXXH motif; other site 414684001497 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 414684001498 dimer interface [polypeptide binding]; other site 414684001499 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684001500 active site 414684001501 metal binding site [ion binding]; metal-binding site 414684001502 glutathione binding site [chemical binding]; other site 414684001503 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 414684001504 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 414684001505 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 414684001506 nucleotide binding pocket [chemical binding]; other site 414684001507 K-X-D-G motif; other site 414684001508 catalytic site [active] 414684001509 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 414684001510 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 414684001511 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 414684001512 Dimer interface [polypeptide binding]; other site 414684001513 BRCT sequence motif; other site 414684001514 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 414684001515 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 414684001516 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 414684001517 Walker A/P-loop; other site 414684001518 ATP binding site [chemical binding]; other site 414684001519 Q-loop/lid; other site 414684001520 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 414684001521 ABC transporter signature motif; other site 414684001522 Walker B; other site 414684001523 D-loop; other site 414684001524 H-loop/switch region; other site 414684001525 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 414684001526 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 414684001527 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 414684001528 cell division protein FtsZ, pseudogene 414684001529 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 414684001530 Cell division protein FtsA; Region: FtsA; cl11496 414684001531 Cell division protein FtsA; Region: FtsA; cl11496 414684001532 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 414684001533 Cell division protein FtsQ; Region: FtsQ; pfam03799 414684001534 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 414684001535 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 414684001536 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684001537 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 414684001538 FAD binding domain; Region: FAD_binding_4; pfam01565 414684001539 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 414684001540 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 414684001541 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 414684001542 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001543 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 414684001544 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 414684001545 active site 414684001546 homodimer interface [polypeptide binding]; other site 414684001547 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 414684001548 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 414684001549 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001550 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 414684001551 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 414684001552 Mg++ binding site [ion binding]; other site 414684001553 putative catalytic motif [active] 414684001554 putative substrate binding site [chemical binding]; other site 414684001555 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 414684001556 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 414684001557 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001558 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 414684001559 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 414684001560 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001561 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 414684001562 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 414684001563 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 414684001564 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684001565 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 414684001566 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 414684001567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001568 cell division protein MraZ; Reviewed; Region: PRK00326 414684001569 MraZ protein; Region: MraZ; pfam02381 414684001570 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 414684001571 amidase catalytic site [active] 414684001572 Zn binding residues [ion binding]; other site 414684001573 substrate binding site [chemical binding]; other site 414684001574 EamA-like transporter family; Region: EamA; cl01037 414684001575 ABC transporter ATPase component; Reviewed; Region: PRK11147 414684001576 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 414684001577 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 414684001578 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 414684001579 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 414684001580 putative metal binding site [ion binding]; other site 414684001581 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 414684001582 HSP70 interaction site [polypeptide binding]; other site 414684001583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684001584 Coenzyme A binding pocket [chemical binding]; other site 414684001585 5-oxoprolinase; Region: PLN02666 414684001586 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 414684001587 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 414684001588 TMAO/DMSO reductase; Reviewed; Region: PRK05363 414684001589 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 414684001590 Moco binding site; other site 414684001591 metal coordination site [ion binding]; other site 414684001592 CHASE3 domain; Region: CHASE3; cl05000 414684001593 PAS fold; Region: PAS_7; pfam12860 414684001594 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684001595 dimer interface [polypeptide binding]; other site 414684001596 phosphorylation site [posttranslational modification] 414684001597 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001598 ATP binding site [chemical binding]; other site 414684001599 Mg2+ binding site [ion binding]; other site 414684001600 G-X-G motif; other site 414684001601 Response regulator receiver domain; Region: Response_reg; pfam00072 414684001602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001603 active site 414684001604 phosphorylation site [posttranslational modification] 414684001605 intermolecular recognition site; other site 414684001606 dimerization interface [polypeptide binding]; other site 414684001607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684001608 Helix-turn-helix domains; Region: HTH; cl00088 414684001609 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 414684001610 putative effector binding pocket; other site 414684001611 dimerization interface [polypeptide binding]; other site 414684001612 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 414684001613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684001614 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 414684001615 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 414684001616 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 414684001617 DsbD alpha interface [polypeptide binding]; other site 414684001618 catalytic residues [active] 414684001619 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 414684001620 putative catalytic residue [active] 414684001621 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684001622 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684001623 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684001624 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684001625 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684001626 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684001627 enoyl-CoA hydratase; Provisional; Region: PRK08260 414684001628 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 414684001629 substrate binding site [chemical binding]; other site 414684001630 oxyanion hole (OAH) forming residues; other site 414684001631 trimer interface [polypeptide binding]; other site 414684001632 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 414684001633 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 414684001634 ATP binding site [chemical binding]; other site 414684001635 putative Mg++ binding site [ion binding]; other site 414684001636 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 414684001637 nucleotide binding region [chemical binding]; other site 414684001638 ATP-binding site [chemical binding]; other site 414684001639 DEAD/H associated; Region: DEAD_assoc; pfam08494 414684001640 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 414684001641 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 414684001642 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 414684001643 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 414684001644 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 414684001645 putative dimer interface [polypeptide binding]; other site 414684001646 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684001647 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 414684001648 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 414684001649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684001650 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 414684001651 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 414684001652 active site 414684001653 DNA binding site [nucleotide binding] 414684001654 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 414684001655 DNA binding site [nucleotide binding] 414684001656 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 414684001657 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 414684001658 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 414684001659 NAD binding site [chemical binding]; other site 414684001660 homotetramer interface [polypeptide binding]; other site 414684001661 homodimer interface [polypeptide binding]; other site 414684001662 substrate binding site [chemical binding]; other site 414684001663 active site 414684001664 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 414684001665 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 414684001666 active site 414684001667 Zn binding site [ion binding]; other site 414684001668 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 414684001669 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 414684001670 putative metal binding site; other site 414684001671 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684001672 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 414684001673 sequence-specific DNA binding site [nucleotide binding]; other site 414684001674 salt bridge; other site 414684001675 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 414684001676 active site 414684001677 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 414684001678 SLBB domain; Region: SLBB; pfam10531 414684001679 SLBB domain; Region: SLBB; pfam10531 414684001680 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 414684001681 N-carbamolyputrescine amidase; Region: PLN02747 414684001682 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 414684001683 putative active site; other site 414684001684 catalytic triad [active] 414684001685 putative dimer interface [polypeptide binding]; other site 414684001686 Transcriptional regulators [Transcription]; Region: MarR; COG1846 414684001687 Helix-turn-helix domains; Region: HTH; cl00088 414684001688 Gram-negative bacterial tonB protein; Region: TonB; cl10048 414684001689 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 414684001690 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684001691 Walker A/P-loop; other site 414684001692 ATP binding site [chemical binding]; other site 414684001693 Q-loop/lid; other site 414684001694 ABC transporter signature motif; other site 414684001695 Walker B; other site 414684001696 D-loop; other site 414684001697 H-loop/switch region; other site 414684001698 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 414684001699 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 414684001700 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684001701 intersubunit interface [polypeptide binding]; other site 414684001702 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684001703 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 414684001704 N-terminal plug; other site 414684001705 ligand-binding site [chemical binding]; other site 414684001706 AAA domain; Region: AAA_28; pfam13521 414684001707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684001708 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684001709 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001710 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001711 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001712 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684001713 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001714 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001715 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 414684001716 PhoU domain; Region: PhoU; pfam01895 414684001717 PhoU domain; Region: PhoU; pfam01895 414684001718 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 414684001719 MgtE intracellular N domain; Region: MgtE_N; cl15244 414684001720 FliG C-terminal domain; Region: FliG_C; pfam01706 414684001721 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684001722 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684001723 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 414684001724 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 414684001725 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 414684001726 Gram-negative bacterial tonB protein; Region: TonB; cl10048 414684001727 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684001728 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 414684001729 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 414684001730 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 414684001731 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 414684001732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001733 active site 414684001734 phosphorylation site [posttranslational modification] 414684001735 intermolecular recognition site; other site 414684001736 dimerization interface [polypeptide binding]; other site 414684001737 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 414684001738 DNA binding site [nucleotide binding] 414684001739 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 414684001740 sensor protein QseC; Provisional; Region: PRK10337 414684001741 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001742 ATP binding site [chemical binding]; other site 414684001743 Mg2+ binding site [ion binding]; other site 414684001744 G-X-G motif; other site 414684001745 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 414684001746 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 414684001747 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 414684001748 elongation factor Tu; Reviewed; Region: PRK00049 414684001749 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 414684001750 G1 box; other site 414684001751 GEF interaction site [polypeptide binding]; other site 414684001752 GTP/Mg2+ binding site [chemical binding]; other site 414684001753 Switch I region; other site 414684001754 G2 box; other site 414684001755 G3 box; other site 414684001756 Switch II region; other site 414684001757 G4 box; other site 414684001758 G5 box; other site 414684001759 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 414684001760 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 414684001761 Antibiotic Binding Site [chemical binding]; other site 414684001762 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 414684001763 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 414684001764 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 414684001765 putative homodimer interface [polypeptide binding]; other site 414684001766 KOW motif; Region: KOW; cl00354 414684001767 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 414684001768 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 414684001769 23S rRNA interface [nucleotide binding]; other site 414684001770 L7/L12 interface [polypeptide binding]; other site 414684001771 putative thiostrepton binding site; other site 414684001772 L25 interface [polypeptide binding]; other site 414684001773 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 414684001774 mRNA/rRNA interface [nucleotide binding]; other site 414684001775 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 414684001776 23S rRNA interface [nucleotide binding]; other site 414684001777 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 414684001778 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 414684001779 peripheral dimer interface [polypeptide binding]; other site 414684001780 core dimer interface [polypeptide binding]; other site 414684001781 L10 interface [polypeptide binding]; other site 414684001782 L11 interface [polypeptide binding]; other site 414684001783 putative EF-Tu interaction site [polypeptide binding]; other site 414684001784 putative EF-G interaction site [polypeptide binding]; other site 414684001785 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 414684001786 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 414684001787 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 414684001788 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 414684001789 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 414684001790 RPB12 interaction site [polypeptide binding]; other site 414684001791 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 414684001792 RPB11 interaction site [polypeptide binding]; other site 414684001793 RPB12 interaction site [polypeptide binding]; other site 414684001794 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 414684001795 RPB1 interaction site [polypeptide binding]; other site 414684001796 RPB11 interaction site [polypeptide binding]; other site 414684001797 RPB10 interaction site [polypeptide binding]; other site 414684001798 RPB3 interaction site [polypeptide binding]; other site 414684001799 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 414684001800 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 414684001801 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 414684001802 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 414684001803 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 414684001804 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 414684001805 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 414684001806 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 414684001807 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 414684001808 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 414684001809 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 414684001810 DNA binding site [nucleotide binding] 414684001811 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 414684001812 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 414684001813 non-specific DNA binding site [nucleotide binding]; other site 414684001814 salt bridge; other site 414684001815 sequence-specific DNA binding site [nucleotide binding]; other site 414684001816 HipA N-terminal domain; Region: Couple_hipA; cl11853 414684001817 HipA-like N-terminal domain; Region: HipA_N; pfam07805 414684001818 HipA-like C-terminal domain; Region: HipA_C; pfam07804 414684001819 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 414684001820 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 414684001821 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 414684001822 FeS/SAM binding site; other site 414684001823 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 414684001824 S17 interaction site [polypeptide binding]; other site 414684001825 S8 interaction site; other site 414684001826 16S rRNA interaction site [nucleotide binding]; other site 414684001827 streptomycin interaction site [chemical binding]; other site 414684001828 23S rRNA interaction site [nucleotide binding]; other site 414684001829 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 414684001830 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 414684001831 elongation factor G; Reviewed; Region: PRK00007 414684001832 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 414684001833 G1 box; other site 414684001834 putative GEF interaction site [polypeptide binding]; other site 414684001835 GTP/Mg2+ binding site [chemical binding]; other site 414684001836 Switch I region; other site 414684001837 G2 box; other site 414684001838 G3 box; other site 414684001839 Switch II region; other site 414684001840 G4 box; other site 414684001841 G5 box; other site 414684001842 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 414684001843 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 414684001844 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 414684001845 elongation factor Tu; Reviewed; Region: PRK00049 414684001846 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 414684001847 G1 box; other site 414684001848 GEF interaction site [polypeptide binding]; other site 414684001849 GTP/Mg2+ binding site [chemical binding]; other site 414684001850 Switch I region; other site 414684001851 G2 box; other site 414684001852 G3 box; other site 414684001853 Switch II region; other site 414684001854 G4 box; other site 414684001855 G5 box; other site 414684001856 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 414684001857 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 414684001858 Antibiotic Binding Site [chemical binding]; other site 414684001859 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 414684001860 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 414684001861 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 414684001862 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 414684001863 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 414684001864 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 414684001865 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 414684001866 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 414684001867 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 414684001868 putative translocon binding site; other site 414684001869 protein-rRNA interface [nucleotide binding]; other site 414684001870 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 414684001871 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 414684001872 G-X-X-G motif; other site 414684001873 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 414684001874 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 414684001875 23S rRNA interface [nucleotide binding]; other site 414684001876 5S rRNA interface [nucleotide binding]; other site 414684001877 putative antibiotic binding site [chemical binding]; other site 414684001878 L25 interface [polypeptide binding]; other site 414684001879 L27 interface [polypeptide binding]; other site 414684001880 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 414684001881 23S rRNA interface [nucleotide binding]; other site 414684001882 putative translocon interaction site; other site 414684001883 signal recognition particle (SRP54) interaction site; other site 414684001884 L23 interface [polypeptide binding]; other site 414684001885 trigger factor interaction site; other site 414684001886 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 414684001887 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 414684001888 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 414684001889 KOW motif; Region: KOW; cl00354 414684001890 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 414684001891 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 414684001892 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 414684001893 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 414684001894 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 414684001895 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 414684001896 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 414684001897 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 414684001898 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 414684001899 23S rRNA interface [nucleotide binding]; other site 414684001900 L21e interface [polypeptide binding]; other site 414684001901 5S rRNA interface [nucleotide binding]; other site 414684001902 L27 interface [polypeptide binding]; other site 414684001903 L5 interface [polypeptide binding]; other site 414684001904 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 414684001905 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 414684001906 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 414684001907 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 414684001908 23S rRNA binding site [nucleotide binding]; other site 414684001909 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 414684001910 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 414684001911 SecY translocase; Region: SecY; pfam00344 414684001912 adenylate kinase; Reviewed; Region: adk; PRK00279 414684001913 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 414684001914 AMP-binding site [chemical binding]; other site 414684001915 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 414684001916 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 414684001917 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 414684001918 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 414684001919 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 414684001920 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 414684001921 alphaNTD - beta interaction site [polypeptide binding]; other site 414684001922 alphaNTD homodimer interface [polypeptide binding]; other site 414684001923 alphaNTD - beta' interaction site [polypeptide binding]; other site 414684001924 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 414684001925 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 414684001926 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 414684001927 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684001928 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 414684001929 VacJ like lipoprotein; Region: VacJ; cl01073 414684001930 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 414684001931 acyl-CoA synthetase; Validated; Region: PRK09192 414684001932 AMP-binding enzyme; Region: AMP-binding; cl15778 414684001933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001934 NAD(P) binding site [chemical binding]; other site 414684001935 active site 414684001936 Phosphopantetheine attachment site; Region: PP-binding; cl09936 414684001937 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 414684001938 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 414684001939 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684001940 catalytic residue [active] 414684001941 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684001942 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 414684001943 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 414684001944 putative active site [active] 414684001945 putative metal binding site [ion binding]; other site 414684001946 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 414684001947 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 414684001948 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684001949 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 414684001950 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684001951 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 414684001952 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 414684001953 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684001954 Helix-turn-helix domains; Region: HTH; cl00088 414684001955 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 414684001956 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 414684001957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001958 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684001959 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684001960 Helix-turn-helix domains; Region: HTH; cl00088 414684001961 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 414684001962 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 414684001963 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 414684001964 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 414684001965 catalytic core [active] 414684001966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684001967 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 414684001968 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 414684001969 active site 414684001970 Substrate binding site; other site 414684001971 Mg++ binding site; other site 414684001972 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 414684001973 S-adenosylmethionine binding site [chemical binding]; other site 414684001974 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 414684001975 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 414684001976 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 414684001977 putative ADP-binding pocket [chemical binding]; other site 414684001978 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684001979 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 414684001980 putative catalytic site [active] 414684001981 putative metal binding site [ion binding]; other site 414684001982 putative phosphate binding site [ion binding]; other site 414684001983 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 414684001984 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 414684001985 tetramer interface [polypeptide binding]; other site 414684001986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684001987 catalytic residue [active] 414684001988 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 414684001989 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 414684001990 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 414684001991 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 414684001992 Subunit I/III interface [polypeptide binding]; other site 414684001993 D-pathway; other site 414684001994 Subunit I/VIIc interface [polypeptide binding]; other site 414684001995 Subunit I/IV interface [polypeptide binding]; other site 414684001996 Subunit I/II interface [polypeptide binding]; other site 414684001997 Low-spin heme (heme a) binding site [chemical binding]; other site 414684001998 Subunit I/VIIa interface [polypeptide binding]; other site 414684001999 Subunit I/VIa interface [polypeptide binding]; other site 414684002000 Dimer interface; other site 414684002001 Putative water exit pathway; other site 414684002002 Binuclear center (heme a3/CuB) [ion binding]; other site 414684002003 K-pathway; other site 414684002004 Subunit I/Vb interface [polypeptide binding]; other site 414684002005 Putative proton exit pathway; other site 414684002006 Subunit I/VIb interface; other site 414684002007 Subunit I/VIc interface [polypeptide binding]; other site 414684002008 Electron transfer pathway; other site 414684002009 Subunit I/VIIIb interface [polypeptide binding]; other site 414684002010 Subunit I/VIIb interface [polypeptide binding]; other site 414684002011 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684002012 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684002013 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684002014 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 414684002015 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 414684002016 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 414684002017 dimer interface [polypeptide binding]; other site 414684002018 putative functional site; other site 414684002019 putative MPT binding site; other site 414684002020 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 414684002021 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 414684002022 P-loop; other site 414684002023 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 414684002024 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 414684002025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684002026 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 414684002027 FHIPEP family; Region: FHIPEP; pfam00771 414684002028 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 414684002029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 414684002030 active site 414684002031 phosphorylation site [posttranslational modification] 414684002032 intermolecular recognition site; other site 414684002033 dimerization interface [polypeptide binding]; other site 414684002034 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 414684002035 Walker A motif; other site 414684002036 ATP binding site [chemical binding]; other site 414684002037 Walker B motif; other site 414684002038 arginine finger; other site 414684002039 Helix-turn-helix domains; Region: HTH; cl00088 414684002040 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684002041 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684002042 Flagellar assembly protein FliH; Region: FliH; pfam02108 414684002043 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 414684002044 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 414684002045 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 414684002046 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 414684002047 putative active site [active] 414684002048 catalytic site [active] 414684002049 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 414684002050 putative active site [active] 414684002051 catalytic site [active] 414684002052 CsbD-like; Region: CsbD; cl15799 414684002053 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 414684002054 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684002055 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684002056 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 414684002057 Gram-negative bacterial tonB protein; Region: TonB; cl10048 414684002058 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 414684002059 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 414684002060 binding surface 414684002061 TPR motif; other site 414684002062 TIGR03442 family protein; Region: TIGR03442 414684002063 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 414684002064 putative active site [active] 414684002065 putative dimer interface [polypeptide binding]; other site 414684002066 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684002067 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 414684002068 N-terminal plug; other site 414684002069 ligand-binding site [chemical binding]; other site 414684002070 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 414684002071 Survival protein SurE; Region: SurE; cl00448 414684002072 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 414684002073 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684002074 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 414684002075 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 414684002076 Protein export membrane protein; Region: SecD_SecF; cl14618 414684002077 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 414684002078 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 414684002079 NAD binding site [chemical binding]; other site 414684002080 substrate binding site [chemical binding]; other site 414684002081 homodimer interface [polypeptide binding]; other site 414684002082 active site 414684002083 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 414684002084 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 414684002085 substrate binding site; other site 414684002086 tetramer interface; other site 414684002087 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 414684002088 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 414684002089 active site 414684002090 motif I; other site 414684002091 motif II; other site 414684002092 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684002093 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 414684002094 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 414684002095 Walker A/P-loop; other site 414684002096 ATP binding site [chemical binding]; other site 414684002097 Q-loop/lid; other site 414684002098 ABC transporter signature motif; other site 414684002099 Walker B; other site 414684002100 D-loop; other site 414684002101 H-loop/switch region; other site 414684002102 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 414684002103 putative carbohydrate binding site [chemical binding]; other site 414684002104 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 414684002105 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 414684002106 inhibitor-cofactor binding pocket; inhibition site 414684002107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002108 catalytic residue [active] 414684002109 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 414684002110 active site 414684002111 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 414684002112 active site 414684002113 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684002114 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 414684002115 Probable Catalytic site; other site 414684002116 metal-binding site 414684002117 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 414684002118 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 414684002119 non-specific DNA binding site [nucleotide binding]; other site 414684002120 salt bridge; other site 414684002121 sequence-specific DNA binding site [nucleotide binding]; other site 414684002122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002123 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 414684002124 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 414684002125 active site 414684002126 dimer interface [polypeptide binding]; other site 414684002127 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 414684002128 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 414684002129 putative trimer interface [polypeptide binding]; other site 414684002130 putative CoA binding site [chemical binding]; other site 414684002131 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684002132 Helix-turn-helix domains; Region: HTH; cl00088 414684002133 OsmC-like protein; Region: OsmC; cl00767 414684002134 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 414684002135 dinuclear metal binding motif [ion binding]; other site 414684002136 transcription termination factor, pseudogene;identified by match to protein family HMM PF00353 414684002137 fructokinase; Reviewed; Region: PRK09557 414684002138 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 414684002139 AzlC protein; Region: AzlC; cl00570 414684002140 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 414684002141 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684002142 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684002143 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002144 ligand binding site [chemical binding]; other site 414684002145 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684002146 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002147 ligand binding site [chemical binding]; other site 414684002148 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684002149 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 414684002150 DNA binding residues [nucleotide binding] 414684002151 dimerization interface [polypeptide binding]; other site 414684002152 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684002153 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 414684002154 DNA binding residues [nucleotide binding] 414684002155 dimerization interface [polypeptide binding]; other site 414684002156 Phasin protein; Region: Phasin_2; cl11491 414684002157 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 414684002158 EamA-like transporter family; Region: EamA; cl01037 414684002159 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 414684002160 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 414684002161 N-acetyl-D-glucosamine binding site [chemical binding]; other site 414684002162 catalytic residue [active] 414684002163 Protein of unknown function (DUF465); Region: DUF465; cl01070 414684002164 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 414684002165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002166 LrgB-like family; Region: LrgB; cl00596 414684002167 LrgA family; Region: LrgA; cl00608 414684002168 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684002169 putative active site [active] 414684002170 putative metal binding site [ion binding]; other site 414684002171 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 414684002172 short chain dehydrogenase; Provisional; Region: PRK06701 414684002173 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 414684002174 NAD binding site [chemical binding]; other site 414684002175 metal binding site [ion binding]; metal-binding site 414684002176 active site 414684002177 RNA polymerase sigma factor; Provisional; Region: PRK12547 414684002178 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684002179 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 414684002180 DNA binding residues [nucleotide binding] 414684002181 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 414684002182 homodimer interface [polypeptide binding]; other site 414684002183 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 414684002184 active site pocket [active] 414684002185 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 414684002186 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 414684002187 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 414684002188 active site 414684002189 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 414684002190 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 414684002191 DEAD-like helicases superfamily; Region: DEXDc; smart00487 414684002192 ATP binding site [chemical binding]; other site 414684002193 Mg++ binding site [ion binding]; other site 414684002194 motif III; other site 414684002195 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 414684002196 nucleotide binding region [chemical binding]; other site 414684002197 ATP-binding site [chemical binding]; other site 414684002198 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 414684002199 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 414684002200 G1 box; other site 414684002201 putative GEF interaction site [polypeptide binding]; other site 414684002202 GTP/Mg2+ binding site [chemical binding]; other site 414684002203 Switch I region; other site 414684002204 G2 box; other site 414684002205 G3 box; other site 414684002206 Switch II region; other site 414684002207 G4 box; other site 414684002208 G5 box; other site 414684002209 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 414684002210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002211 dimer interface [polypeptide binding]; other site 414684002212 putative CheW interface [polypeptide binding]; other site 414684002213 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; cd06661 414684002214 putative active site pocket [active] 414684002215 dimerization interface [polypeptide binding]; other site 414684002216 putative catalytic residue [active] 414684002217 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 414684002218 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 414684002219 Uncharacterized conserved protein [Function unknown]; Region: COG2308 414684002220 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 414684002221 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 414684002222 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 414684002223 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 414684002224 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 414684002225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 414684002226 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 414684002227 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 414684002228 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684002229 MgtE intracellular N domain; Region: MgtE_N; cl15244 414684002230 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 414684002231 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 414684002232 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684002233 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002234 ligand binding site [chemical binding]; other site 414684002235 FliP family; Region: FliP; cl00593 414684002236 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 414684002237 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 414684002238 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684002239 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 414684002240 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 414684002241 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684002242 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 414684002243 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 414684002244 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 414684002245 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 414684002246 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 414684002247 PAS fold; Region: PAS_4; pfam08448 414684002248 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684002249 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 414684002250 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 414684002251 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684002252 dimer interface [polypeptide binding]; other site 414684002253 phosphorylation site [posttranslational modification] 414684002254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684002255 ATP binding site [chemical binding]; other site 414684002256 Mg2+ binding site [ion binding]; other site 414684002257 G-X-G motif; other site 414684002258 Response regulator receiver domain; Region: Response_reg; pfam00072 414684002259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002260 active site 414684002261 phosphorylation site [posttranslational modification] 414684002262 intermolecular recognition site; other site 414684002263 dimerization interface [polypeptide binding]; other site 414684002264 Cache domain; Region: Cache_2; cl07034 414684002265 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 414684002266 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684002267 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002268 dimer interface [polypeptide binding]; other site 414684002269 putative CheW interface [polypeptide binding]; other site 414684002270 Cache domain; Region: Cache_2; cl07034 414684002271 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 414684002272 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684002273 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002274 dimer interface [polypeptide binding]; other site 414684002275 putative CheW interface [polypeptide binding]; other site 414684002276 recombinase A; Provisional; Region: recA; PRK09354 414684002277 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 414684002278 hexamer interface [polypeptide binding]; other site 414684002279 Walker A motif; other site 414684002280 ATP binding site [chemical binding]; other site 414684002281 Walker B motif; other site 414684002282 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 414684002283 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 414684002284 motif 1; other site 414684002285 active site 414684002286 motif 2; other site 414684002287 motif 3; other site 414684002288 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 414684002289 DHHA1 domain; Region: DHHA1; pfam02272 414684002290 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684002291 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 414684002292 Walker A motif; other site 414684002293 ATP binding site [chemical binding]; other site 414684002294 Walker B motif; other site 414684002295 arginine finger; other site 414684002296 TIGR03440 family protein; Region: unchr_TIGR03440 414684002297 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 414684002298 probable methyltransferase; Region: TIGR03438 414684002299 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 414684002300 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 414684002301 cyclase homology domain; Region: CHD; cd07302 414684002302 nucleotidyl binding site; other site 414684002303 metal binding site [ion binding]; metal-binding site 414684002304 dimer interface [polypeptide binding]; other site 414684002305 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 414684002306 isocitrate dehydrogenase; Validated; Region: PRK09222 414684002307 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 414684002308 GcrA cell cycle regulator; Region: GcrA; cl11564 414684002309 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 414684002310 PAS fold; Region: PAS_3; pfam08447 414684002311 putative active site [active] 414684002312 heme pocket [chemical binding]; other site 414684002313 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 414684002314 PAS fold; Region: PAS_4; pfam08448 414684002315 PAS domain S-box; Region: sensory_box; TIGR00229 414684002316 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 414684002317 putative active site [active] 414684002318 heme pocket [chemical binding]; other site 414684002319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684002320 Histidine kinase; Region: HisKA_2; cl06527 414684002321 RES domain; Region: RES; cl02411 414684002322 isocitrate dehydrogenase, NADP-dependent, pseudogene;synonym identified by match to protein family HMM PF03781 414684002323 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 414684002324 Cytochrome C'; Region: Cytochrom_C_2; cl01610 414684002325 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 414684002326 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 414684002327 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 414684002328 active site 2 [active] 414684002329 active site 1 [active] 414684002330 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 414684002331 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 414684002332 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684002333 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 414684002334 active site 414684002335 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684002336 TSCPD domain; Region: TSCPD; cl14834 414684002337 Predicted integral membrane protein [Function unknown]; Region: COG0392 414684002338 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 414684002339 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 414684002340 mce related protein; Region: MCE; pfam02470 414684002341 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 414684002342 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 414684002343 S-adenosylmethionine binding site [chemical binding]; other site 414684002344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002345 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684002346 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 414684002347 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002348 dimer interface [polypeptide binding]; other site 414684002349 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684002350 putative CheW interface [polypeptide binding]; other site 414684002351 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 414684002352 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684002353 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684002354 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 414684002355 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 414684002356 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 414684002357 carboxyltransferase (CT) interaction site; other site 414684002358 biotinylation site [posttranslational modification]; other site 414684002359 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 414684002360 active site 414684002361 trimer interface [polypeptide binding]; other site 414684002362 dimer interface [polypeptide binding]; other site 414684002363 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 414684002364 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 414684002365 catalytic residues [active] 414684002366 Peptidase family M48; Region: Peptidase_M48; cl12018 414684002367 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 414684002368 binding surface 414684002369 Tetratricopeptide repeat; Region: TPR_16; pfam13432 414684002370 TPR motif; other site 414684002371 aspartate aminotransferase; Provisional; Region: PRK05764 414684002372 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 414684002373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002374 homodimer interface [polypeptide binding]; other site 414684002375 catalytic residue [active] 414684002376 Peptidase family U32; Region: Peptidase_U32; cl03113 414684002377 Peptidase family U32; Region: Peptidase_U32; cl03113 414684002378 SCP-2 sterol transfer family; Region: SCP2; cl01225 414684002379 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 414684002380 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684002381 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 414684002382 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 414684002383 Ligand Binding Site [chemical binding]; other site 414684002384 Winged helix-turn helix; Region: HTH_33; pfam13592 414684002385 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 414684002386 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 414684002387 haemagglutination activity domain; Region: Haemagg_act; cl05436 414684002388 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 414684002389 flagellin; Validated; Region: PRK08026 414684002390 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 414684002391 binding surface 414684002392 TPR motif; other site 414684002393 TPR repeat; Region: TPR_11; pfam13414 414684002394 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 414684002395 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684002396 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 414684002397 N-terminal plug; other site 414684002398 ligand-binding site [chemical binding]; other site 414684002399 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684002400 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684002401 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684002402 muropeptide transporter; Validated; Region: ampG; PRK11010 414684002403 AmpG-related permease; Region: 2A0125; TIGR00901 414684002404 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 414684002405 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 414684002406 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 414684002407 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 414684002408 active site 414684002409 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 414684002410 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 414684002411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002412 active site 414684002413 phosphorylation site [posttranslational modification] 414684002414 intermolecular recognition site; other site 414684002415 dimerization interface [polypeptide binding]; other site 414684002416 GAF domain; Region: GAF; cl15785 414684002417 PAS domain S-box; Region: sensory_box; TIGR00229 414684002418 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 414684002419 putative active site [active] 414684002420 heme pocket [chemical binding]; other site 414684002421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684002422 metal binding site [ion binding]; metal-binding site 414684002423 active site 414684002424 I-site; other site 414684002425 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 414684002426 NAD synthetase; Provisional; Region: PRK13981 414684002427 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 414684002428 multimer interface [polypeptide binding]; other site 414684002429 active site 414684002430 catalytic triad [active] 414684002431 protein interface 1 [polypeptide binding]; other site 414684002432 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 414684002433 homodimer interface [polypeptide binding]; other site 414684002434 NAD binding pocket [chemical binding]; other site 414684002435 ATP binding pocket [chemical binding]; other site 414684002436 Mg binding site [ion binding]; other site 414684002437 active-site loop [active] 414684002438 FAD dependent oxidoreductase, pseudogene;[contains] Rieske [2Fe-2S] domain 414684002439 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 414684002440 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 414684002441 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 414684002442 peptide binding site [polypeptide binding]; other site 414684002443 dimer interface [polypeptide binding]; other site 414684002444 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 414684002445 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 414684002446 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 414684002447 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 414684002448 active site 414684002449 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 414684002450 dimerization interface [polypeptide binding]; other site 414684002451 metal binding site [ion binding]; metal-binding site 414684002452 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 414684002453 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684002454 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 414684002455 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 414684002456 EF-hand domain pair; Region: EF_hand_5; pfam13499 414684002457 pseudo EF-hand loop; other site 414684002458 peptide binding pocket; other site 414684002459 Ca2+ binding site [ion binding]; other site 414684002460 enoyl-CoA hydratase; Provisional; Region: PRK06127 414684002461 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 414684002462 substrate binding site [chemical binding]; other site 414684002463 oxyanion hole (OAH) forming residues; other site 414684002464 trimer interface [polypeptide binding]; other site 414684002465 HemK family putative methylases; Region: hemK_fam; TIGR00536 414684002466 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 414684002467 S-adenosylmethionine binding site [chemical binding]; other site 414684002468 cyclase homology domain; Region: CHD; cd07302 414684002469 nucleotidyl binding site; other site 414684002470 metal binding site [ion binding]; metal-binding site 414684002471 dimer interface [polypeptide binding]; other site 414684002472 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 414684002473 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 414684002474 active site 414684002475 HIGH motif; other site 414684002476 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 414684002477 active site 414684002478 KMSKS motif; other site 414684002479 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 414684002480 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 414684002481 active site 414684002482 HIGH motif; other site 414684002483 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 414684002484 KMSKS motif; other site 414684002485 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 414684002486 tRNA binding surface [nucleotide binding]; other site 414684002487 anticodon binding site; other site 414684002488 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 414684002489 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 414684002490 active site 414684002491 catalytic residues [active] 414684002492 metal binding site [ion binding]; metal-binding site 414684002493 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 414684002494 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 414684002495 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 414684002496 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 414684002497 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 414684002498 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 414684002499 RNA binding surface [nucleotide binding]; other site 414684002500 Transposase domain (DUF772); Region: DUF772; cl15789 414684002501 Transposase domain (DUF772); Region: DUF772; cl15789 414684002502 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684002503 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 414684002504 Transposase domain (DUF772); Region: DUF772; cl15789 414684002505 Transposase domain (DUF772); Region: DUF772; cl15789 414684002506 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 414684002507 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 414684002508 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 414684002509 putative GSH binding site [chemical binding]; other site 414684002510 catalytic residues [active] 414684002511 BolA-like protein; Region: BolA; cl00386 414684002512 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 414684002513 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 414684002514 dimerization interface [polypeptide binding]; other site 414684002515 ATP binding site [chemical binding]; other site 414684002516 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 414684002517 dimerization interface [polypeptide binding]; other site 414684002518 ATP binding site [chemical binding]; other site 414684002519 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 414684002520 putative active site [active] 414684002521 catalytic triad [active] 414684002522 Sodium:solute symporter family; Region: SSF; cl00456 414684002523 Myosin tail; Region: Myosin_tail_1; pfam01576 414684002524 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684002525 dimer interface [polypeptide binding]; other site 414684002526 phosphorylation site [posttranslational modification] 414684002527 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684002528 ATP binding site [chemical binding]; other site 414684002529 Mg2+ binding site [ion binding]; other site 414684002530 G-X-G motif; other site 414684002531 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 414684002532 PAS domain; Region: PAS_9; pfam13426 414684002533 putative active site [active] 414684002534 heme pocket [chemical binding]; other site 414684002535 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 414684002536 active site 414684002537 catalytic site [active] 414684002538 substrate binding site [chemical binding]; other site 414684002539 Response regulator receiver domain; Region: Response_reg; pfam00072 414684002540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002541 active site 414684002542 phosphorylation site [posttranslational modification] 414684002543 intermolecular recognition site; other site 414684002544 dimerization interface [polypeptide binding]; other site 414684002545 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 414684002546 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 414684002547 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 414684002548 Protein export membrane protein; Region: SecD_SecF; cl14618 414684002549 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 414684002550 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 414684002551 substrate-cofactor binding pocket; other site 414684002552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002553 catalytic residue [active] 414684002554 aminotransferase; Provisional; Region: PRK06105 414684002555 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 414684002556 inhibitor-cofactor binding pocket; inhibition site 414684002557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002558 catalytic residue [active] 414684002559 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684002560 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684002561 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 414684002562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 414684002563 DNA-binding site [nucleotide binding]; DNA binding site 414684002564 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 414684002565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002566 homodimer interface [polypeptide binding]; other site 414684002567 osmolarity response regulator; Provisional; Region: ompR; PRK09468 414684002568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002569 active site 414684002570 phosphorylation site [posttranslational modification] 414684002571 intermolecular recognition site; other site 414684002572 dimerization interface [polypeptide binding]; other site 414684002573 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 414684002574 DNA binding site [nucleotide binding] 414684002575 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 414684002576 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684002577 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684002578 dimer interface [polypeptide binding]; other site 414684002579 phosphorylation site [posttranslational modification] 414684002580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684002581 ATP binding site [chemical binding]; other site 414684002582 Mg2+ binding site [ion binding]; other site 414684002583 G-X-G motif; other site 414684002584 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 414684002585 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 414684002586 metal binding site [ion binding]; metal-binding site 414684002587 putative dimer interface [polypeptide binding]; other site 414684002588 PrcB C-terminal; Region: PrcB_C; pfam14343 414684002589 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684002590 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 414684002591 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684002592 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002593 ligand binding site [chemical binding]; other site 414684002594 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 414684002595 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684002596 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 414684002597 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 414684002598 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 414684002599 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 414684002600 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 414684002601 Protein export membrane protein; Region: SecD_SecF; cl14618 414684002602 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 414684002603 Protein export membrane protein; Region: SecD_SecF; cl14618 414684002604 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684002605 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 414684002606 DNA binding residues [nucleotide binding] 414684002607 dimer interface [polypeptide binding]; other site 414684002608 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684002609 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 414684002610 active site 414684002611 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684002612 substrate binding site [chemical binding]; other site 414684002613 catalytic residues [active] 414684002614 dimer interface [polypeptide binding]; other site 414684002615 SET domain; Region: SET; cl02566 414684002616 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 414684002617 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684002618 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 414684002619 FAD binding site [chemical binding]; other site 414684002620 substrate binding site [chemical binding]; other site 414684002621 catalytic base [active] 414684002622 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 414684002623 putative catalytic site [active] 414684002624 putative metal binding site [ion binding]; other site 414684002625 putative phosphate binding site [ion binding]; other site 414684002626 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 414684002627 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 414684002628 putative catalytic site [active] 414684002629 putative phosphate binding site [ion binding]; other site 414684002630 active site 414684002631 metal binding site A [ion binding]; metal-binding site 414684002632 DNA binding site [nucleotide binding] 414684002633 putative AP binding site [nucleotide binding]; other site 414684002634 putative metal binding site B [ion binding]; other site 414684002635 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 414684002636 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 414684002637 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 414684002638 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 414684002639 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 414684002640 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 414684002641 active site 414684002642 HIGH motif; other site 414684002643 KMSK motif region; other site 414684002644 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 414684002645 tRNA binding surface [nucleotide binding]; other site 414684002646 anticodon binding site; other site 414684002647 Sporulation related domain; Region: SPOR; cl10051 414684002648 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 414684002649 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 414684002650 active site 414684002651 putative substrate binding region [chemical binding]; other site 414684002652 ScpA/B protein; Region: ScpA_ScpB; cl00598 414684002653 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 414684002654 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 414684002655 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 414684002656 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 414684002657 seryl-tRNA synthetase; Provisional; Region: PRK05431 414684002658 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 414684002659 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 414684002660 dimer interface [polypeptide binding]; other site 414684002661 active site 414684002662 motif 1; other site 414684002663 motif 2; other site 414684002664 motif 3; other site 414684002665 Survival protein SurE; Region: SurE; cl00448 414684002666 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 414684002667 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 414684002668 S-adenosylmethionine binding site [chemical binding]; other site 414684002669 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 414684002670 putative peptidoglycan binding site; other site 414684002671 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 414684002672 putative peptidoglycan binding site; other site 414684002673 Peptidase family M23; Region: Peptidase_M23; pfam01551 414684002674 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 414684002675 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 414684002676 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684002677 Preprotein translocase subunit; Region: YajC; cl00806 414684002678 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 414684002679 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 414684002680 Protein export membrane protein; Region: SecD_SecF; cl14618 414684002681 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 414684002682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002683 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 414684002684 substrate binding pocket [chemical binding]; other site 414684002685 substrate-Mg2+ binding site; other site 414684002686 aspartate-rich region 1; other site 414684002687 aspartate-rich region 2; other site 414684002688 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 414684002689 active site lid residues [active] 414684002690 catalytic residues [active] 414684002691 substrate binding pocket [chemical binding]; other site 414684002692 substrate-Mg2+ binding site; other site 414684002693 aspartate-rich region 1; other site 414684002694 aspartate-rich region 2; other site 414684002695 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 414684002696 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 414684002697 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 414684002698 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 414684002699 substrate binding pocket [chemical binding]; other site 414684002700 substrate-Mg2+ binding site; other site 414684002701 aspartate-rich region 1; other site 414684002702 aspartate-rich region 2; other site 414684002703 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 414684002704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002705 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 414684002706 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 414684002707 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 414684002708 dimerization interface [polypeptide binding]; other site 414684002709 ligand binding site [chemical binding]; other site 414684002710 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 414684002711 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 414684002712 dimerization interface [polypeptide binding]; other site 414684002713 ligand binding site [chemical binding]; other site 414684002714 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 414684002715 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684002716 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 414684002717 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 414684002718 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 414684002719 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 414684002720 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 414684002721 dimer interface [polypeptide binding]; other site 414684002722 ssDNA binding site [nucleotide binding]; other site 414684002723 tetramer (dimer of dimers) interface [polypeptide binding]; other site 414684002724 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 414684002725 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 414684002726 MatE; Region: MatE; cl10513 414684002727 MatE; Region: MatE; cl10513 414684002728 DNA gyrase subunit A; Validated; Region: PRK05560 414684002729 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 414684002730 CAP-like domain; other site 414684002731 active site 414684002732 primary dimer interface [polypeptide binding]; other site 414684002733 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002734 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002735 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002736 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002737 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002738 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002739 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 414684002740 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 414684002741 active site 414684002742 (T/H)XGH motif; other site 414684002743 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 414684002744 Sel1 repeat; Region: Sel1; cl02723 414684002745 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 414684002746 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684002747 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 414684002748 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 414684002749 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 414684002750 Walker A/P-loop; other site 414684002751 ATP binding site [chemical binding]; other site 414684002752 Q-loop/lid; other site 414684002753 ABC transporter signature motif; other site 414684002754 Walker B; other site 414684002755 D-loop; other site 414684002756 H-loop/switch region; other site 414684002757 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 414684002758 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 414684002759 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 414684002760 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 414684002761 putative MPT binding site; other site 414684002762 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 414684002763 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 414684002764 Ligand binding site; other site 414684002765 metal-binding site 414684002766 XdhC;part of the CO oxidising (Cox) system operon.possibly involved in the attachment of molybdenum to CO Dehydrogenase identified by match to protein family HMM PF01554 match to protein family HMM TIGR00797 414684002767 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 414684002768 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 414684002769 metal ion-dependent adhesion site (MIDAS); other site 414684002770 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684002771 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 414684002772 Walker A motif; other site 414684002773 ATP binding site [chemical binding]; other site 414684002774 Walker B motif; other site 414684002775 arginine finger; other site 414684002776 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 414684002777 FAD binding domain; Region: FAD_binding_4; pfam01565 414684002778 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 414684002779 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 414684002780 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 414684002781 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 414684002782 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 414684002783 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 414684002784 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 414684002785 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 414684002786 putative hydrophobic ligand binding site [chemical binding]; other site 414684002787 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; cd00625 414684002788 transmembrane helices; other site 414684002789 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 414684002790 O-methyltransferase; Region: Methyltransf_3; pfam01596 414684002791 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 414684002792 S-adenosylmethionine binding site [chemical binding]; other site 414684002793 EamA-like transporter family; Region: EamA; cl01037 414684002794 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 414684002795 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 414684002796 Winged helix-turn helix; Region: HTH_29; pfam13551 414684002797 Integrase core domain; Region: rve; cl01316 414684002798 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 414684002799 AAA domain; Region: AAA_22; pfam13401 414684002800 phage-related chromosomal replication initiator protein, pseudogene;part of the putative prophage RcenMu genome 414684002801 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 414684002802 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 414684002803 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 414684002804 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 414684002805 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 414684002806 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 414684002807 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 414684002808 Protein of unknown function (DUF935); Region: DUF935; pfam06074 414684002809 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 414684002810 Glycerate kinase family; Region: Gly_kinase; cl00841 414684002811 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 414684002812 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 414684002813 Gp37 protein; Region: Gp37; pfam09646 414684002814 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 414684002815 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 414684002816 Phage tail tube protein FII; Region: Phage_tube; cl01390 414684002817 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 414684002818 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 414684002819 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 414684002820 Phage Tail Protein X; Region: Phage_tail_X; cl02088 414684002821 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 414684002822 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 414684002823 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 414684002824 Baseplate J-like protein; Region: Baseplate_J; cl01294 414684002825 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 414684002826 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 414684002827 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 414684002828 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 414684002829 putative active site [active] 414684002830 putative NTP binding site [chemical binding]; other site 414684002831 putative nucleic acid binding site [nucleotide binding]; other site 414684002832 Predicted ATPase [General function prediction only]; Region: COG5293 414684002833 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 414684002834 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 414684002835 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 414684002836 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 414684002837 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 414684002838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684002839 catalytic residue [active] 414684002840 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684002841 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 414684002842 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 414684002843 active site residue [active] 414684002844 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 414684002845 active site residue [active] 414684002846 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 414684002847 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 414684002848 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 414684002849 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 414684002850 dimer interface [polypeptide binding]; other site 414684002851 ADP-ribose binding site [chemical binding]; other site 414684002852 active site 414684002853 nudix motif; other site 414684002854 metal binding site [ion binding]; metal-binding site 414684002855 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 414684002856 OsmC-like protein; Region: OsmC; cl00767 414684002857 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 414684002858 dimer interface [polypeptide binding]; other site 414684002859 active site 414684002860 ADP-ribose binding site [chemical binding]; other site 414684002861 nudix motif; other site 414684002862 metal binding site [ion binding]; metal-binding site 414684002863 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 414684002864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002865 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 414684002866 active site residue [active] 414684002867 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 414684002868 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 414684002869 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 414684002870 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 414684002871 HIGH motif; other site 414684002872 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 414684002873 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 414684002874 active site 414684002875 KMSKS motif; other site 414684002876 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 414684002877 tRNA binding surface [nucleotide binding]; other site 414684002878 anticodon binding site; other site 414684002879 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 414684002880 Dehydratase family; Region: ILVD_EDD; cl00340 414684002881 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 414684002882 putative active site [active] 414684002883 Transglycosylase SLT domain; Region: SLT_2; pfam13406 414684002884 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 414684002885 rare lipoprotein A; Provisional; Region: PRK10672 414684002886 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 414684002887 cell division protein FtsN; Provisional; Region: PRK12757 414684002888 Sporulation related domain; Region: SPOR; cl10051 414684002889 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 414684002890 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684002891 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 414684002892 DNA polymerase III subunit delta'; Validated; Region: PRK07471 414684002893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684002894 Walker A motif; other site 414684002895 ATP binding site [chemical binding]; other site 414684002896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684002897 Walker B motif; other site 414684002898 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 414684002899 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 414684002900 active site 414684002901 HIGH motif; other site 414684002902 KMSKS motif; other site 414684002903 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 414684002904 tRNA binding surface [nucleotide binding]; other site 414684002905 anticodon binding site; other site 414684002906 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 414684002907 active site 414684002908 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684002909 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684002910 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684002911 ATP binding site [chemical binding]; other site 414684002912 Mg2+ binding site [ion binding]; other site 414684002913 G-X-G motif; other site 414684002914 Response regulator receiver domain; Region: Response_reg; pfam00072 414684002915 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 414684002916 circadian clock protein KaiC; Reviewed; Region: PRK09302 414684002917 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684002918 Walker A motif; other site 414684002919 ATP binding site [chemical binding]; other site 414684002920 Walker B motif; other site 414684002921 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 414684002922 Walker A motif; other site 414684002923 ATP binding site [chemical binding]; other site 414684002924 Walker B motif; other site 414684002925 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 414684002926 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 414684002927 N-terminal plug; other site 414684002928 ligand-binding site [chemical binding]; other site 414684002929 Helix-turn-helix domains; Region: HTH; cl00088 414684002930 Helix-turn-helix domains; Region: HTH; cl00088 414684002931 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 414684002932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002933 dimer interface [polypeptide binding]; other site 414684002934 putative CheW interface [polypeptide binding]; other site 414684002935 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 414684002936 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 414684002937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684002938 metal binding site [ion binding]; metal-binding site 414684002939 active site 414684002940 I-site; other site 414684002941 translocation protein TolB; Provisional; Region: tolB; PRK05137 414684002942 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 414684002943 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684002944 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 414684002945 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684002946 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684002947 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684002948 hypothetical protein; Provisional; Region: PRK09126 414684002949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002950 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 414684002951 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 414684002952 N-terminal plug; other site 414684002953 ligand-binding site [chemical binding]; other site 414684002954 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 414684002955 Helix-turn-helix domains; Region: HTH; cl00088 414684002956 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 414684002957 dimerization interface [polypeptide binding]; other site 414684002958 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 414684002959 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 414684002960 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684002961 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 414684002962 LexA repressor; Validated; Region: PRK00215 414684002963 Helix-turn-helix domains; Region: HTH; cl00088 414684002964 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 414684002965 Catalytic site [active] 414684002966 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 414684002967 Competence protein; Region: Competence; cl00471 414684002968 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 414684002969 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684002970 active site 414684002971 HIGH motif; other site 414684002972 nucleotide binding site [chemical binding]; other site 414684002973 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 414684002974 active site 414684002975 KMSKS motif; other site 414684002976 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 414684002977 dimer interface [polypeptide binding]; other site 414684002978 Citrate synthase; Region: Citrate_synt; pfam00285 414684002979 active site 414684002980 citrylCoA binding site [chemical binding]; other site 414684002981 NADH binding [chemical binding]; other site 414684002982 cationic pore residues; other site 414684002983 oxalacetate/citrate binding site [chemical binding]; other site 414684002984 coenzyme A binding site [chemical binding]; other site 414684002985 catalytic triad [active] 414684002986 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 414684002987 dimer interface [polypeptide binding]; other site 414684002988 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684002989 ligand binding site [chemical binding]; other site 414684002990 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 414684002991 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 414684002992 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 414684002993 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 414684002994 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 414684002995 active site 414684002996 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 414684002997 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 414684002998 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 414684002999 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 414684003000 trimer interface [polypeptide binding]; other site 414684003001 active site 414684003002 UDP-GlcNAc binding site [chemical binding]; other site 414684003003 lipid binding site [chemical binding]; lipid-binding site 414684003004 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 414684003005 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 414684003006 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 414684003007 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 414684003008 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 414684003009 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 414684003010 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 414684003011 Surface antigen; Region: Bac_surface_Ag; cl03097 414684003012 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 414684003013 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 414684003014 active site 414684003015 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 414684003016 protein binding site [polypeptide binding]; other site 414684003017 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 414684003018 putative substrate binding region [chemical binding]; other site 414684003019 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 414684003020 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 414684003021 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 414684003022 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 414684003023 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 414684003024 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 414684003025 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 414684003026 catalytic residue [active] 414684003027 putative FPP diphosphate binding site; other site 414684003028 putative FPP binding hydrophobic cleft; other site 414684003029 dimer interface [polypeptide binding]; other site 414684003030 putative IPP diphosphate binding site; other site 414684003031 ribosome recycling factor; Reviewed; Region: frr; PRK00083 414684003032 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 414684003033 hinge region; other site 414684003034 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 414684003035 putative nucleotide binding site [chemical binding]; other site 414684003036 uridine monophosphate binding site [chemical binding]; other site 414684003037 homohexameric interface [polypeptide binding]; other site 414684003038 elongation factor Ts; Provisional; Region: tsf; PRK09377 414684003039 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 414684003040 Elongation factor TS; Region: EF_TS; pfam00889 414684003041 Elongation factor TS; Region: EF_TS; pfam00889 414684003042 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 414684003043 rRNA interaction site [nucleotide binding]; other site 414684003044 S8 interaction site; other site 414684003045 putative laminin-1 binding site; other site 414684003046 UTRA domain; Region: UTRA; cl01230 414684003047 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 414684003048 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 414684003049 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 414684003050 generic binding surface II; other site 414684003051 generic binding surface I; other site 414684003052 EamA-like transporter family; Region: EamA; cl01037 414684003053 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 414684003054 EamA-like transporter family; Region: EamA; cl01037 414684003055 DNA-3-methyladenine glycosylase, pseudogene;identified by match to protein family HMM PF03938 414684003056 DNA-3-methyladenine glycosidase II, pseudogene;identified by match to protein family HMM PF01103 match to protein family HMM PF07244 414684003057 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 414684003058 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 414684003059 Walker A/P-loop; other site 414684003060 ATP binding site [chemical binding]; other site 414684003061 Q-loop/lid; other site 414684003062 ABC transporter signature motif; other site 414684003063 Walker B; other site 414684003064 D-loop; other site 414684003065 H-loop/switch region; other site 414684003066 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 414684003067 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684003068 FtsX-like permease family; Region: FtsX; cl15850 414684003069 prolyl-tRNA synthetase; Provisional; Region: PRK12325 414684003070 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 414684003071 dimer interface [polypeptide binding]; other site 414684003072 motif 1; other site 414684003073 active site 414684003074 motif 2; other site 414684003075 motif 3; other site 414684003076 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 414684003077 anticodon binding site; other site 414684003078 Phospholipid methyltransferase; Region: PEMT; cl00763 414684003079 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 414684003080 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 414684003081 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 414684003082 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684003083 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 414684003084 dimer interface [polypeptide binding]; other site 414684003085 substrate binding site [chemical binding]; other site 414684003086 metal binding site [ion binding]; metal-binding site 414684003087 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 414684003088 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684003089 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 414684003090 Type III pantothenate kinase; Region: Pan_kinase; cl09130 414684003091 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 414684003092 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 414684003093 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 414684003094 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 414684003095 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684003096 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 414684003097 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684003098 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 414684003099 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 414684003100 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684003101 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 414684003102 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 414684003103 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 414684003104 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 414684003105 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 414684003106 4Fe-4S binding domain; Region: Fer4; cl02805 414684003107 4Fe-4S binding domain; Region: Fer4; cl02805 414684003108 NADH dehydrogenase; Region: NADHdh; cl00469 414684003109 NADH dehydrogenase subunit G; Validated; Region: PRK09130 414684003110 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 414684003111 catalytic loop [active] 414684003112 iron binding site [ion binding]; other site 414684003113 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 414684003114 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 414684003115 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 414684003116 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 414684003117 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 414684003118 SLBB domain; Region: SLBB; pfam10531 414684003119 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 414684003120 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 414684003121 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 414684003122 putative dimer interface [polypeptide binding]; other site 414684003123 [2Fe-2S] cluster binding site [ion binding]; other site 414684003124 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 414684003125 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 414684003126 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 414684003127 NADH dehydrogenase subunit B; Validated; Region: PRK06411 414684003128 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 414684003129 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 414684003130 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 414684003131 IHF dimer interface [polypeptide binding]; other site 414684003132 IHF - DNA interface [nucleotide binding]; other site 414684003133 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 414684003134 Found in ATP-dependent protease La (LON); Region: LON; smart00464 414684003135 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 414684003136 Walker A motif; other site 414684003137 ATP binding site [chemical binding]; other site 414684003138 Walker B motif; other site 414684003139 arginine finger; other site 414684003140 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 414684003141 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 414684003142 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 414684003143 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 414684003144 Walker A motif; other site 414684003145 ATP binding site [chemical binding]; other site 414684003146 Walker B motif; other site 414684003147 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 414684003148 Clp protease; Region: CLP_protease; pfam00574 414684003149 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 414684003150 oligomer interface [polypeptide binding]; other site 414684003151 active site residues [active] 414684003152 trigger factor; Provisional; Region: tig; PRK01490 414684003153 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 414684003154 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 414684003155 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 414684003156 TPP-binding site [chemical binding]; other site 414684003157 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 414684003158 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 414684003159 PYR/PP interface [polypeptide binding]; other site 414684003160 dimer interface [polypeptide binding]; other site 414684003161 TPP binding site [chemical binding]; other site 414684003162 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 414684003163 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 414684003164 putative substrate binding site [chemical binding]; other site 414684003165 putative ATP binding site [chemical binding]; other site 414684003166 Domain of unknown function (DUF897); Region: DUF897; cl01312 414684003167 Nitrogen regulatory protein P-II; Region: P-II; cl00412 414684003168 Nitrogen regulatory protein P-II; Region: P-II; smart00938 414684003169 glutamine synthetase; Provisional; Region: glnA; PRK09469 414684003170 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 414684003171 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 414684003172 envelope glycoprotein C; Provisional; Region: PHA03269 414684003173 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 414684003174 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 414684003175 catalytic residues [active] 414684003176 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 414684003177 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 414684003178 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 414684003179 ATP binding site [chemical binding]; other site 414684003180 putative Mg++ binding site [ion binding]; other site 414684003181 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 414684003182 nucleotide binding region [chemical binding]; other site 414684003183 ATP-binding site [chemical binding]; other site 414684003184 TRCF domain; Region: TRCF; cl04088 414684003185 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 414684003186 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684003187 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684003188 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684003189 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 414684003190 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 414684003191 generic binding surface II; other site 414684003192 ssDNA binding site; other site 414684003193 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 414684003194 ATP binding site [chemical binding]; other site 414684003195 putative Mg++ binding site [ion binding]; other site 414684003196 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 414684003197 nucleotide binding region [chemical binding]; other site 414684003198 ATP-binding site [chemical binding]; other site 414684003199 Protein of unknown function (DUF502); Region: DUF502; cl01107 414684003200 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 414684003201 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 414684003202 malonyl-CoA binding site [chemical binding]; other site 414684003203 dimer interface [polypeptide binding]; other site 414684003204 active site 414684003205 product binding site; other site 414684003206 Phospholipid methyltransferase; Region: PEMT; cl00763 414684003207 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684003208 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 414684003209 ligand binding site [chemical binding]; other site 414684003210 flexible hinge region; other site 414684003211 Helix-turn-helix domains; Region: HTH; cl00088 414684003212 Transcriptional regulator; Region: CitT; pfam12431 414684003213 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684003214 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 414684003215 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 414684003216 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 414684003217 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 414684003218 metal-binding site [ion binding] 414684003219 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684003220 FixH; Region: FixH; cl01254 414684003221 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 414684003222 4Fe-4S binding domain; Region: Fer4_5; pfam12801 414684003223 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 414684003224 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 414684003225 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 414684003226 Cytochrome c; Region: Cytochrom_C; cl11414 414684003227 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 414684003228 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 414684003229 Low-spin heme binding site [chemical binding]; other site 414684003230 Putative water exit pathway; other site 414684003231 Binuclear center (active site) [active] 414684003232 Putative proton exit pathway; other site 414684003233 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 414684003234 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 414684003235 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 414684003236 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 414684003237 active site 414684003238 DNA binding site [nucleotide binding] 414684003239 Int/Topo IB signature motif; other site 414684003240 phage-related conserved hypothetical protein, pseudogene;identified by match to protein family HMM PF03597 match to protein family HMM TIGR00847 414684003241 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 414684003242 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 414684003243 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 414684003244 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 414684003245 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 414684003246 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 414684003247 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 414684003248 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 414684003249 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 414684003250 DHH family; Region: DHH; pfam01368 414684003251 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 414684003252 putative active site [active] 414684003253 homoserine dehydrogenase; Provisional; Region: PRK06349 414684003254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003255 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 414684003256 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 414684003257 aminotransferase; Validated; Region: PRK09148 414684003258 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 414684003259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003260 homodimer interface [polypeptide binding]; other site 414684003261 catalytic residue [active] 414684003262 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 414684003263 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 414684003264 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 414684003265 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 414684003266 trimer interface [polypeptide binding]; other site 414684003267 putative metal binding site [ion binding]; other site 414684003268 Domain of unknown function DUF29; Region: DUF29; pfam01724 414684003269 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 414684003270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003271 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 414684003272 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684003273 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 414684003274 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 414684003275 23S rRNA interface [nucleotide binding]; other site 414684003276 L3 interface [polypeptide binding]; other site 414684003277 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 414684003278 CoenzymeA binding site [chemical binding]; other site 414684003279 subunit interaction site [polypeptide binding]; other site 414684003280 PHB binding site; other site 414684003281 enoyl-CoA hydratase; Validated; Region: PRK08139 414684003282 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 414684003283 substrate binding site [chemical binding]; other site 414684003284 oxyanion hole (OAH) forming residues; other site 414684003285 trimer interface [polypeptide binding]; other site 414684003286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003287 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 414684003288 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 414684003289 homodimer interface [polypeptide binding]; other site 414684003290 substrate-cofactor binding pocket; other site 414684003291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003292 catalytic residue [active] 414684003293 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 414684003294 putative substrate translocation pore; other site 414684003295 Major Facilitator Superfamily; Region: MFS_1; pfam07690 414684003296 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 414684003297 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 414684003298 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684003299 DNA binding residues [nucleotide binding] 414684003300 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 414684003301 IHF dimer interface [polypeptide binding]; other site 414684003302 IHF - DNA interface [nucleotide binding]; other site 414684003303 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 414684003304 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 414684003305 dimer interface [polypeptide binding]; other site 414684003306 active site 414684003307 CoA binding pocket [chemical binding]; other site 414684003308 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 414684003309 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 414684003310 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 414684003311 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 414684003312 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 414684003313 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 414684003314 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 414684003315 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 414684003316 thiamine monophosphate kinase; Provisional; Region: PRK05731 414684003317 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 414684003318 ATP binding site [chemical binding]; other site 414684003319 dimerization interface [polypeptide binding]; other site 414684003320 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 414684003321 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 414684003322 homopentamer interface [polypeptide binding]; other site 414684003323 active site 414684003324 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 414684003325 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 414684003326 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; cl00522 414684003327 dimerization interface [polypeptide binding]; other site 414684003328 active site 414684003329 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 414684003330 Lumazine binding domain; Region: Lum_binding; pfam00677 414684003331 Lumazine binding domain; Region: Lum_binding; pfam00677 414684003332 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 414684003333 catalytic motif [active] 414684003334 Zn binding site [ion binding]; other site 414684003335 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 414684003336 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 414684003337 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 414684003338 ATP cone domain; Region: ATP-cone; pfam03477 414684003339 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 414684003340 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 414684003341 dimer interface [polypeptide binding]; other site 414684003342 active site 414684003343 glycine-pyridoxal phosphate binding site [chemical binding]; other site 414684003344 folate binding site [chemical binding]; other site 414684003345 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 414684003346 Predicted transcriptional regulator [Transcription]; Region: COG4957 414684003347 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 414684003348 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684003349 Helix-turn-helix domains; Region: HTH; cl00088 414684003350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003351 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 414684003352 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 414684003353 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 414684003354 substrate binding site [chemical binding]; other site 414684003355 oxyanion hole (OAH) forming residues; other site 414684003356 trimer interface [polypeptide binding]; other site 414684003357 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 414684003358 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684003359 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 414684003360 substrate binding pocket [chemical binding]; other site 414684003361 FAD binding site [chemical binding]; other site 414684003362 catalytic base [active] 414684003363 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 414684003364 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684003365 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 414684003366 putative active site [active] 414684003367 putative metal binding site [ion binding]; other site 414684003368 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 414684003369 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 414684003370 dimer interface [polypeptide binding]; other site 414684003371 allosteric magnesium binding site [ion binding]; other site 414684003372 active site 414684003373 aspartate-rich active site metal binding site; other site 414684003374 Schiff base residues; other site 414684003375 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 414684003376 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 414684003377 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684003378 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684003379 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 414684003380 dimer interface [polypeptide binding]; other site 414684003381 active site 414684003382 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684003383 catalytic residues [active] 414684003384 substrate binding site [chemical binding]; other site 414684003385 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 414684003386 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 414684003387 NAD(P) binding site [chemical binding]; other site 414684003388 catalytic residues [active] 414684003389 catalytic residues [active] 414684003390 Penicillin amidase; Region: Penicil_amidase; pfam01804 414684003391 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 414684003392 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 414684003393 active site 414684003394 Flavin Reductases; Region: FlaRed; cl00801 414684003395 flagellar motor protein MotB; Validated; Region: motB; PRK09041 414684003396 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684003397 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684003398 ligand binding site [chemical binding]; other site 414684003399 Uncharacterized conserved protein [Function unknown]; Region: COG2308 414684003400 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 414684003401 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 414684003402 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 414684003403 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 414684003404 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684003405 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 414684003406 Cytochrome c; Region: Cytochrom_C; cl11414 414684003407 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003409 active site 414684003410 phosphorylation site [posttranslational modification] 414684003411 intermolecular recognition site; other site 414684003412 dimerization interface [polypeptide binding]; other site 414684003413 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 414684003414 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 414684003415 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684003416 ATP binding site [chemical binding]; other site 414684003417 Mg2+ binding site [ion binding]; other site 414684003418 G-X-G motif; other site 414684003419 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 414684003420 anchoring element; other site 414684003421 dimer interface [polypeptide binding]; other site 414684003422 ATP binding site [chemical binding]; other site 414684003423 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 414684003424 active site 414684003425 putative metal-binding site [ion binding]; other site 414684003426 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 414684003427 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 414684003428 Isochorismatase family; Region: Isochorismatase; pfam00857 414684003429 catalytic triad [active] 414684003430 dimer interface [polypeptide binding]; other site 414684003431 conserved cis-peptide bond; other site 414684003432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684003433 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 414684003434 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 414684003435 ATP binding site [chemical binding]; other site 414684003436 Mg++ binding site [ion binding]; other site 414684003437 motif III; other site 414684003438 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 414684003439 nucleotide binding region [chemical binding]; other site 414684003440 ATP-binding site [chemical binding]; other site 414684003441 Helix-turn-helix domains; Region: HTH; cl00088 414684003442 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 414684003443 OstA-like protein; Region: OstA; cl00844 414684003444 Organic solvent tolerance protein; Region: OstA_C; pfam04453 414684003445 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 414684003446 catalytic residues [active] 414684003447 dimer interface [polypeptide binding]; other site 414684003448 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 414684003449 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 414684003450 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 414684003451 putative active site [active] 414684003452 metal binding site [ion binding]; metal-binding site 414684003453 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 414684003454 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 414684003455 Dicarboxylate transport; Region: DctA-YdbH; cl14674 414684003456 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 414684003457 active site 414684003458 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 414684003459 active site 414684003460 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 414684003461 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684003462 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684003463 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 414684003464 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684003465 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684003466 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 414684003467 SAF domain; Region: SAF; cl00555 414684003468 Flagellar L-ring protein; Region: FlgH; cl00905 414684003469 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 414684003470 Class II flagellar assembly regulator; Region: FliX; cl11677 414684003471 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 414684003472 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 414684003473 Rod binding protein; Region: Rod-binding; cl01626 414684003474 large tegument protein UL36; Provisional; Region: PHA03247 414684003475 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 414684003476 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 414684003477 FlgD Ig-like domain; Region: FlgD_ig; cl15790 414684003478 FlgD Ig-like domain; Region: FlgD_ig; cl15790 414684003479 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 414684003480 GTP-binding protein Der; Reviewed; Region: PRK00093 414684003481 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 414684003482 G1 box; other site 414684003483 GTP/Mg2+ binding site [chemical binding]; other site 414684003484 Switch I region; other site 414684003485 G2 box; other site 414684003486 Switch II region; other site 414684003487 G3 box; other site 414684003488 G4 box; other site 414684003489 G5 box; other site 414684003490 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 414684003491 G1 box; other site 414684003492 GTP/Mg2+ binding site [chemical binding]; other site 414684003493 Switch I region; other site 414684003494 G2 box; other site 414684003495 G3 box; other site 414684003496 Switch II region; other site 414684003497 G4 box; other site 414684003498 G5 box; other site 414684003499 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 414684003500 Trp docking motif [polypeptide binding]; other site 414684003501 active site 414684003502 PQQ-like domain; Region: PQQ_2; pfam13360 414684003503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 414684003504 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 414684003505 putative catalytic residue [active] 414684003506 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684003507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 414684003508 active site 414684003509 phosphorylation site [posttranslational modification] 414684003510 intermolecular recognition site; other site 414684003511 dimerization interface [polypeptide binding]; other site 414684003512 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 414684003513 DNA binding residues [nucleotide binding] 414684003514 dimerization interface [polypeptide binding]; other site 414684003515 transcriptional regulator NarP; Provisional; Region: PRK10403 414684003516 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 414684003517 DNA binding residues [nucleotide binding] 414684003518 dimerization interface [polypeptide binding]; other site 414684003519 transcriptional regulator NarL; Provisional; Region: PRK10651 414684003520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003521 active site 414684003522 phosphorylation site [posttranslational modification] 414684003523 intermolecular recognition site; other site 414684003524 dimerization interface [polypeptide binding]; other site 414684003525 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 414684003526 DNA binding residues [nucleotide binding] 414684003527 dimerization interface [polypeptide binding]; other site 414684003528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684003529 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 414684003530 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 414684003531 SLBB domain; Region: SLBB; pfam10531 414684003532 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 414684003533 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684003534 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 414684003535 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 414684003536 active site 414684003537 dimer interface [polypeptide binding]; other site 414684003538 AAA domain; Region: AAA_22; pfam13401 414684003539 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 414684003540 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 414684003541 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 414684003542 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684003543 NADH dehydrogenase; Region: NADHdh; cl00469 414684003544 hydrogenase 4 subunit B; Validated; Region: PRK06521 414684003545 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684003546 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 414684003547 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 414684003548 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 414684003549 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 414684003550 RNA binding site [nucleotide binding]; other site 414684003551 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 414684003552 catalytic nucleophile [active] 414684003553 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003555 active site 414684003556 phosphorylation site [posttranslational modification] 414684003557 intermolecular recognition site; other site 414684003558 dimerization interface [polypeptide binding]; other site 414684003559 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 414684003560 S-adenosylmethionine binding site [chemical binding]; other site 414684003561 Helix-turn-helix domains; Region: HTH; cl00088 414684003562 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684003563 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 414684003564 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 414684003565 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684003566 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684003567 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 414684003568 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 414684003569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003570 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003571 active site 414684003572 phosphorylation site [posttranslational modification] 414684003573 intermolecular recognition site; other site 414684003574 dimerization interface [polypeptide binding]; other site 414684003575 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 414684003576 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 414684003577 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 414684003578 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 414684003579 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 414684003580 ATP binding site [chemical binding]; other site 414684003581 putative Mg++ binding site [ion binding]; other site 414684003582 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 414684003583 nucleotide binding region [chemical binding]; other site 414684003584 ATP-binding site [chemical binding]; other site 414684003585 Helicase associated domain (HA2); Region: HA2; cl04503 414684003586 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 414684003587 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 414684003588 NMT1-like family; Region: NMT1_2; cl15260 414684003589 Protein of unknown function (DUF330); Region: DUF330; cl01135 414684003590 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 414684003591 mce related protein; Region: MCE; pfam02470 414684003592 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 414684003593 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 414684003594 Walker A/P-loop; other site 414684003595 ATP binding site [chemical binding]; other site 414684003596 Q-loop/lid; other site 414684003597 ABC transporter signature motif; other site 414684003598 Walker B; other site 414684003599 D-loop; other site 414684003600 H-loop/switch region; other site 414684003601 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 414684003602 anti sigma factor interaction site; other site 414684003603 regulatory phosphorylation site [posttranslational modification]; other site 414684003604 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 414684003605 Permease; Region: Permease; cl00510 414684003606 putative active site [active] 414684003607 catalytic site [active] 414684003608 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684003609 active site 414684003610 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 414684003611 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 414684003612 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 414684003613 Walker A/P-loop; other site 414684003614 ATP binding site [chemical binding]; other site 414684003615 Q-loop/lid; other site 414684003616 ABC transporter signature motif; other site 414684003617 Walker B; other site 414684003618 D-loop; other site 414684003619 H-loop/switch region; other site 414684003620 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 414684003621 pteridine reductase; Provisional; Region: PRK09135 414684003622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003623 NAD(P) binding site [chemical binding]; other site 414684003624 active site 414684003625 Creatinine amidohydrolase; Region: Creatininase; cl00618 414684003626 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 414684003627 active site 414684003628 metal binding site [ion binding]; metal-binding site 414684003629 hexamer interface [polypeptide binding]; other site 414684003630 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 414684003631 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 414684003632 NAD(P) binding site [chemical binding]; other site 414684003633 catalytic residues [active] 414684003634 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 414684003635 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 414684003636 oligomer interface [polypeptide binding]; other site 414684003637 active site residues [active] 414684003638 MOSC domain; Region: MOSC; pfam03473 414684003639 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 414684003640 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684003641 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 414684003642 agmatine deiminase; Region: agmatine_aguA; TIGR03380 414684003643 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 414684003644 dimer interface [polypeptide binding]; other site 414684003645 conserved gate region; other site 414684003646 putative PBP binding loops; other site 414684003647 ABC-ATPase subunit interface; other site 414684003648 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 414684003649 dimer interface [polypeptide binding]; other site 414684003650 conserved gate region; other site 414684003651 putative PBP binding loops; other site 414684003652 ABC-ATPase subunit interface; other site 414684003653 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 414684003654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684003655 Walker A/P-loop; other site 414684003656 ATP binding site [chemical binding]; other site 414684003657 Q-loop/lid; other site 414684003658 ABC transporter signature motif; other site 414684003659 Walker B; other site 414684003660 D-loop; other site 414684003661 H-loop/switch region; other site 414684003662 TOBE domain; Region: TOBE_2; cl01440 414684003663 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 414684003664 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 414684003665 putative aminotransferase; Validated; Region: PRK07480 414684003666 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 414684003667 inhibitor-cofactor binding pocket; inhibition site 414684003668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003669 catalytic residue [active] 414684003670 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 414684003671 substrate binding site [chemical binding]; other site 414684003672 oxyanion hole (OAH) forming residues; other site 414684003673 trimer interface [polypeptide binding]; other site 414684003674 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684003675 dimer interface [polypeptide binding]; other site 414684003676 phosphorylation site [posttranslational modification] 414684003677 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684003678 ATP binding site [chemical binding]; other site 414684003679 Mg2+ binding site [ion binding]; other site 414684003680 G-X-G motif; other site 414684003681 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003683 active site 414684003684 phosphorylation site [posttranslational modification] 414684003685 intermolecular recognition site; other site 414684003686 dimerization interface [polypeptide binding]; other site 414684003687 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 414684003688 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 414684003689 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 414684003690 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 414684003691 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 414684003692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003693 FAD dependent oxidoreductase; Region: DAO; pfam01266 414684003694 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 414684003695 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 414684003696 inhibitor-cofactor binding pocket; inhibition site 414684003697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003698 catalytic residue [active] 414684003699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 414684003700 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 414684003701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684003702 Histidine kinase; Region: HisKA_2; cl06527 414684003703 Histidine kinase-like ATPases; This family includes several ATP-binding 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 414684003704 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 414684003705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003706 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 414684003707 NAD(P) binding site [chemical binding]; other site 414684003708 homodimer interface [polypeptide binding]; other site 414684003709 substrate binding site [chemical binding]; other site 414684003710 active site 414684003711 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 414684003712 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 414684003713 thiamine pyrophosphate protein; Validated; Region: PRK08199 414684003714 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684003715 PYR/PP interface [polypeptide binding]; other site 414684003716 dimer interface [polypeptide binding]; other site 414684003717 TPP binding site [chemical binding]; other site 414684003718 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 414684003719 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 414684003720 TPP-binding site [chemical binding]; other site 414684003721 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 414684003722 C-terminal domain interface [polypeptide binding]; other site 414684003723 GSH binding site (G-site) [chemical binding]; other site 414684003724 dimer interface [polypeptide binding]; other site 414684003725 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 414684003726 N-terminal domain interface [polypeptide binding]; other site 414684003727 dimer interface [polypeptide binding]; other site 414684003728 substrate binding pocket (H-site) [chemical binding]; other site 414684003729 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 414684003730 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 414684003731 CAP-like domain; other site 414684003732 active site 414684003733 primary dimer interface [polypeptide binding]; other site 414684003734 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 414684003735 Recombination protein O N terminal; Region: RecO_N; cl15812 414684003736 Recombination protein O C terminal; Region: RecO_C; pfam02565 414684003737 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 414684003738 PAS fold; Region: PAS_3; pfam08447 414684003739 putative active site [active] 414684003740 heme pocket [chemical binding]; other site 414684003741 putative diguanylate cyclase; Provisional; Region: PRK09776 414684003742 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 414684003743 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 414684003744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684003745 metal binding site [ion binding]; metal-binding site 414684003746 active site 414684003747 I-site; other site 414684003748 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 414684003749 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 414684003750 GTPase Era; Reviewed; Region: era; PRK00089 414684003751 G1 box; other site 414684003752 GTP/Mg2+ binding site [chemical binding]; other site 414684003753 Switch I region; other site 414684003754 G2 box; other site 414684003755 Switch II region; other site 414684003756 G3 box; other site 414684003757 G4 box; other site 414684003758 G5 box; other site 414684003759 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 414684003760 ribonuclease III; Reviewed; Region: rnc; PRK00102 414684003761 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 414684003762 dimerization interface [polypeptide binding]; other site 414684003763 active site 414684003764 metal binding site [ion binding]; metal-binding site 414684003765 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 414684003766 dsRNA binding site [nucleotide binding]; other site 414684003767 signal peptidase I; Provisional; Region: PRK10861 414684003768 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 414684003769 Catalytic site [active] 414684003770 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 414684003771 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 414684003772 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 414684003773 active site 414684003774 hydrophilic channel; other site 414684003775 dimerization interface [polypeptide binding]; other site 414684003776 catalytic residues [active] 414684003777 active site lid [active] 414684003778 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 414684003779 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 414684003780 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 414684003781 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 414684003782 synthetase active site [active] 414684003783 NTP binding site [chemical binding]; other site 414684003784 metal binding site [ion binding]; metal-binding site 414684003785 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 414684003786 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 414684003787 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 414684003788 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 414684003789 catalytic center binding site [active] 414684003790 ATP binding site [chemical binding]; other site 414684003791 Uncharacterized conserved protein [Function unknown]; Region: COG1432 414684003792 LabA_like proteins; Region: LabA; cd10911 414684003793 putative metal binding site [ion binding]; other site 414684003794 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 414684003795 Fe-S cluster binding site [ion binding]; other site 414684003796 DNA binding site [nucleotide binding] 414684003797 active site 414684003798 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 414684003799 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 414684003800 SmpB-tmRNA interface; other site 414684003801 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 414684003802 dihydrodipicolinate synthase; Region: dapA; TIGR00674 414684003803 dimer interface [polypeptide binding]; other site 414684003804 active site 414684003805 catalytic residue [active] 414684003806 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 414684003807 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 414684003808 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 414684003809 N-acetyl-D-glucosamine binding site [chemical binding]; other site 414684003810 catalytic residue [active] 414684003811 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 414684003812 EamA-like transporter family; Region: EamA; cl01037 414684003813 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684003814 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 414684003815 non-specific DNA binding site [nucleotide binding]; other site 414684003816 salt bridge; other site 414684003817 sequence-specific DNA binding site [nucleotide binding]; other site 414684003818 L-type amino acid transporter; Region: 2A0308; TIGR00911 414684003819 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 414684003820 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 414684003821 Amidase; Region: Amidase; cl11426 414684003822 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 414684003823 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 414684003824 Membrane transport protein; Region: Mem_trans; cl09117 414684003825 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 414684003826 CoA-transferase family III; Region: CoA_transf_3; pfam02515 414684003827 Dienelactone hydrolase family; Region: DLH; pfam01738 414684003828 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 414684003829 Domain of unknown function (DUF305); Region: DUF305; cl15795 414684003830 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 414684003831 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 414684003832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003833 dihydroorotase; Validated; Region: PRK09059 414684003834 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 414684003835 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 414684003836 active site 414684003837 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 414684003838 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 414684003839 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 414684003840 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 414684003841 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 414684003842 active site 414684003843 interdomain interaction site; other site 414684003844 putative metal-binding site [ion binding]; other site 414684003845 nucleotide binding site [chemical binding]; other site 414684003846 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 414684003847 domain I; other site 414684003848 DNA binding groove [nucleotide binding] 414684003849 phosphate binding site [ion binding]; other site 414684003850 domain II; other site 414684003851 domain III; other site 414684003852 nucleotide binding site [chemical binding]; other site 414684003853 catalytic site [active] 414684003854 domain IV; other site 414684003855 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 414684003856 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 414684003857 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 414684003858 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 414684003859 ribonuclease R; Region: RNase_R; TIGR02063 414684003860 RNB domain; Region: RNB; pfam00773 414684003861 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 414684003862 RNA binding site [nucleotide binding]; other site 414684003863 C-terminal peptidase (prc); Region: prc; TIGR00225 414684003864 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 414684003865 protein binding site [polypeptide binding]; other site 414684003866 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 414684003867 Catalytic dyad [active] 414684003868 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 414684003869 response regulator PleD; Reviewed; Region: pleD; PRK09581 414684003870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003871 active site 414684003872 phosphorylation site [posttranslational modification] 414684003873 intermolecular recognition site; other site 414684003874 dimerization interface [polypeptide binding]; other site 414684003875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003876 active site 414684003877 phosphorylation site [posttranslational modification] 414684003878 intermolecular recognition site; other site 414684003879 dimerization interface [polypeptide binding]; other site 414684003880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684003881 metal binding site [ion binding]; metal-binding site 414684003882 active site 414684003883 I-site; other site 414684003884 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003886 active site 414684003887 phosphorylation site [posttranslational modification] 414684003888 intermolecular recognition site; other site 414684003889 dimerization interface [polypeptide binding]; other site 414684003890 DNA polymerase IV; Provisional; Region: PRK02794 414684003891 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 414684003892 active site 414684003893 DNA binding site [nucleotide binding] 414684003894 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 414684003895 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684003896 Helix-turn-helix domains; Region: HTH; cl00088 414684003897 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 414684003898 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684003899 metal binding site [ion binding]; metal-binding site 414684003900 active site 414684003901 I-site; other site 414684003902 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 414684003903 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 414684003904 dimer interface [polypeptide binding]; other site 414684003905 anticodon binding site; other site 414684003906 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 414684003907 homodimer interface [polypeptide binding]; other site 414684003908 motif 1; other site 414684003909 active site 414684003910 motif 2; other site 414684003911 GAD domain; Region: GAD; pfam02938 414684003912 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 414684003913 active site 414684003914 motif 3; other site 414684003915 ribonuclease D; Region: rnd; TIGR01388 414684003916 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 414684003917 catalytic site [active] 414684003918 putative active site [active] 414684003919 putative substrate binding site [chemical binding]; other site 414684003920 HRDC domain; Region: HRDC; cl02578 414684003921 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 414684003922 polyphosphate kinase; Provisional; Region: PRK05443 414684003923 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 414684003924 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 414684003925 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 414684003926 putative domain interface [polypeptide binding]; other site 414684003927 putative active site [active] 414684003928 catalytic site [active] 414684003929 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 414684003930 putative domain interface [polypeptide binding]; other site 414684003931 putative active site [active] 414684003932 catalytic site [active] 414684003933 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 414684003934 catalytic core [active] 414684003935 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 414684003936 putative active site [active] 414684003937 putative metal binding residues [ion binding]; other site 414684003938 signature motif; other site 414684003939 putative triphosphate binding site [ion binding]; other site 414684003940 CHAD domain; Region: CHAD; cl10506 414684003941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684003942 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 414684003943 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 414684003944 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684003945 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 414684003946 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 414684003947 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 414684003948 dimerization interface [polypeptide binding]; other site 414684003949 putative ATP binding site [chemical binding]; other site 414684003950 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 414684003951 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 414684003952 active site 414684003953 substrate binding site [chemical binding]; other site 414684003954 cosubstrate binding site; other site 414684003955 catalytic site [active] 414684003956 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 414684003957 active site 414684003958 multimer interface [polypeptide binding]; other site 414684003959 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 414684003960 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 414684003961 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 414684003962 ABC transporter; Region: ABC_tran_2; pfam12848 414684003963 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 414684003964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003965 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 414684003966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003967 NAD(P) binding site [chemical binding]; other site 414684003968 active site 414684003969 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684003970 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684003971 hypothetical protein; Provisional; Region: PRK11820 414684003972 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 414684003973 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 414684003974 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 414684003975 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 414684003976 catalytic site [active] 414684003977 G-X2-G-X-G-K; other site 414684003978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003979 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 414684003980 SurA N-terminal domain; Region: SurA_N_3; cl07813 414684003981 PPIC-type PPIASE domain; Region: Rotamase; cl08278 414684003982 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 414684003983 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684003984 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 414684003985 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684003986 multifunctional aminopeptidase A; Provisional; Region: PRK00913 414684003987 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 414684003988 interface (dimer of trimers) [polypeptide binding]; other site 414684003989 Substrate-binding/catalytic site; other site 414684003990 Zn-binding sites [ion binding]; other site 414684003991 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 414684003992 YceG-like family; Region: YceG; pfam02618 414684003993 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 414684003994 dimerization interface [polypeptide binding]; other site 414684003995 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 414684003996 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 414684003997 dimer interface [polypeptide binding]; other site 414684003998 active site 414684003999 Phosphopantetheine attachment site; Region: PP-binding; cl09936 414684004000 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 414684004001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004002 NAD(P) binding site [chemical binding]; other site 414684004003 active site 414684004004 Acyl transferase domain; Region: Acyl_transf_1; cl08282 414684004005 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 414684004006 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 414684004007 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 414684004008 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 414684004009 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 414684004010 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 414684004011 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 414684004012 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 414684004013 S-adenosylmethionine binding site [chemical binding]; other site 414684004014 replicative DNA helicase; Provisional; Region: PRK09165 414684004015 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 414684004016 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 414684004017 Walker A motif; other site 414684004018 ATP binding site [chemical binding]; other site 414684004019 Walker B motif; other site 414684004020 DNA binding loops [nucleotide binding] 414684004021 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 414684004022 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 414684004023 active site 414684004024 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684004025 dimer interface [polypeptide binding]; other site 414684004026 substrate binding site [chemical binding]; other site 414684004027 catalytic residues [active] 414684004028 Permease; Region: Permease; cl00510 414684004029 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 414684004030 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 414684004031 Walker A/P-loop; other site 414684004032 ATP binding site [chemical binding]; other site 414684004033 Q-loop/lid; other site 414684004034 ABC transporter signature motif; other site 414684004035 Walker B; other site 414684004036 D-loop; other site 414684004037 H-loop/switch region; other site 414684004038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684004039 AAA domain; Region: AAA_25; pfam13481 414684004040 Walker A motif; other site 414684004041 ATP binding site [chemical binding]; other site 414684004042 Walker B motif; other site 414684004043 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 414684004044 Colicin V production protein; Region: Colicin_V; cl00567 414684004045 amidophosphoribosyltransferase; Provisional; Region: PRK09123 414684004046 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 414684004047 active site 414684004048 tetramer interface [polypeptide binding]; other site 414684004049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684004050 active site 414684004051 classical (c) SDRs; Region: SDR_c; cd05233 414684004052 NAD(P) binding site [chemical binding]; other site 414684004053 active site 414684004054 choline dehydrogenase; Validated; Region: PRK02106 414684004055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004056 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 414684004057 glutathione reductase; Validated; Region: PRK06116 414684004058 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684004059 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684004060 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684004061 response regulator; Provisional; Region: PRK13435 414684004062 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 414684004063 active site 414684004064 phosphorylation site [posttranslational modification] 414684004065 intermolecular recognition site; other site 414684004066 dimerization interface [polypeptide binding]; other site 414684004067 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 414684004068 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 414684004069 tetramerization interface [polypeptide binding]; other site 414684004070 NAD(P) binding site [chemical binding]; other site 414684004071 catalytic residues [active] 414684004072 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 414684004073 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 414684004074 Substrate binding site; other site 414684004075 Mg++ binding site; other site 414684004076 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 414684004077 active site 414684004078 substrate binding site [chemical binding]; other site 414684004079 CoA binding site [chemical binding]; other site 414684004080 phosphoglycolate phosphatase; Provisional; Region: PRK13222 414684004081 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684004082 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 414684004083 motif II; other site 414684004084 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 414684004085 Dynamin family; Region: Dynamin_N; pfam00350 414684004086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684004087 G1 box; other site 414684004088 GTP/Mg2+ binding site [chemical binding]; other site 414684004089 G2 box; other site 414684004090 Switch I region; other site 414684004091 G3 box; other site 414684004092 Switch II region; other site 414684004093 G4 box; other site 414684004094 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 414684004095 Staphylococcal nuclease homologues; Region: SNc; smart00318 414684004096 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 414684004097 Catalytic site; other site 414684004098 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 414684004099 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 414684004100 active site 414684004101 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 414684004102 dinuclear metal binding motif [ion binding]; other site 414684004103 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684004104 peptide chain release factor 2; Provisional; Region: PRK07342 414684004105 RF-1 domain; Region: RF-1; cl02875 414684004106 RF-1 domain; Region: RF-1; cl02875 414684004107 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684004108 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 414684004109 Transglycosylase; Region: Transgly; cl07896 414684004110 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684004111 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684004112 AMIN domain; Region: AMIN; pfam11741 414684004113 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 414684004114 active site 414684004115 metal binding site [ion binding]; metal-binding site 414684004116 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 414684004117 homodimer interface [polypeptide binding]; other site 414684004118 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 414684004119 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 414684004120 Transposase domain (DUF772); Region: DUF772; cl15789 414684004121 Transposase domain (DUF772); Region: DUF772; cl15789 414684004122 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 414684004123 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 414684004124 catalytic loop [active] 414684004125 iron binding site [ion binding]; other site 414684004126 Double zinc ribbon; Region: DZR; pfam12773 414684004127 co-chaperone HscB; Provisional; Region: hscB; PRK03578 414684004128 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 414684004129 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 414684004130 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684004131 catalytic residue [active] 414684004132 Helix-turn-helix domains; Region: HTH; cl00088 414684004133 Rrf2 family protein; Region: rrf2_super; TIGR00738 414684004134 serine O-acetyltransferase; Region: cysE; TIGR01172 414684004135 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 414684004136 trimer interface [polypeptide binding]; other site 414684004137 active site 414684004138 substrate binding site [chemical binding]; other site 414684004139 CoA binding site [chemical binding]; other site 414684004140 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 414684004141 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 414684004142 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 414684004143 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 414684004144 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 414684004145 active site 414684004146 HIGH motif; other site 414684004147 dimer interface [polypeptide binding]; other site 414684004148 KMSKS motif; other site 414684004149 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 414684004150 RNA binding surface [nucleotide binding]; other site 414684004151 Protein of unknown function; Region: DUF3971; pfam13116 414684004152 TIGR02099 family protein; Region: TIGR02099 414684004153 AsmA-like C-terminal region; Region: AsmA_2; cl15864 414684004154 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 414684004155 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684004156 metal binding triad; other site 414684004157 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 414684004158 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684004159 metal binding triad; other site 414684004160 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 414684004161 catalytic triad [active] 414684004162 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 414684004163 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 414684004164 P-loop; other site 414684004165 Magnesium ion binding site [ion binding]; other site 414684004166 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 414684004167 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 414684004168 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 414684004169 FAD binding domain; Region: FAD_binding_4; pfam01565 414684004170 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 414684004171 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 414684004172 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684004173 active site 414684004174 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 414684004175 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 414684004176 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 414684004177 RNA polymerase sigma factor; Provisional; Region: PRK11924 414684004178 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684004179 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 414684004180 DNA binding residues [nucleotide binding] 414684004181 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 414684004182 N-acetyl-D-glucosamine binding site [chemical binding]; other site 414684004183 catalytic residue [active] 414684004184 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684004185 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 414684004186 FtsX-like permease family; Region: FtsX; cl15850 414684004187 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 414684004188 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 414684004189 Walker A/P-loop; other site 414684004190 ATP binding site [chemical binding]; other site 414684004191 Q-loop/lid; other site 414684004192 ABC transporter signature motif; other site 414684004193 Walker B; other site 414684004194 D-loop; other site 414684004195 H-loop/switch region; other site 414684004196 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684004197 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 414684004198 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 414684004199 Domain of unknown function (DUF329); Region: DUF329; cl01144 414684004200 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 414684004201 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 414684004202 oligonucleotide binding site [chemical binding]; other site 414684004203 homodimer interface [polypeptide binding]; other site 414684004204 Maf-like protein; Region: Maf; pfam02545 414684004205 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 414684004206 active site 414684004207 dimer interface [polypeptide binding]; other site 414684004208 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 414684004209 rRNA binding site [nucleotide binding]; other site 414684004210 predicted 30S ribosome binding site; other site 414684004211 Low molecular weight phosphatase family; Region: LMWPc; cd00115 414684004212 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 414684004213 active site 414684004214 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 414684004215 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 414684004216 histidinol dehydrogenase; Region: hisD; TIGR00069 414684004217 NAD binding site [chemical binding]; other site 414684004218 dimerization interface [polypeptide binding]; other site 414684004219 product binding site; other site 414684004220 substrate binding site [chemical binding]; other site 414684004221 zinc binding site [ion binding]; other site 414684004222 catalytic residues [active] 414684004223 ATP phosphoribosyltransferase; Region: HisG; cl15266 414684004224 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 414684004225 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 414684004226 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 414684004227 hinge; other site 414684004228 active site 414684004229 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 414684004230 trimer interface [polypeptide binding]; other site 414684004231 active site 414684004232 Cupin domain; Region: Cupin_2; cl09118 414684004233 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684004234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004235 NAD(P) binding site [chemical binding]; other site 414684004236 active site 414684004237 Sel1 repeat; Region: Sel1; cl02723 414684004238 Sel1 repeat; Region: Sel1; cl02723 414684004239 Sel1 repeat; Region: Sel1; cl02723 414684004240 O-Antigen ligase; Region: Wzy_C; cl04850 414684004241 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 414684004242 putative active site [active] 414684004243 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 414684004244 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 414684004245 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 414684004246 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 414684004247 pyruvate phosphate dikinase; Provisional; Region: PRK09279 414684004248 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 414684004249 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 414684004250 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 414684004251 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 414684004252 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 414684004253 dimer interface [polypeptide binding]; other site 414684004254 motif 1; other site 414684004255 active site 414684004256 motif 2; other site 414684004257 motif 3; other site 414684004258 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684004259 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 414684004260 PA/protease or protease-like domain interface [polypeptide binding]; other site 414684004261 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 414684004262 metal binding site [ion binding]; metal-binding site 414684004263 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 414684004264 oligomer interface [polypeptide binding]; other site 414684004265 tandem repeat interface [polypeptide binding]; other site 414684004266 active site residues [active] 414684004267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004268 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 414684004269 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 414684004270 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 414684004271 substrate binding pocket [chemical binding]; other site 414684004272 chain length determination region; other site 414684004273 substrate-Mg2+ binding site; other site 414684004274 catalytic residues [active] 414684004275 aspartate-rich region 1; other site 414684004276 active site lid residues [active] 414684004277 aspartate-rich region 2; other site 414684004278 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684004279 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 414684004280 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 414684004281 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 414684004282 catalytic triad [active] 414684004283 metal binding site [ion binding]; metal-binding site 414684004284 conserved cis-peptide bond; other site 414684004285 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 414684004286 nucleoside/Zn binding site; other site 414684004287 dimer interface [polypeptide binding]; other site 414684004288 catalytic motif [active] 414684004289 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684004290 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 414684004291 Walker A/P-loop; other site 414684004292 ATP binding site [chemical binding]; other site 414684004293 Q-loop/lid; other site 414684004294 ABC transporter signature motif; other site 414684004295 Walker B; other site 414684004296 D-loop; other site 414684004297 H-loop/switch region; other site 414684004298 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684004299 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 414684004300 Zn binding site [ion binding]; other site 414684004301 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 414684004302 Major Facilitator Superfamily; Region: MFS_1; pfam07690 414684004303 Winged helix-turn helix; Region: HTH_29; pfam13551 414684004304 Helix-turn-helix domains; Region: HTH; cl00088 414684004305 Helix-turn-helix domains; Region: HTH; cl00088 414684004306 Winged helix-turn helix; Region: HTH_33; pfam13592 414684004307 Integrase core domain; Region: rve; cl01316 414684004308 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 414684004309 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 414684004310 Walker A motif; other site 414684004311 ATP binding site [chemical binding]; other site 414684004312 Walker B motif; other site 414684004313 arginine finger; other site 414684004314 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 414684004315 Walker A motif; other site 414684004316 ATP binding site [chemical binding]; other site 414684004317 Walker B motif; other site 414684004318 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 414684004319 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 414684004320 Phasin protein; Region: Phasin_2; cl11491 414684004321 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 414684004322 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 414684004323 active site 414684004324 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 414684004325 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684004326 Sporulation related domain; Region: SPOR; cl10051 414684004327 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 414684004328 active site 414684004329 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 414684004330 substrate binding site [chemical binding]; other site 414684004331 metal binding site [ion binding]; metal-binding site 414684004332 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 414684004333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004334 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 414684004335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004336 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 414684004337 active site 414684004338 tetramer interface; other site 414684004339 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 414684004340 HSP70 interaction site [polypeptide binding]; other site 414684004341 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 414684004342 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 414684004343 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 414684004344 active site 414684004345 catalytic site [active] 414684004346 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684004347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004348 active site 414684004349 phosphorylation site [posttranslational modification] 414684004350 intermolecular recognition site; other site 414684004351 dimerization interface [polypeptide binding]; other site 414684004352 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 414684004353 DNA binding residues [nucleotide binding] 414684004354 dimerization interface [polypeptide binding]; other site 414684004355 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 414684004356 hypothetical protein; Provisional; Region: PRK10279 414684004357 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 414684004358 active site 414684004359 nucleophile elbow; other site 414684004360 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 414684004361 HI0933-like protein; Region: HI0933_like; pfam03486 414684004362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004363 Predicted transcriptional regulator [Transcription]; Region: COG2944 414684004364 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 414684004365 Protein of unknown function (DUF497); Region: DUF497; cl01108 414684004366 RF-1 domain; Region: RF-1; cl02875 414684004367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684004368 Coenzyme A binding pocket [chemical binding]; other site 414684004369 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 414684004370 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 414684004371 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 414684004372 Mg++ binding site [ion binding]; other site 414684004373 putative catalytic motif [active] 414684004374 putative substrate binding site [chemical binding]; other site 414684004375 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684004376 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 414684004377 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684004378 catalytic residue [active] 414684004379 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 414684004380 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 414684004381 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 414684004382 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 414684004383 motif 1; other site 414684004384 dimer interface [polypeptide binding]; other site 414684004385 active site 414684004386 motif 2; other site 414684004387 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 414684004388 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 414684004389 GDP-binding site [chemical binding]; other site 414684004390 ACT binding site; other site 414684004391 IMP binding site; other site 414684004392 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684004393 active site 414684004394 ATP binding site [chemical binding]; other site 414684004395 substrate binding site [chemical binding]; other site 414684004396 activation loop (A-loop); other site 414684004397 short chain dehydrogenase; Provisional; Region: PRK06180 414684004398 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 414684004399 NADP binding site [chemical binding]; other site 414684004400 active site 414684004401 steroid binding site; other site 414684004402 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 414684004403 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 414684004404 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684004405 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 414684004406 DNA binding residues [nucleotide binding] 414684004407 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 414684004408 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 414684004409 RNA binding surface [nucleotide binding]; other site 414684004410 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 414684004411 active site 414684004412 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 414684004413 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 414684004414 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 414684004415 tetramer interface [polypeptide binding]; other site 414684004416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684004417 catalytic residue [active] 414684004418 Integrase core domain; Region: rve; cl01316 414684004419 Winged helix-turn helix; Region: HTH_29; pfam13551 414684004420 Helix-turn-helix domains; Region: HTH; cl00088 414684004421 Helix-turn-helix domains; Region: HTH; cl00088 414684004422 Winged helix-turn helix; Region: HTH_33; pfam13592 414684004423 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684004424 Family description; Region: UvrD_C_2; cl15862 414684004425 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 414684004426 Fatty acid desaturase; Region: FA_desaturase; pfam00487 414684004427 Di-iron ligands [ion binding]; other site 414684004428 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 414684004429 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 414684004430 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 414684004431 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 414684004432 DctM-like transporters; Region: DctM; pfam06808 414684004433 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 414684004434 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 414684004435 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 414684004436 substrate binding site [chemical binding]; other site 414684004437 oxyanion hole (OAH) forming residues; other site 414684004438 trimer interface [polypeptide binding]; other site 414684004439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004440 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684004441 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684004442 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 414684004443 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 414684004444 dimer interface [polypeptide binding]; other site 414684004445 active site 414684004446 Protein of unknown function (DUF454); Region: DUF454; cl01063 414684004447 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 414684004448 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 414684004449 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 414684004450 putative active site [active] 414684004451 glycogen branching enzyme; Provisional; Region: PRK05402 414684004452 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 414684004453 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 414684004454 active site 414684004455 catalytic site [active] 414684004456 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 414684004457 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 414684004458 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 414684004459 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 414684004460 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 414684004461 Walker A motif/ATP binding site; other site 414684004462 Walker B motif; other site 414684004463 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684004464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004465 active site 414684004466 phosphorylation site [posttranslational modification] 414684004467 intermolecular recognition site; other site 414684004468 dimerization interface [polypeptide binding]; other site 414684004469 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 414684004470 DNA binding site [nucleotide binding] 414684004471 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 414684004472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684004473 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 414684004474 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684004475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004476 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 414684004477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004478 active site 414684004479 phosphorylation site [posttranslational modification] 414684004480 intermolecular recognition site; other site 414684004481 dimerization interface [polypeptide binding]; other site 414684004482 CheB methylesterase; Region: CheB_methylest; pfam01339 414684004483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004484 Response regulator receiver domain; Region: Response_reg; pfam00072 414684004485 active site 414684004486 phosphorylation site [posttranslational modification] 414684004487 intermolecular recognition site; other site 414684004488 dimerization interface [polypeptide binding]; other site 414684004489 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 414684004490 putative CheA interaction surface; other site 414684004491 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 414684004492 putative binding surface; other site 414684004493 active site 414684004494 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 414684004495 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684004496 ATP binding site [chemical binding]; other site 414684004497 Mg2+ binding site [ion binding]; other site 414684004498 G-X-G motif; other site 414684004499 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 414684004500 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 414684004501 Response regulator receiver domain; Region: Response_reg; pfam00072 414684004502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004503 active site 414684004504 phosphorylation site [posttranslational modification] 414684004505 intermolecular recognition site; other site 414684004506 dimerization interface [polypeptide binding]; other site 414684004507 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 414684004508 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 414684004509 AsmA-like C-terminal region; Region: AsmA_2; cl15864 414684004510 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 414684004511 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 414684004512 FeS/SAM binding site; other site 414684004513 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 414684004514 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 414684004515 N-formylglutamate amidohydrolase; Region: FGase; cl01522 414684004516 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 414684004517 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 414684004518 putative active site [active] 414684004519 Zn binding site [ion binding]; other site 414684004520 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 414684004521 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 414684004522 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 414684004523 CreA protein; Region: CreA; pfam05981 414684004524 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 414684004525 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 414684004526 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 414684004527 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 414684004528 HRDC domain; Region: HRDC; cl02578 414684004529 SapC; Region: SapC; pfam07277 414684004530 hypothetical protein; Validated; Region: PRK07586 414684004531 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684004532 PYR/PP interface [polypeptide binding]; other site 414684004533 dimer interface [polypeptide binding]; other site 414684004534 TPP binding site [chemical binding]; other site 414684004535 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 414684004536 TPP-binding site [chemical binding]; other site 414684004537 dimer interface [polypeptide binding]; other site 414684004538 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 414684004539 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 414684004540 NAD binding site [chemical binding]; other site 414684004541 Phe binding site; other site 414684004542 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 414684004543 Response regulator receiver domain; Region: Response_reg; pfam00072 414684004544 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004545 active site 414684004546 phosphorylation site [posttranslational modification] 414684004547 intermolecular recognition site; other site 414684004548 dimerization interface [polypeptide binding]; other site 414684004549 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 414684004550 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 414684004551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004552 active site 414684004553 phosphorylation site [posttranslational modification] 414684004554 intermolecular recognition site; other site 414684004555 dimerization interface [polypeptide binding]; other site 414684004556 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 414684004557 DNA binding site [nucleotide binding] 414684004558 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 414684004559 Proline dehydrogenase; Region: Pro_dh; cl03282 414684004560 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 414684004561 Glutamate binding site [chemical binding]; other site 414684004562 NAD binding site [chemical binding]; other site 414684004563 catalytic residues [active] 414684004564 Helix-turn-helix domains; Region: HTH; cl00088 414684004565 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; cl01566 414684004566 HI0933-like protein; Region: HI0933_like; pfam03486 414684004567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004569 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684004570 putative CheW interface [polypeptide binding]; other site 414684004571 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 414684004572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004573 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 414684004574 putative L-serine binding site [chemical binding]; other site 414684004575 Protein of unknown function, DUF486; Region: DUF486; cl01236 414684004576 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; cd01494 414684004577 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684004578 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 414684004579 catalytic residue [active] 414684004580 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 414684004581 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 414684004582 putative acetyltransferase; Provisional; Region: PRK03624 414684004583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684004584 Predicted acetyltransferase [General function prediction only]; Region: COG3153 414684004585 Coenzyme A binding pocket [chemical binding]; other site 414684004586 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 414684004587 dimer interface [polypeptide binding]; other site 414684004588 substrate binding site [chemical binding]; other site 414684004589 ATP binding site [chemical binding]; other site 414684004590 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 414684004591 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 414684004592 active site 414684004593 substrate binding site [chemical binding]; other site 414684004594 metal binding site [ion binding]; metal-binding site 414684004595 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 414684004596 dihydropteroate synthase; Region: DHPS; TIGR01496 414684004597 substrate binding pocket [chemical binding]; other site 414684004598 dimer interface [polypeptide binding]; other site 414684004599 inhibitor binding site; inhibition site 414684004600 FtsH Extracellular; Region: FtsH_ext; pfam06480 414684004601 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 414684004602 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 414684004603 Walker A motif; other site 414684004604 ATP binding site [chemical binding]; other site 414684004605 Walker B motif; other site 414684004606 arginine finger; other site 414684004607 Peptidase family M41; Region: Peptidase_M41; pfam01434 414684004608 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 414684004609 Ligand Binding Site [chemical binding]; other site 414684004610 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 414684004611 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684004612 ligand binding site [chemical binding]; other site 414684004613 translocation protein TolB; Provisional; Region: tolB; PRK05137 414684004614 TolB amino-terminal domain; Region: TolB_N; cl00639 414684004615 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004616 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004617 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004618 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 414684004619 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684004620 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 414684004621 active site 414684004622 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 414684004623 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 414684004624 Walker A motif; other site 414684004625 ATP binding site [chemical binding]; other site 414684004626 Walker B motif; other site 414684004627 arginine finger; other site 414684004628 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 414684004629 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 414684004630 RuvA N terminal domain; Region: RuvA_N; pfam01330 414684004631 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 414684004632 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 414684004633 active site 414684004634 putative DNA-binding cleft [nucleotide binding]; other site 414684004635 dimer interface [polypeptide binding]; other site 414684004636 Transcriptional regulator; Region: Transcrip_reg; cl00361 414684004637 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 414684004638 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684004639 putative active site [active] 414684004640 metal binding site [ion binding]; metal-binding site 414684004641 homodimer binding site [polypeptide binding]; other site 414684004642 5-formyltetrahydrofolate cyclo-ligase, pseudogene;identified by match to protein family HMM TIGR00097 414684004643 Cell division protein ZapA; Region: ZapA; cl01146 414684004644 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 414684004645 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684004646 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684004647 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 414684004648 Walker A/P-loop; other site 414684004649 ATP binding site [chemical binding]; other site 414684004650 Q-loop/lid; other site 414684004651 ABC transporter signature motif; other site 414684004652 Walker B; other site 414684004653 D-loop; other site 414684004654 H-loop/switch region; other site 414684004655 transketolase; Reviewed; Region: PRK05899 414684004656 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 414684004657 TPP-binding site [chemical binding]; other site 414684004658 dimer interface [polypeptide binding]; other site 414684004659 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 414684004660 PYR/PP interface [polypeptide binding]; other site 414684004661 dimer interface [polypeptide binding]; other site 414684004662 TPP binding site [chemical binding]; other site 414684004663 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684004664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004665 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 414684004666 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 414684004667 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 414684004668 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 414684004669 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004670 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 414684004671 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 414684004672 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 414684004673 catalytic residue [active] 414684004674 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 414684004675 thiamine phosphate binding site [chemical binding]; other site 414684004676 active site 414684004677 pyrophosphate binding site [ion binding]; other site 414684004678 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 414684004679 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 414684004680 motif 1; other site 414684004681 dimer interface [polypeptide binding]; other site 414684004682 active site 414684004683 motif 2; other site 414684004684 motif 3; other site 414684004685 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684004686 hypothetical protein; Validated; Region: PRK09039 414684004687 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684004688 ligand binding site [chemical binding]; other site 414684004689 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 414684004690 ligand binding site [chemical binding]; other site 414684004691 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 414684004692 active site 414684004693 dimerization interface [polypeptide binding]; other site 414684004694 elongation factor P; Validated; Region: PRK00529 414684004695 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 414684004696 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 414684004697 RNA binding site [nucleotide binding]; other site 414684004698 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 414684004699 RNA binding site [nucleotide binding]; other site 414684004700 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 414684004701 TM-ABC transporter signature motif; other site 414684004702 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 414684004703 TM-ABC transporter signature motif; other site 414684004704 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 414684004705 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 414684004706 Walker A/P-loop; other site 414684004707 ATP binding site [chemical binding]; other site 414684004708 Q-loop/lid; other site 414684004709 ABC transporter signature motif; other site 414684004710 Walker B; other site 414684004711 D-loop; other site 414684004712 H-loop/switch region; other site 414684004713 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 414684004714 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 414684004715 Walker A/P-loop; other site 414684004716 ATP binding site [chemical binding]; other site 414684004717 Q-loop/lid; other site 414684004718 ABC transporter signature motif; other site 414684004719 Walker B; other site 414684004720 D-loop; other site 414684004721 H-loop/switch region; other site 414684004722 LysE type translocator; Region: LysE; cl00565 414684004723 Cache domain; Region: Cache_1; pfam02743 414684004724 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 414684004725 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684004726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684004727 dimer interface [polypeptide binding]; other site 414684004728 putative CheW interface [polypeptide binding]; other site 414684004729 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 414684004730 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 414684004731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684004732 Walker A/P-loop; other site 414684004733 ATP binding site [chemical binding]; other site 414684004734 Q-loop/lid; other site 414684004735 ABC transporter signature motif; other site 414684004736 Walker B; other site 414684004737 D-loop; other site 414684004738 H-loop/switch region; other site 414684004739 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 414684004740 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 414684004741 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 414684004742 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 414684004743 putative dimer interface [polypeptide binding]; other site 414684004744 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 414684004745 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684004746 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 414684004747 DNA binding residues [nucleotide binding] 414684004748 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 414684004749 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 414684004750 AMP-binding enzyme; Region: AMP-binding; cl15778 414684004751 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684004752 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 414684004753 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 414684004754 active site 414684004755 nucleophile elbow; other site 414684004756 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 414684004757 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 414684004758 NAD binding site [chemical binding]; other site 414684004759 homotetramer interface [polypeptide binding]; other site 414684004760 homodimer interface [polypeptide binding]; other site 414684004761 substrate binding site [chemical binding]; other site 414684004762 active site 414684004763 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 414684004764 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 414684004765 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 414684004766 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684004767 AIR carboxylase; Region: AIRC; cl00310 414684004768 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 414684004769 active site 414684004770 ADP/pyrophosphate binding site [chemical binding]; other site 414684004771 dimerization interface [polypeptide binding]; other site 414684004772 allosteric effector site; other site 414684004773 fructose-1,6-bisphosphate binding site; other site 414684004774 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 414684004775 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 414684004776 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 414684004777 active site 414684004778 Zn binding site [ion binding]; other site 414684004779 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 414684004780 Flavoprotein; Region: Flavoprotein; cl08021 414684004781 Protein of unknown function (DUF465); Region: DUF465; cl01070 414684004782 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 414684004783 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 414684004784 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 414684004785 NAD(P) binding site [chemical binding]; other site 414684004786 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 414684004787 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 414684004788 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 414684004789 Ribbon-helix-helix domain; Region: RHH_4; cl01775 414684004790 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684004791 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 414684004792 N-terminal plug; other site 414684004793 ligand-binding site [chemical binding]; other site 414684004794 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 414684004795 fumarate hydratase; Reviewed; Region: fumC; PRK00485 414684004796 Class II fumarases; Region: Fumarase_classII; cd01362 414684004797 active site 414684004798 tetramer interface [polypeptide binding]; other site 414684004799 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 414684004800 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 414684004801 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 414684004802 putative metal binding site [ion binding]; other site 414684004803 LysE type translocator; Region: LysE; cl00565 414684004804 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 414684004805 elongation factor G; Reviewed; Region: PRK12740 414684004806 G1 box; other site 414684004807 putative GEF interaction site [polypeptide binding]; other site 414684004808 GTP/Mg2+ binding site [chemical binding]; other site 414684004809 Switch I region; other site 414684004810 G2 box; other site 414684004811 G3 box; other site 414684004812 Switch II region; other site 414684004813 G4 box; other site 414684004814 G5 box; other site 414684004815 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 414684004816 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 414684004817 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 414684004818 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 414684004819 active site 414684004820 metal-binding site 414684004821 Ferritin-like domain; Region: Ferritin; pfam00210 414684004822 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 414684004823 dimerization interface [polypeptide binding]; other site 414684004824 DPS ferroxidase diiron center [ion binding]; other site 414684004825 ion pore; other site 414684004826 Ferritin-like domain; Region: Ferritin; pfam00210 414684004827 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 414684004828 dimerization interface [polypeptide binding]; other site 414684004829 DPS ferroxidase diiron center [ion binding]; other site 414684004830 ion pore; other site 414684004831 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684004832 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 414684004833 putative C-terminal domain interface [polypeptide binding]; other site 414684004834 putative GSH binding site (G-site) [chemical binding]; other site 414684004835 putative dimer interface [polypeptide binding]; other site 414684004836 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 414684004837 dimer interface [polypeptide binding]; other site 414684004838 N-terminal domain interface [polypeptide binding]; other site 414684004839 putative substrate binding pocket (H-site) [chemical binding]; other site 414684004840 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 414684004841 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 414684004842 Ligand Binding Site [chemical binding]; other site 414684004843 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 414684004844 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 414684004845 aspartate aminotransferase; Provisional; Region: PRK05764 414684004846 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 414684004847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684004848 homodimer interface [polypeptide binding]; other site 414684004849 catalytic residue [active] 414684004850 excinuclease ABC subunit B; Provisional; Region: PRK05298 414684004851 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 414684004852 ATP binding site [chemical binding]; other site 414684004853 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 414684004854 nucleotide binding region [chemical binding]; other site 414684004855 ATP-binding site [chemical binding]; other site 414684004856 Ultra-violet resistance protein B; Region: UvrB; pfam12344 414684004857 UvrB/uvrC motif; Region: UVR; pfam02151 414684004858 pteridine reductase; Provisional; Region: PRK09135 414684004859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004860 NAD(P) binding site [chemical binding]; other site 414684004861 active site 414684004862 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 414684004863 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 414684004864 GIY-YIG motif/motif A; other site 414684004865 active site 414684004866 catalytic site [active] 414684004867 putative DNA binding site [nucleotide binding]; other site 414684004868 metal binding site [ion binding]; metal-binding site 414684004869 UvrB/uvrC motif; Region: UVR; pfam02151 414684004870 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 414684004871 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684004872 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 414684004873 MoaE interaction surface [polypeptide binding]; other site 414684004874 MoeB interaction surface [polypeptide binding]; other site 414684004875 thiocarboxylated glycine; other site 414684004876 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 414684004877 MoaE homodimer interface [polypeptide binding]; other site 414684004878 MoaD interaction [polypeptide binding]; other site 414684004879 active site residues [active] 414684004880 Response regulator receiver domain; Region: Response_reg; pfam00072 414684004881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004882 active site 414684004883 phosphorylation site [posttranslational modification] 414684004884 intermolecular recognition site; other site 414684004885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684004886 dimerization interface [polypeptide binding]; other site 414684004887 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684004888 dimer interface [polypeptide binding]; other site 414684004889 phosphorylation site [posttranslational modification] 414684004890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684004891 ATP binding site [chemical binding]; other site 414684004892 Mg2+ binding site [ion binding]; other site 414684004893 G-X-G motif; other site 414684004894 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 414684004895 homodimer interface [polypeptide binding]; other site 414684004896 substrate-cofactor binding pocket; other site 414684004897 catalytic residue [active] 414684004898 Helix-turn-helix domains; Region: HTH; cl00088 414684004899 osmolarity response regulator; Provisional; Region: ompR; PRK09468 414684004900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004901 active site 414684004902 phosphorylation site [posttranslational modification] 414684004903 intermolecular recognition site; other site 414684004904 dimerization interface [polypeptide binding]; other site 414684004905 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 414684004906 DNA binding site [nucleotide binding] 414684004907 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 414684004908 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684004909 dimer interface [polypeptide binding]; other site 414684004910 phosphorylation site [posttranslational modification] 414684004911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684004912 ATP binding site [chemical binding]; other site 414684004913 Mg2+ binding site [ion binding]; other site 414684004914 G-X-G motif; other site 414684004915 Phasin protein; Region: Phasin_2; cl11491 414684004916 Helix-turn-helix domains; Region: HTH; cl00088 414684004917 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 414684004918 putative deacylase active site [active] 414684004919 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 414684004920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004921 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 414684004922 Membrane fusogenic activity; Region: BMFP; cl01115 414684004923 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 414684004924 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 414684004925 NADP binding site [chemical binding]; other site 414684004926 homopentamer interface [polypeptide binding]; other site 414684004927 substrate binding site [chemical binding]; other site 414684004928 active site 414684004929 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 414684004930 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 414684004931 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 414684004932 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 414684004933 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 414684004934 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 414684004935 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684004936 active site 414684004937 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 414684004938 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 414684004939 5S rRNA interface [nucleotide binding]; other site 414684004940 CTC domain interface [polypeptide binding]; other site 414684004941 L16 interface [polypeptide binding]; other site 414684004942 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 414684004943 putative active site [active] 414684004944 catalytic residue [active] 414684004945 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 414684004946 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 414684004947 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 414684004948 putative catalytic cysteine [active] 414684004949 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 414684004950 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 414684004951 active site 414684004952 (T/H)XGH motif; other site 414684004953 Oligomerisation domain; Region: Oligomerisation; cl00519 414684004954 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 414684004955 TPR repeat; Region: TPR_11; pfam13414 414684004956 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 414684004957 TPR motif; other site 414684004958 binding surface 414684004959 TPR repeat; Region: TPR_11; pfam13414 414684004960 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 414684004961 Ligand binding site; other site 414684004962 Putative Catalytic site; other site 414684004963 DXD motif; other site 414684004964 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 414684004965 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 414684004966 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 414684004967 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 414684004968 homotrimer interaction site [polypeptide binding]; other site 414684004969 putative active site [active] 414684004970 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684004971 Protein of unknown function, DUF482; Region: DUF482; pfam04339 414684004972 WYL domain; Region: WYL; cl14852 414684004973 HIRAN domain; Region: HIRAN; cl07418 414684004974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684004975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684004976 CRISPR/Cas system-associated protein Csx14; Region: Csx14_I-U; cd09765 414684004977 CRISPR/Cas system-associated protein Csb1; Region: Csb1_I-U; cl09834 414684004978 CRISPR/Cas system-associated protein Csb2; Region: Csb2_I-U; cl09827 414684004979 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 414684004980 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 414684004981 Protein of unknown function (DUF423); Region: DUF423; cl01008 414684004982 Secretin and TonB N terminus short domain; Region: STN; cl06624 414684004983 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684004984 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 414684004985 N-terminal plug; other site 414684004986 ligand-binding site [chemical binding]; other site 414684004987 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684004988 FecR protein; Region: FecR; pfam04773 414684004989 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 414684004990 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 414684004991 Pirin-related protein [General function prediction only]; Region: COG1741 414684004992 Cupin domain; Region: Cupin_2; cl09118 414684004993 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 414684004994 LysR family transcriptional regulator; Provisional; Region: PRK14997 414684004995 Helix-turn-helix domains; Region: HTH; cl00088 414684004996 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 414684004997 putative effector binding pocket; other site 414684004998 dimerization interface [polypeptide binding]; other site 414684004999 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 414684005000 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 414684005001 C-terminal domain interface [polypeptide binding]; other site 414684005002 GSH binding site (G-site) [chemical binding]; other site 414684005003 dimer interface [polypeptide binding]; other site 414684005004 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 414684005005 putative dimer interface [polypeptide binding]; other site 414684005006 N-terminal domain interface [polypeptide binding]; other site 414684005007 active site 414684005008 short chain dehydrogenase; Provisional; Region: PRK07576 414684005009 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 414684005010 NAD(P) binding site [chemical binding]; other site 414684005011 substrate binding site [chemical binding]; other site 414684005012 homotetramer interface [polypeptide binding]; other site 414684005013 active site 414684005014 homodimer interface [polypeptide binding]; other site 414684005015 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 414684005016 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 414684005017 active site 414684005018 thymidine kinase; Provisional; Region: PRK04296 414684005019 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 414684005020 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 414684005021 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684005022 active site 414684005023 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 414684005024 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 414684005025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005026 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684005027 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684005028 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 414684005029 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 414684005030 substrate binding site [chemical binding]; other site 414684005031 oxyanion hole (OAH) forming residues; other site 414684005032 trimer interface [polypeptide binding]; other site 414684005033 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 414684005034 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 414684005035 dimer interface [polypeptide binding]; other site 414684005036 active site 414684005037 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 414684005038 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 414684005039 DNA binding residues [nucleotide binding] 414684005040 putative dimer interface [polypeptide binding]; other site 414684005041 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 414684005042 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684005043 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 414684005044 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 414684005045 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 414684005046 substrate binding site [chemical binding]; other site 414684005047 dimer interface [polypeptide binding]; other site 414684005048 ATP binding site [chemical binding]; other site 414684005049 aminopeptidase N; Provisional; Region: pepN; PRK14015 414684005050 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 414684005051 active site 414684005052 Zn binding site [ion binding]; other site 414684005053 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 414684005054 putative ADP-ribose binding site [chemical binding]; other site 414684005055 putative active site [active] 414684005056 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 414684005057 Ligand Binding Site [chemical binding]; other site 414684005058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 414684005059 Predicted kinase [General function prediction only]; Region: COG0645 414684005060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684005061 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 414684005062 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 414684005063 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 414684005064 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 414684005065 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 414684005066 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684005067 rod shape-determining protein MreC; Region: MreC; pfam04085 414684005068 rod shape-determining protein MreB; Provisional; Region: PRK13927 414684005069 Cell division protein FtsA; Region: FtsA; cl11496 414684005070 2-isopropylmalate synthase; Validated; Region: PRK00915 414684005071 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 414684005072 active site 414684005073 catalytic residues [active] 414684005074 metal binding site [ion binding]; metal-binding site 414684005075 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 414684005076 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684005077 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684005078 ketol-acid reductoisomerase; Provisional; Region: PRK05479 414684005079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005080 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 414684005081 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 414684005082 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 414684005083 putative valine binding site [chemical binding]; other site 414684005084 dimer interface [polypeptide binding]; other site 414684005085 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 414684005086 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 414684005087 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684005088 PYR/PP interface [polypeptide binding]; other site 414684005089 dimer interface [polypeptide binding]; other site 414684005090 TPP binding site [chemical binding]; other site 414684005091 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 414684005092 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 414684005093 TPP-binding site [chemical binding]; other site 414684005094 dimer interface [polypeptide binding]; other site 414684005095 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 414684005096 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684005097 OpgC protein; Region: OpgC_C; cl00792 414684005098 phosphoserine phosphatase SerB; Region: serB; TIGR00338 414684005099 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 414684005100 motif II; other site 414684005101 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 414684005102 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 414684005103 protein binding site [polypeptide binding]; other site 414684005104 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 414684005105 protein binding site [polypeptide binding]; other site 414684005106 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 414684005107 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 414684005108 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 414684005109 HflK protein; Region: hflK; TIGR01933 414684005110 Domain of unknown function DUF59; Region: DUF59; cl00941 414684005111 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 414684005112 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 414684005113 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 414684005114 homodimer interface [polypeptide binding]; other site 414684005115 substrate-cofactor binding pocket; other site 414684005116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684005117 catalytic residue [active] 414684005118 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 414684005119 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 414684005120 dimer interface [polypeptide binding]; other site 414684005121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684005122 catalytic residue [active] 414684005123 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 414684005124 Protein of unknown function, DUF462; Region: DUF462; cl01190 414684005125 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 414684005126 folate binding site [chemical binding]; other site 414684005127 NADP+ binding site [chemical binding]; other site 414684005128 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 414684005129 Helix-turn-helix domains; Region: HTH; cl00088 414684005130 Killing trait; Region: RebB; pfam11747 414684005131 Killing trait; Region: RebB; pfam11747 414684005132 Killing trait; Region: RebB; pfam11747 414684005133 Killing trait; Region: RebB; pfam11747 414684005134 Killing trait; Region: RebB; pfam11747 414684005135 Killing trait; Region: RebB; pfam11747 414684005136 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 414684005137 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 414684005138 DNA binding residues [nucleotide binding] 414684005139 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 414684005140 dimerization interface [polypeptide binding]; other site 414684005141 active site 414684005142 Stringent starvation protein B; Region: SspB; cl01120 414684005143 TfoX N-terminal domain; Region: TfoX_N; cl01167 414684005144 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 414684005145 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 414684005146 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 414684005147 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 414684005148 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684005149 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 414684005150 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 414684005151 DNA binding residues [nucleotide binding] 414684005152 DNA primase, catalytic core; Region: dnaG; TIGR01391 414684005153 CHC2 zinc finger; Region: zf-CHC2; cl15369 414684005154 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 414684005155 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 414684005156 active site 414684005157 metal binding site [ion binding]; metal-binding site 414684005158 interdomain interaction site; other site 414684005159 GatB domain; Region: GatB_Yqey; cl11497 414684005160 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 414684005161 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 414684005162 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 414684005163 catalytic site [active] 414684005164 subunit interface [polypeptide binding]; other site 414684005165 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 414684005166 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684005167 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684005168 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 414684005169 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684005170 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684005171 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 414684005172 IMP binding site; other site 414684005173 dimer interface [polypeptide binding]; other site 414684005174 interdomain contacts; other site 414684005175 partial ornithine binding site; other site 414684005176 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 414684005177 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 414684005178 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 414684005179 Chromate transporter; Region: Chromate_transp; pfam02417 414684005180 Chromate transporter; Region: Chromate_transp; pfam02417 414684005181 Helix-turn-helix domains; Region: HTH; cl00088 414684005182 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 414684005183 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 414684005184 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 414684005185 Predicted membrane protein [Function unknown]; Region: COG3766 414684005186 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 414684005187 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 414684005188 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 414684005189 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 414684005190 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 414684005191 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684005192 DNA binding residues [nucleotide binding] 414684005193 dimer interface [polypeptide binding]; other site 414684005194 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 414684005195 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 414684005196 putative active site [active] 414684005197 putative metal binding site [ion binding]; other site 414684005198 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 414684005199 DNA photolyase; Region: DNA_photolyase; pfam00875 414684005200 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 414684005201 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 414684005202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005203 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 414684005204 Uncharacterized conserved protein [Function unknown]; Region: COG3496 414684005205 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 414684005206 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 414684005207 S-adenosylmethionine binding site [chemical binding]; other site 414684005208 MFS/sugar transport protein; Region: MFS_2; pfam13347 414684005209 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 414684005210 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 414684005211 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 414684005212 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 414684005213 S-adenosylmethionine binding site [chemical binding]; other site 414684005214 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 414684005215 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 414684005216 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 414684005217 active site 414684005218 oligoendopeptidase F; Region: pepF; TIGR00181 414684005219 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 414684005220 active site 414684005221 Zn binding site [ion binding]; other site 414684005222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684005223 putative CheW interface [polypeptide binding]; other site 414684005224 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 414684005225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684005226 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 414684005227 protein-splicing catalytic site; other site 414684005228 thioester formation/cholesterol transfer; other site 414684005229 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 414684005230 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 414684005231 Family description; Region: UvrD_C_2; cl15862 414684005232 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 414684005233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684005234 metal binding site [ion binding]; metal-binding site 414684005235 active site 414684005236 I-site; other site 414684005237 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005238 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 414684005239 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005240 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005241 methionine synt Hase fragment pseudogene 414684005242 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 414684005243 oligomeric interface; other site 414684005244 putative active site [active] 414684005245 homodimer interface [polypeptide binding]; other site 414684005246 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 414684005247 methionine synt Hase fragment pseudogene;identified by match to protein family HMM PF03738 414684005248 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 414684005249 PAS domain; Region: PAS_9; pfam13426 414684005250 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 414684005251 putative active site [active] 414684005252 PAS fold; Region: PAS_3; pfam08447 414684005253 heme pocket [chemical binding]; other site 414684005254 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684005255 Histidine kinase; Region: HisKA_2; cl06527 414684005256 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684005257 ATP binding site [chemical binding]; other site 414684005258 Mg2+ binding site [ion binding]; other site 414684005259 G-X-G motif; other site 414684005260 Beta/Gamma crystallin; Region: Crystall; cl02528 414684005261 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 414684005262 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 414684005263 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 414684005264 FAD binding site [chemical binding]; other site 414684005265 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 414684005266 dimerization interface [polypeptide binding]; other site 414684005267 putative DNA binding site [nucleotide binding]; other site 414684005268 putative Zn2+ binding site [ion binding]; other site 414684005269 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 414684005270 S-adenosylmethionine binding site [chemical binding]; other site 414684005271 VacJ like lipoprotein; Region: VacJ; cl01073 414684005272 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 414684005273 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684005274 Helix-turn-helix domains; Region: HTH; cl00088 414684005275 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 414684005276 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 414684005277 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684005278 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 414684005279 Walker A/P-loop; other site 414684005280 ATP binding site [chemical binding]; other site 414684005281 Q-loop/lid; other site 414684005282 ABC transporter signature motif; other site 414684005283 Walker B; other site 414684005284 D-loop; other site 414684005285 H-loop/switch region; other site 414684005286 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 414684005287 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684005288 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 414684005289 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 414684005290 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 414684005291 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 414684005292 ABC transporter; Region: ABC_tran_2; pfam12848 414684005293 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 414684005294 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 414684005295 Predicted membrane protein [Function unknown]; Region: COG3671 414684005296 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 414684005297 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684005298 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 414684005299 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684005300 Helix-turn-helix domains; Region: HTH; cl00088 414684005301 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 414684005302 active site 414684005303 catalytic residues [active] 414684005304 metal binding site [ion binding]; metal-binding site 414684005305 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 414684005306 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 414684005307 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 414684005308 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 414684005309 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 414684005310 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 414684005311 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 414684005312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005313 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 414684005314 active site 414684005315 metal binding site [ion binding]; metal-binding site 414684005316 nudix motif; other site 414684005317 UbiA prenyltransferase family; Region: UbiA; cl00337 414684005318 PUCC protein; Region: PUCC; pfam03209 414684005319 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 414684005320 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 414684005321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684005322 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 414684005323 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 414684005324 metal ion-dependent adhesion site (MIDAS); other site 414684005325 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 414684005326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684005327 phytoene desaturase; Region: crtI_fam; TIGR02734 414684005328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005329 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 414684005330 active site lid residues [active] 414684005331 substrate binding pocket [chemical binding]; other site 414684005332 catalytic residues [active] 414684005333 substrate-Mg2+ binding site; other site 414684005334 aspartate-rich region 1; other site 414684005335 aspartate-rich region 2; other site 414684005336 hydroxyneurosporene synt Hase (CrtC), pseudogene;[synonys] Hydroxyneurosporene synt Hase identified by match to protein family HMM PF01327 match to protein family HMM TIGR00079 414684005337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005338 phytoene desaturase; Region: crtI_fam; TIGR02734 414684005339 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 414684005340 substrate binding pocket [chemical binding]; other site 414684005341 chain length determination region; other site 414684005342 substrate-Mg2+ binding site; other site 414684005343 catalytic residues [active] 414684005344 aspartate-rich region 1; other site 414684005345 active site lid residues [active] 414684005346 aspartate-rich region 2; other site 414684005347 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 414684005348 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 414684005349 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 414684005350 putative NAD(P) binding site [chemical binding]; other site 414684005351 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684005352 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 414684005353 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 414684005354 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 414684005355 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 414684005356 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 414684005357 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 414684005358 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 414684005359 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 414684005360 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 414684005361 subunit M interface; other site 414684005362 subunit H interface; other site 414684005363 quinone binding site; other site 414684005364 bacteriopheophytin binding site; other site 414684005365 bacteriochlorophyll binding site; other site 414684005366 cytochrome C subunit interface; other site 414684005367 Fe binding site [ion binding]; other site 414684005368 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 414684005369 subunit H interface; other site 414684005370 subunit L interface; other site 414684005371 bacteriopheophytin binding site; other site 414684005372 carotenoid binding site; other site 414684005373 bacteriochlorophyll binding site; other site 414684005374 cytochrome C interface; other site 414684005375 quinone binding site; other site 414684005376 Fe binding site [ion binding]; other site 414684005377 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 414684005378 subunit interface [polypeptide binding]; other site 414684005379 Heme binding sites [chemical binding]; other site 414684005380 Cytochrome c; Region: Cytochrom_C; cl11414 414684005381 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 414684005382 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 414684005383 substrate-cofactor binding pocket; other site 414684005384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684005385 catalytic residue [active] 414684005386 Protein of unknown function (DUF3623); Region: DUF3623; cl11843 414684005387 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 414684005388 diiron binding motif [ion binding]; other site 414684005389 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 414684005390 Bacterial PH domain; Region: DUF304; cl01348 414684005391 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 414684005392 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 414684005393 subunit C interaction residues; other site 414684005394 subunit M interaction residues [polypeptide binding]; other site 414684005395 subunit L interaction residues [polypeptide binding]; other site 414684005396 putative proton transfer pathway, P1; other site 414684005397 putative proton transfer pathway, P2; other site 414684005398 PUCC protein; Region: PUCC; pfam03209 414684005399 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 414684005400 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 414684005401 S-adenosylmethionine binding site [chemical binding]; other site 414684005402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005403 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 414684005404 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 414684005405 P-loop; other site 414684005406 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 414684005407 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 414684005408 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 414684005409 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 414684005410 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 414684005411 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 414684005412 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 414684005413 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 414684005414 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 414684005415 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 414684005416 B12 binding domain; Region: B12-binding_2; cl03653 414684005417 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 414684005418 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 414684005419 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 414684005420 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 414684005421 Helix-turn-helix domains; Region: HTH; cl00088 414684005422 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 414684005423 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 414684005424 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 414684005425 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 414684005426 catalytic site [active] 414684005427 active site 414684005428 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 414684005429 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 414684005430 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 414684005431 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 414684005432 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 414684005433 diiron binding motif [ion binding]; other site 414684005434 Superfamily II helicase, archaea-specific [General function prediction only]; Region: COG1202 414684005435 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 414684005436 nucleotide binding region [chemical binding]; other site 414684005437 ATP-binding site [chemical binding]; other site 414684005438 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 414684005439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005440 active site 414684005441 phosphorylation site [posttranslational modification] 414684005442 intermolecular recognition site; other site 414684005443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005444 phosphorylation site [posttranslational modification] 414684005445 intermolecular recognition site; other site 414684005446 sensory histidine kinase AtoS; Provisional; Region: PRK11360 414684005447 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684005448 Histidine kinase; Region: HisKA_2; cl06527 414684005449 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 414684005450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005451 active site 414684005452 phosphorylation site [posttranslational modification] 414684005453 intermolecular recognition site; other site 414684005454 dimerization interface [polypeptide binding]; other site 414684005455 CheB methylesterase; Region: CheB_methylest; pfam01339 414684005456 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 414684005457 putative binding surface; other site 414684005458 active site 414684005459 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684005460 ATP binding site [chemical binding]; other site 414684005461 Mg2+ binding site [ion binding]; other site 414684005462 G-X-G motif; other site 414684005463 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 414684005464 Response regulator receiver domain; Region: Response_reg; pfam00072 414684005465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005466 active site 414684005467 phosphorylation site [posttranslational modification] 414684005468 intermolecular recognition site; other site 414684005469 dimerization interface [polypeptide binding]; other site 414684005470 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 414684005471 dimerization interface [polypeptide binding]; other site 414684005472 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684005473 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684005474 dimer interface [polypeptide binding]; other site 414684005475 putative CheW interface [polypeptide binding]; other site 414684005476 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 414684005477 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684005478 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 414684005479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005480 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 414684005481 response regulator; Provisional; Region: PRK13435 414684005482 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 414684005483 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684005484 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684005485 active site 414684005486 ATP binding site [chemical binding]; other site 414684005487 pyruvate kinase; Provisional; Region: PRK06247 414684005488 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 414684005489 domain interfaces; other site 414684005490 active site 414684005491 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 414684005492 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 414684005493 MOFRL family; Region: MOFRL; pfam05161 414684005494 N-formylglutamate amidohydrolase; Region: FGase; cl01522 414684005495 Guanine nucleotide exchange factor synembryn; Region: Ric8; pfam10165 414684005496 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 414684005497 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 414684005498 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 414684005499 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684005500 active site 414684005501 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 414684005502 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 414684005503 [2Fe-2S] cluster binding site [ion binding]; other site 414684005504 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 414684005505 hydrophobic ligand binding site; other site 414684005506 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 414684005507 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 414684005508 active site 414684005509 Zn binding site [ion binding]; other site 414684005510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005511 active site 414684005512 phosphorylation site [posttranslational modification] 414684005513 intermolecular recognition site; other site 414684005514 dimerization interface [polypeptide binding]; other site 414684005515 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684005516 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 414684005517 ligand binding site [chemical binding]; other site 414684005518 flexible hinge region; other site 414684005519 Helix-turn-helix domains; Region: HTH; cl00088 414684005520 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 414684005521 Cysteine-rich domain; Region: CCG; pfam02754 414684005522 Cysteine-rich domain; Region: CCG; pfam02754 414684005523 Protein of unknown function, DUF393; Region: DUF393; cl01136 414684005524 FAD binding domain; Region: FAD_binding_4; pfam01565 414684005525 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 414684005526 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 414684005527 FAD binding domain; Region: FAD_binding_4; pfam01565 414684005528 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 414684005529 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 414684005530 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 414684005531 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 414684005532 protein binding site [polypeptide binding]; other site 414684005533 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 414684005534 phosphoethanolamine N-methyltransferase; Region: PLN02336 414684005535 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 414684005536 S-adenosylmethionine binding site [chemical binding]; other site 414684005537 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 414684005538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005539 active site 414684005540 phosphorylation site [posttranslational modification] 414684005541 intermolecular recognition site; other site 414684005542 dimerization interface [polypeptide binding]; other site 414684005543 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 414684005544 Walker A motif; other site 414684005545 ATP binding site [chemical binding]; other site 414684005546 Walker B motif; other site 414684005547 arginine finger; other site 414684005548 Helix-turn-helix domains; Region: HTH; cl00088 414684005549 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 414684005550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005552 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 414684005553 DNA-binding site [nucleotide binding]; DNA binding site 414684005554 RNA-binding motif; other site 414684005555 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 414684005556 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 414684005557 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 414684005558 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684005559 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005560 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684005561 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005562 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005563 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 414684005564 catalytic triad [active] 414684005565 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 414684005566 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 414684005567 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 414684005568 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 414684005569 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684005570 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 414684005571 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 414684005572 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 414684005573 OsmC-like protein; Region: OsmC; cl00767 414684005574 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 414684005575 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 414684005576 tetramer interface [polypeptide binding]; other site 414684005577 heme binding pocket [chemical binding]; other site 414684005578 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684005579 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684005580 dimer interface [polypeptide binding]; other site 414684005581 putative CheW interface [polypeptide binding]; other site 414684005582 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 414684005583 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 414684005584 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 414684005585 FAD binding pocket [chemical binding]; other site 414684005586 FAD binding motif [chemical binding]; other site 414684005587 phosphate binding motif [ion binding]; other site 414684005588 beta-alpha-beta structure motif; other site 414684005589 NAD binding pocket [chemical binding]; other site 414684005590 siroheme synthase; Provisional; Region: cysG; PRK10637 414684005591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005592 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 414684005593 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 414684005594 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 414684005595 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 414684005596 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 414684005597 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 414684005598 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 414684005599 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 414684005600 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 414684005601 Active Sites [active] 414684005602 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 414684005603 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 414684005604 Active Sites [active] 414684005605 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 414684005606 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 414684005607 CysD dimerization site [polypeptide binding]; other site 414684005608 G1 box; other site 414684005609 putative GEF interaction site [polypeptide binding]; other site 414684005610 GTP/Mg2+ binding site [chemical binding]; other site 414684005611 Switch I region; other site 414684005612 G2 box; other site 414684005613 G3 box; other site 414684005614 Switch II region; other site 414684005615 G4 box; other site 414684005616 G5 box; other site 414684005617 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 414684005618 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 414684005619 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 414684005620 ligand-binding site [chemical binding]; other site 414684005621 PAS domain; Region: PAS_5; pfam07310 414684005622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 414684005623 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 414684005624 Cation transport protein; Region: TrkH; cl10514 414684005625 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 414684005626 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 414684005627 active site 414684005628 Zn binding site [ion binding]; other site 414684005629 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 414684005630 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684005631 CoA-ligase; Region: Ligase_CoA; cl02894 414684005632 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 414684005633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005634 CoA-ligase; Region: Ligase_CoA; cl02894 414684005635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 414684005636 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684005637 FlgD Ig-like domain; Region: FlgD_ig; cl15790 414684005638 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 414684005639 ApbE family; Region: ApbE; cl00643 414684005640 Sensors of blue-light using FAD; Region: BLUF; cl04855 414684005641 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 414684005642 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 414684005643 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 414684005644 P loop; other site 414684005645 GTP binding site [chemical binding]; other site 414684005646 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 414684005647 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 414684005648 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 414684005649 FeS/SAM binding site; other site 414684005650 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 414684005651 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 414684005652 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 414684005653 serine acetyltransferase; Provisional; Region: cysE; PRK11132 414684005654 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 414684005655 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 414684005656 trimer interface [polypeptide binding]; other site 414684005657 active site 414684005658 substrate binding site [chemical binding]; other site 414684005659 CoA binding site [chemical binding]; other site 414684005660 GtrA-like protein; Region: GtrA; cl00971 414684005661 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 414684005662 Ligand binding site; other site 414684005663 Putative Catalytic site; other site 414684005664 DXD motif; other site 414684005665 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684005666 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005667 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005668 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005669 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684005670 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005671 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005672 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005673 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005674 signal recognition particle protein; Provisional; Region: PRK10867 414684005675 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 414684005676 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 414684005677 P loop; other site 414684005678 GTP binding site [chemical binding]; other site 414684005679 Signal peptide binding domain; Region: SRP_SPB; pfam02978 414684005680 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684005681 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684005682 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 414684005683 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 414684005684 RimM N-terminal domain; Region: RimM; pfam01782 414684005685 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 414684005686 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 414684005687 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 414684005688 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 414684005689 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 414684005690 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005691 peptide binding site [polypeptide binding]; other site 414684005692 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 414684005693 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005694 peptide binding site [polypeptide binding]; other site 414684005695 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 414684005696 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005697 peptide binding site [polypeptide binding]; other site 414684005698 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 414684005699 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005700 peptide binding site [polypeptide binding]; other site 414684005701 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005702 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 414684005703 peptide binding site [polypeptide binding]; other site 414684005704 Helix-turn-helix domains; Region: HTH; cl00088 414684005705 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 414684005706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684005707 Walker A/P-loop; other site 414684005708 ATP binding site [chemical binding]; other site 414684005709 Q-loop/lid; other site 414684005710 ABC transporter signature motif; other site 414684005711 Walker B; other site 414684005712 D-loop; other site 414684005713 H-loop/switch region; other site 414684005714 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 414684005715 dimer interface [polypeptide binding]; other site 414684005716 conserved gate region; other site 414684005717 putative PBP binding loops; other site 414684005718 ABC-ATPase subunit interface; other site 414684005719 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 414684005720 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 414684005721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005722 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 414684005723 putative metal binding site [ion binding]; other site 414684005724 Ferredoxin [Energy production and conversion]; Region: COG1146 414684005725 4Fe-4S binding domain; Region: Fer4; cl02805 414684005726 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 414684005727 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 414684005728 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 414684005729 metal binding site [ion binding]; metal-binding site 414684005730 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 414684005731 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684005732 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 414684005733 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 414684005734 DNA binding residues [nucleotide binding] 414684005735 Cache domain; Region: Cache_1; pfam02743 414684005736 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 414684005737 cyclase homology domain; Region: CHD; cd07302 414684005738 nucleotidyl binding site; other site 414684005739 metal binding site [ion binding]; metal-binding site 414684005740 dimer interface [polypeptide binding]; other site 414684005741 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 414684005742 Peptidase family M48; Region: Peptidase_M48; cl12018 414684005743 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 414684005744 heme-binding site [chemical binding]; other site 414684005745 Phospholipid methyltransferase; Region: PEMT; cl00763 414684005746 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 414684005747 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 414684005748 potassium/proton antiporter; Reviewed; Region: PRK05326 414684005749 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 414684005750 Transporter associated domain; Region: CorC_HlyC; cl08393 414684005751 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 414684005752 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 414684005753 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 414684005754 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 414684005755 putative NADH binding site [chemical binding]; other site 414684005756 putative active site [active] 414684005757 nudix motif; other site 414684005758 putative metal binding site [ion binding]; other site 414684005759 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 414684005760 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 414684005761 dinuclear metal binding motif [ion binding]; other site 414684005762 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 414684005763 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 414684005764 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 414684005765 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 414684005766 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 414684005767 alpha subunit interaction interface [polypeptide binding]; other site 414684005768 Walker A motif; other site 414684005769 ATP binding site [chemical binding]; other site 414684005770 Walker B motif; other site 414684005771 inhibitor binding site; inhibition site 414684005772 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684005773 ATP synthase; Region: ATP-synt; cl00365 414684005774 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 414684005775 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 414684005776 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 414684005777 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 414684005778 beta subunit interaction interface [polypeptide binding]; other site 414684005779 Walker A motif; other site 414684005780 ATP binding site [chemical binding]; other site 414684005781 Walker B motif; other site 414684005782 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684005783 Plant ATP synthase F0; Region: YMF19; cl07975 414684005784 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 414684005785 colanic acid exporter; Provisional; Region: PRK10459 414684005786 MatE; Region: MatE; cl10513 414684005787 colanic acid exporter; Provisional; Region: PRK10459 414684005788 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 414684005789 active site 414684005790 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 414684005791 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 414684005792 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 414684005793 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684005794 putative active site [active] 414684005795 putative metal binding site [ion binding]; other site 414684005796 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684005797 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 414684005798 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 414684005799 primosome assembly protein PriA; Validated; Region: PRK05580 414684005800 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 414684005801 ATP binding site [chemical binding]; other site 414684005802 putative Mg++ binding site [ion binding]; other site 414684005803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684005804 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 414684005805 non-specific DNA binding site [nucleotide binding]; other site 414684005806 salt bridge; other site 414684005807 sequence-specific DNA binding site [nucleotide binding]; other site 414684005808 Protein of unknown function (DUF497); Region: DUF497; cl01108 414684005809 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 414684005810 active site 414684005811 intersubunit interactions; other site 414684005812 catalytic residue [active] 414684005813 GAF domain; Region: GAF; cl15785 414684005814 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 414684005815 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 414684005816 active site 414684005817 DNA binding site [nucleotide binding] 414684005818 Int/Topo IB signature motif; other site 414684005819 Predicted transcriptional regulator [Transcription]; Region: COG2944 414684005820 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 414684005821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005822 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684005823 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684005824 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684005825 dimer interface [polypeptide binding]; other site 414684005826 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684005827 putative CheW interface [polypeptide binding]; other site 414684005828 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684005829 dimer interface [polypeptide binding]; other site 414684005830 phosphorylation site [posttranslational modification] 414684005831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684005832 ATP binding site [chemical binding]; other site 414684005833 Mg2+ binding site [ion binding]; other site 414684005834 G-X-G motif; other site 414684005835 Response regulator receiver domain; Region: Response_reg; pfam00072 414684005836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005837 active site 414684005838 phosphorylation site [posttranslational modification] 414684005839 intermolecular recognition site; other site 414684005840 dimerization interface [polypeptide binding]; other site 414684005841 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 414684005842 E3 interaction surface; other site 414684005843 lipoyl attachment site [posttranslational modification]; other site 414684005844 e3 binding domain; Region: E3_binding; pfam02817 414684005845 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 414684005846 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 414684005847 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 414684005848 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 414684005849 TPP-binding site [chemical binding]; other site 414684005850 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 414684005851 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 414684005852 active site 414684005853 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 414684005854 active site 414684005855 catalytic motif [active] 414684005856 Zn binding site [ion binding]; other site 414684005857 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 414684005858 intersubunit interface [polypeptide binding]; other site 414684005859 active site 414684005860 catalytic residue [active] 414684005861 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 414684005862 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 414684005863 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 414684005864 active site 414684005865 catalytic site [active] 414684005866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005867 Response regulator receiver domain; Region: Response_reg; pfam00072 414684005868 active site 414684005869 phosphorylation site [posttranslational modification] 414684005870 intermolecular recognition site; other site 414684005871 dimerization interface [polypeptide binding]; other site 414684005872 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 414684005873 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 414684005874 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 414684005875 active site 414684005876 catalytic site [active] 414684005877 Predicted permeases [General function prediction only]; Region: RarD; COG2962 414684005878 EamA-like transporter family; Region: EamA; cl01037 414684005879 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 414684005880 tetramerization interface [polypeptide binding]; other site 414684005881 active site 414684005882 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 414684005883 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 414684005884 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 414684005885 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 414684005886 NMT1-like family; Region: NMT1_2; cl15260 414684005887 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 414684005888 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 414684005889 S-adenosylmethionine binding site [chemical binding]; other site 414684005890 mercuric reductase; Validated; Region: PRK06370 414684005891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684005892 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684005893 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 414684005894 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 414684005895 Ribonuclease P; Region: Ribonuclease_P; cl00457 414684005896 membrane protein insertase; Provisional; Region: PRK01318 414684005897 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 414684005898 Predicted GTPase [General function prediction only]; Region: COG0218 414684005899 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 414684005900 G1 box; other site 414684005901 GTP/Mg2+ binding site [chemical binding]; other site 414684005902 Switch I region; other site 414684005903 G2 box; other site 414684005904 G3 box; other site 414684005905 Switch II region; other site 414684005906 G4 box; other site 414684005907 G5 box; other site 414684005908 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 414684005909 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 414684005910 feedback inhibition sensing region; other site 414684005911 homohexameric interface [polypeptide binding]; other site 414684005912 nucleotide binding site [chemical binding]; other site 414684005913 N-acetyl-L-glutamate binding site [chemical binding]; other site 414684005914 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 414684005915 PAS domain S-box; Region: sensory_box; TIGR00229 414684005916 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 414684005917 putative active site [active] 414684005918 heme pocket [chemical binding]; other site 414684005919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684005920 metal binding site [ion binding]; metal-binding site 414684005921 active site 414684005922 I-site; other site 414684005923 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 414684005924 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 414684005925 motif II; other site 414684005926 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 414684005927 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 414684005928 trimer interface [polypeptide binding]; other site 414684005929 active site 414684005930 substrate binding site [chemical binding]; other site 414684005931 CoA binding site [chemical binding]; other site 414684005932 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 414684005933 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 414684005934 metal binding site [ion binding]; metal-binding site 414684005935 dimer interface [polypeptide binding]; other site 414684005936 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 414684005937 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 414684005938 dimerization interface 3.5A [polypeptide binding]; other site 414684005939 active site 414684005940 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 414684005941 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 414684005942 putative active site [active] 414684005943 substrate binding site [chemical binding]; other site 414684005944 putative cosubstrate binding site; other site 414684005945 catalytic site [active] 414684005946 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 414684005947 substrate binding site [chemical binding]; other site 414684005948 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 414684005949 active site 414684005950 catalytic residues [active] 414684005951 metal binding site [ion binding]; metal-binding site 414684005952 RmuC family; Region: RmuC; pfam02646 414684005953 HEPN domain; Region: HEPN; cl00824 414684005954 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 414684005955 active site 414684005956 NTP binding site [chemical binding]; other site 414684005957 metal binding triad [ion binding]; metal-binding site 414684005958 antibiotic binding site [chemical binding]; other site 414684005959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005960 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684005961 NAD(P) binding site [chemical binding]; other site 414684005962 active site 414684005963 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684005964 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 414684005965 recombination protein RecR; Reviewed; Region: recR; PRK00076 414684005966 RecR protein; Region: RecR; pfam02132 414684005967 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 414684005968 putative active site [active] 414684005969 putative metal-binding site [ion binding]; other site 414684005970 tetramer interface [polypeptide binding]; other site 414684005971 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 414684005972 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 414684005973 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 414684005974 Walker A motif; other site 414684005975 ATP binding site [chemical binding]; other site 414684005976 Walker B motif; other site 414684005977 arginine finger; other site 414684005978 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 414684005979 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 414684005980 Protein of unknown function, DUF488; Region: DUF488; cl01246 414684005981 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684005982 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 414684005983 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 414684005984 PA/protease or protease-like domain interface [polypeptide binding]; other site 414684005985 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 414684005986 metal binding site [ion binding]; metal-binding site 414684005987 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684005988 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 414684005989 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 414684005990 PA/protease or protease-like domain interface [polypeptide binding]; other site 414684005991 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 414684005992 metal binding site [ion binding]; metal-binding site 414684005993 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 414684005994 ribosomal protein L20; Region: rpl20; CHL00068 414684005995 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 414684005996 23S rRNA binding site [nucleotide binding]; other site 414684005997 L21 binding site [polypeptide binding]; other site 414684005998 L13 binding site [polypeptide binding]; other site 414684005999 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 414684006000 putative active site [active] 414684006001 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 414684006002 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 414684006003 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 414684006004 dimer interface [polypeptide binding]; other site 414684006005 motif 1; other site 414684006006 active site 414684006007 motif 2; other site 414684006008 motif 3; other site 414684006009 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 414684006010 PemK-like protein; Region: PemK; cl00995 414684006011 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 414684006012 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 414684006013 putative tRNA-binding site [nucleotide binding]; other site 414684006014 B3/4 domain; Region: B3_4; cl11458 414684006015 tRNA synthetase B5 domain; Region: B5; cl08394 414684006016 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 414684006017 dimer interface [polypeptide binding]; other site 414684006018 motif 3; other site 414684006019 motif 2; other site 414684006020 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 414684006021 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 414684006022 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 414684006023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684006024 dimer interface [polypeptide binding]; other site 414684006025 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684006026 putative CheW interface [polypeptide binding]; other site 414684006027 Acyltransferase family; Region: Acyl_transf_3; pfam01757 414684006028 Integral membrane protein TerC family; Region: TerC; cl10468 414684006029 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 414684006030 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 414684006031 Peptidase S46; Region: Peptidase_S46; pfam10459 414684006032 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 414684006033 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684006034 maleylacetoacetate isomerase; Region: maiA; TIGR01262 414684006035 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 414684006036 N-terminal domain interface [polypeptide binding]; other site 414684006037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 414684006038 malonyl-CoA synthase; Validated; Region: PRK07514 414684006039 AMP-binding enzyme; Region: AMP-binding; cl15778 414684006040 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684006041 NMT1-like family; Region: NMT1_2; cl15260 414684006042 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 414684006043 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 414684006044 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684006045 putative C-terminal domain interface [polypeptide binding]; other site 414684006046 putative GSH binding site (G-site) [chemical binding]; other site 414684006047 putative dimer interface [polypeptide binding]; other site 414684006048 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 414684006049 putative substrate binding pocket (H-site) [chemical binding]; other site 414684006050 putative N-terminal domain interface [polypeptide binding]; other site 414684006051 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 414684006052 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 414684006053 interface (dimer of trimers) [polypeptide binding]; other site 414684006054 Substrate-binding/catalytic site; other site 414684006055 Zn-binding sites [ion binding]; other site 414684006056 Helix-turn-helix domains; Region: HTH; cl00088 414684006057 NlpC/P60 family; Region: NLPC_P60; cl11438 414684006058 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 414684006059 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 414684006060 substrate binding site [chemical binding]; other site 414684006061 ligand binding site [chemical binding]; other site 414684006062 methyl-accepting chemotaxis protein, pseudogene;identified by match to protein family HMM PF05685 414684006063 acetyl-CoA synthetase; Provisional; Region: PRK00174 414684006064 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 414684006065 AMP-binding enzyme; Region: AMP-binding; cl15778 414684006066 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684006067 Transposase domain (DUF772); Region: DUF772; cl15789 414684006068 Transposase domain (DUF772); Region: DUF772; cl15789 414684006069 TIGR02680 family protein; Region: TIGR02680 414684006070 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 414684006071 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684006072 ligand binding site [chemical binding]; other site 414684006073 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 414684006074 Catalytic site; other site 414684006075 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 414684006076 Peptidase family M48; Region: Peptidase_M48; cl12018 414684006077 16S rRNA methyltransferase B; Provisional; Region: PRK10901 414684006078 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 414684006079 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 414684006080 S-adenosylmethionine binding site [chemical binding]; other site 414684006081 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 414684006082 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 414684006083 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 414684006084 substrate binding site [chemical binding]; other site 414684006085 hexamer interface [polypeptide binding]; other site 414684006086 metal binding site [ion binding]; metal-binding site 414684006087 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 414684006088 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 414684006089 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 414684006090 purine monophosphate binding site [chemical binding]; other site 414684006091 dimer interface [polypeptide binding]; other site 414684006092 putative catalytic residues [active] 414684006093 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 414684006094 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 414684006095 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 414684006096 iron-sulfur cluster [ion binding]; other site 414684006097 [2Fe-2S] cluster binding site [ion binding]; other site 414684006098 EVE domain; Region: EVE; cl00728 414684006099 YCII-related domain; Region: YCII; cl00999 414684006100 BON domain; Region: BON; cl02771 414684006101 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 414684006102 active site 414684006103 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 414684006104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006105 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 414684006106 UGMP family protein; Validated; Region: PRK09604 414684006107 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 414684006108 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 414684006109 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 414684006110 domain interfaces; other site 414684006111 active site 414684006112 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 414684006113 active site 414684006114 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 414684006115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 414684006116 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 414684006117 HemY protein N-terminus; Region: HemY_N; pfam07219 414684006118 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 414684006119 CobD/Cbib protein; Region: CobD_Cbib; cl00561 414684006120 Family of unknown function (DUF500); Region: DUF500; cl01109 414684006121 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 414684006122 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 414684006123 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 414684006124 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 414684006125 putative dimer interface [polypeptide binding]; other site 414684006126 active site pocket [active] 414684006127 putative cataytic base [active] 414684006128 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 414684006129 Disaggregatase related; Region: Disaggr_assoc; pfam08480 414684006130 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 414684006131 dimer interface [polypeptide binding]; other site 414684006132 putative tRNA-binding site [nucleotide binding]; other site 414684006133 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 414684006134 homodecamer interface [polypeptide binding]; other site 414684006135 GTP cyclohydrolase I; Provisional; Region: PLN03044 414684006136 active site 414684006137 putative catalytic site residues [active] 414684006138 zinc binding site [ion binding]; other site 414684006139 GTP-CH-I/GFRP interaction surface; other site 414684006140 Protein of unknown function (DUF525); Region: DUF525; cl01119 414684006141 Predicted acetyltransferase [General function prediction only]; Region: COG3153 414684006142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684006143 Coenzyme A binding pocket [chemical binding]; other site 414684006144 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 414684006145 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 414684006146 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 414684006147 ABC transporter; Region: ABC_tran_2; pfam12848 414684006148 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 414684006149 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 414684006150 HipA N-terminal domain; Region: Couple_hipA; cl11853 414684006151 HipA-like N-terminal domain; Region: HipA_N; pfam07805 414684006152 HipA-like C-terminal domain; Region: HipA_C; pfam07804 414684006153 Transposase domain (DUF772); Region: DUF772; cl15789 414684006154 Transposase domain (DUF772); Region: DUF772; cl15789 414684006155 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 414684006156 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 414684006157 Fic family protein [Function unknown]; Region: COG3177 414684006158 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 414684006159 Fic/DOC family; Region: Fic; cl00960 414684006160 Transposase; Region: DDE_Tnp_ISL3; pfam01610 414684006161 Transposase; Region: DDE_Tnp_ISL3; pfam01610 414684006162 Transposase domain (DUF772); Region: DUF772; cl15789 414684006163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684006164 Helix-turn-helix domains; Region: HTH; cl00088 414684006165 PhoD-like phosphatase; Region: PhoD; pfam09423 414684006166 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684006167 putative active site [active] 414684006168 putative metal binding site [ion binding]; other site 414684006169 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 414684006170 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684006171 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 414684006172 N-terminal plug; other site 414684006173 ligand-binding site [chemical binding]; other site 414684006174 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 414684006175 IHF dimer interface [polypeptide binding]; other site 414684006176 IHF - DNA interface [nucleotide binding]; other site 414684006177 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 414684006178 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 414684006179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 414684006181 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684006182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006183 active site 414684006184 phosphorylation site [posttranslational modification] 414684006185 intermolecular recognition site; other site 414684006186 dimerization interface [polypeptide binding]; other site 414684006187 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 414684006188 PAS fold; Region: PAS_3; pfam08447 414684006189 putative active site [active] 414684006190 heme pocket [chemical binding]; other site 414684006191 PAS domain; Region: PAS_9; pfam13426 414684006192 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 414684006193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684006194 Histidine kinase; Region: HisKA_2; cl06527 414684006195 pyruvate kinase; Validated; Region: PRK08187 414684006196 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 414684006197 domain interfaces; other site 414684006198 active site 414684006199 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 414684006200 GTP-binding protein LepA; Provisional; Region: PRK05433 414684006201 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 414684006202 G1 box; other site 414684006203 putative GEF interaction site [polypeptide binding]; other site 414684006204 GTP/Mg2+ binding site [chemical binding]; other site 414684006205 Switch I region; other site 414684006206 G2 box; other site 414684006207 G3 box; other site 414684006208 Switch II region; other site 414684006209 G4 box; other site 414684006210 G5 box; other site 414684006211 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 414684006212 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 414684006213 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 414684006214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006215 NAD(P) binding site [chemical binding]; other site 414684006216 active site 414684006217 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 414684006218 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 414684006219 EamA-like transporter family; Region: EamA; cl01037 414684006220 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 414684006221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006222 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 414684006223 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 414684006224 P-loop; other site 414684006225 Magnesium ion binding site [ion binding]; other site 414684006226 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 414684006227 putative active site [active] 414684006228 putative triphosphate binding site [ion binding]; other site 414684006229 putative metal binding residues [ion binding]; other site 414684006230 CHAD domain; Region: CHAD; cl10506 414684006231 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684006232 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684006233 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 414684006234 S-adenosylmethionine binding site [chemical binding]; other site 414684006235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684006236 Helix-turn-helix domains; Region: HTH; cl00088 414684006237 Bacterial transcriptional repressor; Region: TetR; pfam13972 414684006238 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 414684006239 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 414684006240 RNA binding surface [nucleotide binding]; other site 414684006241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684006242 ATP binding site [chemical binding]; other site 414684006243 putative Mg++ binding site [ion binding]; other site 414684006244 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 414684006245 nucleotide binding region [chemical binding]; other site 414684006246 ATP-binding site [chemical binding]; other site 414684006247 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 414684006248 phage-related protein, pseudogene;identified by match to protein family HMM PF00224 match to protein family HMM PF03328 414684006249 heat shock protein 90; Provisional; Region: PRK05218 414684006250 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006251 ATP binding site [chemical binding]; other site 414684006252 Mg2+ binding site [ion binding]; other site 414684006253 G-X-G motif; other site 414684006254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 414684006255 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 414684006256 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 414684006257 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 414684006258 Peptidase M15; Region: Peptidase_M15_3; cl01194 414684006259 NRDE protein; Region: NRDE; cl01315 414684006260 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 414684006261 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 414684006262 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 414684006263 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 414684006264 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 414684006265 ATP binding site [chemical binding]; other site 414684006266 putative Mg++ binding site [ion binding]; other site 414684006267 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 414684006268 nucleotide binding region [chemical binding]; other site 414684006269 ATP-binding site [chemical binding]; other site 414684006270 RQC domain; Region: RQC; cl09632 414684006271 HRDC domain; Region: HRDC; cl02578 414684006272 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 414684006273 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 414684006274 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 414684006275 macrolide transporter subunit MacA; Provisional; Region: PRK11578 414684006276 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 414684006277 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 414684006278 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 414684006279 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 414684006280 Walker A/P-loop; other site 414684006281 ATP binding site [chemical binding]; other site 414684006282 Q-loop/lid; other site 414684006283 ABC transporter signature motif; other site 414684006284 Walker B; other site 414684006285 D-loop; other site 414684006286 H-loop/switch region; other site 414684006287 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684006288 FtsX-like permease family; Region: FtsX; cl15850 414684006289 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 414684006290 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 414684006291 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 414684006292 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684006293 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 414684006294 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684006295 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 414684006296 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 414684006297 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 414684006298 ligand binding site [chemical binding]; other site 414684006299 flexible hinge region; other site 414684006300 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 414684006301 Ligand Binding Site [chemical binding]; other site 414684006302 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 414684006303 Ligand Binding Site [chemical binding]; other site 414684006304 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 414684006305 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 414684006306 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 414684006307 [2Fe-2S] cluster binding site [ion binding]; other site 414684006308 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 414684006309 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 414684006310 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 414684006311 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 414684006312 G1 box; other site 414684006313 GTP/Mg2+ binding site [chemical binding]; other site 414684006314 Switch I region; other site 414684006315 G2 box; other site 414684006316 G3 box; other site 414684006317 Switch II region; other site 414684006318 G4 box; other site 414684006319 G5 box; other site 414684006320 Nucleoside recognition; Region: Gate; cl00486 414684006321 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 414684006322 Nucleoside recognition; Region: Gate; cl00486 414684006323 FeoA domain; Region: FeoA; cl00838 414684006324 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 414684006325 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 414684006326 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684006327 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 414684006328 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 414684006329 active site 414684006330 tetramer interface [polypeptide binding]; other site 414684006331 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 414684006332 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684006333 Uncharacterized conserved protein [Function unknown]; Region: COG1912 414684006334 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 414684006335 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 414684006336 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 414684006337 intersubunit interface [polypeptide binding]; other site 414684006338 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 414684006339 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 414684006340 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 414684006341 dimer interface [polypeptide binding]; other site 414684006342 putative PBP binding regions; other site 414684006343 ABC-ATPase subunit interface; other site 414684006344 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 414684006345 ABC-ATPase subunit interface; other site 414684006346 dimer interface [polypeptide binding]; other site 414684006347 putative PBP binding regions; other site 414684006348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684006350 Coenzyme A binding pocket [chemical binding]; other site 414684006351 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 414684006352 Domain of unknown function (DUF305); Region: DUF305; cl15795 414684006353 Predicted integral membrane protein [Function unknown]; Region: COG5637 414684006354 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 414684006355 putative hydrophobic ligand binding site [chemical binding]; other site 414684006356 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 414684006357 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 414684006358 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 414684006359 dimerization interface [polypeptide binding]; other site 414684006360 domain crossover interface; other site 414684006361 redox-dependent activation switch; other site 414684006362 ornithine carbamoyltransferase; Provisional; Region: PRK00779 414684006363 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 414684006364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006365 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 414684006366 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 414684006367 inhibitor-cofactor binding pocket; inhibition site 414684006368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684006369 catalytic residue [active] 414684006370 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 414684006371 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 414684006372 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684006373 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 414684006374 PAS fold; Region: PAS_3; pfam08447 414684006375 putative active site [active] 414684006376 heme pocket [chemical binding]; other site 414684006377 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684006378 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 414684006379 putative active site [active] 414684006380 heme pocket [chemical binding]; other site 414684006381 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684006382 dimer interface [polypeptide binding]; other site 414684006383 phosphorylation site [posttranslational modification] 414684006384 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006385 ATP binding site [chemical binding]; other site 414684006386 Mg2+ binding site [ion binding]; other site 414684006387 G-X-G motif; other site 414684006388 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684006389 DNA polymerase I; Provisional; Region: PRK05755 414684006390 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 414684006391 active site 414684006392 metal binding site 1 [ion binding]; metal-binding site 414684006393 putative 5' ssDNA interaction site; other site 414684006394 metal binding site 3; metal-binding site 414684006395 metal binding site 2 [ion binding]; metal-binding site 414684006396 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 414684006397 putative DNA binding site [nucleotide binding]; other site 414684006398 putative metal binding site [ion binding]; other site 414684006399 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 414684006400 active site 414684006401 catalytic site [active] 414684006402 substrate binding site [chemical binding]; other site 414684006403 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 414684006404 active site 414684006405 DNA binding site [nucleotide binding] 414684006406 catalytic site [active] 414684006407 DTW domain; Region: DTW; cl01221 414684006408 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 414684006409 IHF dimer interface [polypeptide binding]; other site 414684006410 IHF - DNA interface [nucleotide binding]; other site 414684006411 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 414684006412 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 414684006413 RNA binding site [nucleotide binding]; other site 414684006414 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 414684006415 RNA binding site [nucleotide binding]; other site 414684006416 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 414684006417 RNA binding site [nucleotide binding]; other site 414684006418 S1_RPS1_repeat_ec4: 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_ec4; cd05689 414684006419 RNA binding site [nucleotide binding]; other site 414684006420 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 414684006421 RNA binding site [nucleotide binding]; other site 414684006422 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 414684006423 RNA binding site [nucleotide binding]; other site 414684006424 cytidylate kinase; Provisional; Region: cmk; PRK00023 414684006425 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 414684006426 CMP-binding site; other site 414684006427 The sites determining sugar specificity; other site 414684006428 PemK-like protein; Region: PemK; cl00995 414684006429 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 414684006430 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 414684006431 putative active site [active] 414684006432 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 414684006433 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 414684006434 hinge; other site 414684006435 active site 414684006436 TIGR02300 family protein; Region: FYDLN_acid 414684006437 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 414684006438 active site 414684006439 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 414684006440 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 414684006441 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 414684006442 binding surface 414684006443 TPR motif; other site 414684006444 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 414684006445 Trm112p-like protein; Region: Trm112p; cl01066 414684006446 Protein of unknown function (DUF971); Region: DUF971; cl01414 414684006447 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_14; cd08355 414684006448 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684006449 MarC family integral membrane protein; Region: MarC; cl00919 414684006450 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 414684006451 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 414684006452 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 414684006453 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 414684006454 Protein of unknown function, DUF599; Region: DUF599; cl01575 414684006455 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 414684006456 maleylacetoacetate isomerase; Region: maiA; TIGR01262 414684006457 C-terminal domain interface [polypeptide binding]; other site 414684006458 GSH binding site (G-site) [chemical binding]; other site 414684006459 putative dimer interface [polypeptide binding]; other site 414684006460 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 414684006461 dimer interface [polypeptide binding]; other site 414684006462 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 414684006463 N-terminal domain interface [polypeptide binding]; other site 414684006464 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 414684006465 Cupin domain; Region: Cupin_2; cl09118 414684006466 Helix-turn-helix domains; Region: HTH; cl00088 414684006467 Protein of unknown function (DUF433); Region: DUF433; cl01030 414684006468 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 414684006469 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 414684006470 Walker A motif; other site 414684006471 ATP binding site [chemical binding]; other site 414684006472 Walker B motif; other site 414684006473 arginine finger; other site 414684006474 Helix-turn-helix domains; Region: HTH; cl00088 414684006475 phage shock protein A; Region: phageshock_pspA; TIGR02977 414684006476 Phage shock protein B; Region: PspB; cl05946 414684006477 phage shock protein C; Region: phageshock_pspC; TIGR02978 414684006478 PspC domain; Region: PspC; cl00864 414684006479 Phage shock protein B; Region: PspB; cl05946 414684006480 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 414684006481 putative dimer interface [polypeptide binding]; other site 414684006482 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684006483 acyl-CoA synthetase; Provisional; Region: PRK12582 414684006484 AMP-binding enzyme; Region: AMP-binding; cl15778 414684006485 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 414684006486 Domain of unknown function DUF21; Region: DUF21; pfam01595 414684006487 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 414684006488 Transporter associated domain; Region: CorC_HlyC; cl08393 414684006489 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 414684006490 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 414684006491 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 414684006492 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 414684006493 substrate binding site [chemical binding]; other site 414684006494 ATP binding site [chemical binding]; other site 414684006495 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684006496 active site 414684006497 nucleotide binding site [chemical binding]; other site 414684006498 HIGH motif; other site 414684006499 KMSKS motif; other site 414684006500 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684006501 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 414684006502 active site 414684006503 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 414684006504 Sulfatase; Region: Sulfatase; cl10460 414684006505 Sulfatase; Region: Sulfatase; cl10460 414684006506 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684006507 GST_N family, Class Beta 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_Beta; cd03057 414684006508 C-terminal domain interface [polypeptide binding]; other site 414684006509 GSH binding site (G-site) [chemical binding]; other site 414684006510 dimer interface [polypeptide binding]; other site 414684006511 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 414684006512 dimer interface [polypeptide binding]; other site 414684006513 N-terminal domain interface [polypeptide binding]; other site 414684006514 substrate binding pocket (H-site) [chemical binding]; other site 414684006515 Chain length determinant protein; Region: Wzz; cl15801 414684006516 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 414684006517 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 414684006518 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 414684006519 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 414684006520 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684006521 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 414684006522 putative ADP-binding pocket [chemical binding]; other site 414684006523 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684006524 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 414684006525 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 414684006526 Walker A/P-loop; other site 414684006527 ATP binding site [chemical binding]; other site 414684006528 Q-loop/lid; other site 414684006529 ABC transporter signature motif; other site 414684006530 Walker B; other site 414684006531 D-loop; other site 414684006532 H-loop/switch region; other site 414684006533 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684006534 phosphorylation site [posttranslational modification] 414684006535 dimer interface [polypeptide binding]; other site 414684006536 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006537 ATP binding site [chemical binding]; other site 414684006538 Mg2+ binding site [ion binding]; other site 414684006539 G-X-G motif; other site 414684006540 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 414684006541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006542 active site 414684006543 phosphorylation site [posttranslational modification] 414684006544 intermolecular recognition site; other site 414684006545 dimerization interface [polypeptide binding]; other site 414684006546 Helix-turn-helix domains; Region: HTH; cl00088 414684006547 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 414684006548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006549 Bacterial sugar transferase; Region: Bac_transf; cl00939 414684006550 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 414684006551 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 414684006552 NAD binding site [chemical binding]; other site 414684006553 homodimer interface [polypeptide binding]; other site 414684006554 active site 414684006555 substrate binding site [chemical binding]; other site 414684006556 Right handed beta helix region; Region: Beta_helix; pfam13229 414684006557 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 414684006558 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 414684006559 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684006560 catalytic residue [active] 414684006561 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 414684006562 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 414684006563 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 414684006564 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 414684006565 HIGH motif; other site 414684006566 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 414684006567 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684006568 active site 414684006569 KMSKS motif; other site 414684006570 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 414684006571 tRNA binding surface [nucleotide binding]; other site 414684006572 Lipopolysaccharide-assembly; Region: LptE; cl01125 414684006573 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 414684006574 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 414684006575 putative chaperone; Provisional; Region: PRK11678 414684006576 putative chaperone; Provisional; Region: PRK11678 414684006577 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 414684006578 non-specific DNA binding site [nucleotide binding]; other site 414684006579 salt bridge; other site 414684006580 sequence-specific DNA binding site [nucleotide binding]; other site 414684006581 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 414684006582 metal binding site 2 [ion binding]; metal-binding site 414684006583 putative DNA binding helix; other site 414684006584 metal binding site 1 [ion binding]; metal-binding site 414684006585 dimer interface [polypeptide binding]; other site 414684006586 structural Zn2+ binding site [ion binding]; other site 414684006587 diguanylate cyclase; Provisional; Region: PRK09894 414684006588 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 414684006589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684006590 metal binding site [ion binding]; metal-binding site 414684006591 active site 414684006592 I-site; other site 414684006593 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 414684006594 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 414684006595 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 414684006596 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 414684006597 FeS/SAM binding site; other site 414684006598 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 414684006599 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684006600 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 414684006601 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684006602 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 414684006603 dimerization interface [polypeptide binding]; other site 414684006604 putative DNA binding site [nucleotide binding]; other site 414684006605 putative Zn2+ binding site [ion binding]; other site 414684006606 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 414684006607 Protein of unknown function (DUF465); Region: DUF465; cl01070 414684006608 PQ loop repeat; Region: PQ-loop; cl12056 414684006609 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 414684006610 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 414684006611 Right handed beta helix region; Region: Beta_helix; pfam13229 414684006612 OpgC protein; Region: OpgC_C; cl00792 414684006613 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 414684006614 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 414684006615 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 414684006616 Fusaric acid resistance protein family; Region: FUSC; pfam04632 414684006617 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 414684006618 Cupin domain; Region: Cupin_2; cl09118 414684006619 Helix-turn-helix domain; Region: HTH_18; pfam12833 414684006620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 414684006621 Helix-turn-helix domains; Region: HTH; cl00088 414684006622 Cation efflux family; Region: Cation_efflux; cl00316 414684006623 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 414684006624 active site 414684006625 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 414684006626 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 414684006627 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684006628 ligand binding site [chemical binding]; other site 414684006629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006630 active site 414684006631 phosphorylation site [posttranslational modification] 414684006632 intermolecular recognition site; other site 414684006633 dimerization interface [polypeptide binding]; other site 414684006634 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 414684006635 DNA binding residues [nucleotide binding] 414684006636 dimerization interface [polypeptide binding]; other site 414684006637 PAS fold; Region: PAS_7; pfam12860 414684006638 PAS domain S-box; Region: sensory_box; TIGR00229 414684006639 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 414684006640 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 414684006641 putative active site [active] 414684006642 heme pocket [chemical binding]; other site 414684006643 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 414684006644 PAS fold; Region: PAS_3; pfam08447 414684006645 putative active site [active] 414684006646 heme pocket [chemical binding]; other site 414684006647 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 414684006648 PAS fold; Region: PAS_3; pfam08447 414684006649 putative active site [active] 414684006650 heme pocket [chemical binding]; other site 414684006651 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684006652 dimer interface [polypeptide binding]; other site 414684006653 phosphorylation site [posttranslational modification] 414684006654 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006655 ATP binding site [chemical binding]; other site 414684006656 Mg2+ binding site [ion binding]; other site 414684006657 G-X-G motif; other site 414684006658 Response regulator receiver domain; Region: Response_reg; pfam00072 414684006659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006660 active site 414684006661 phosphorylation site [posttranslational modification] 414684006662 intermolecular recognition site; other site 414684006663 dimerization interface [polypeptide binding]; other site 414684006664 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 414684006665 SecA binding site; other site 414684006666 Preprotein binding site; other site 414684006667 O-succinylhomoserine sulfhydrylase; Provisional; Region: PRK07810 414684006668 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 414684006669 homodimer interface [polypeptide binding]; other site 414684006670 substrate-cofactor binding pocket; other site 414684006671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684006672 catalytic residue [active] 414684006673 PII uridylyl-transferase; Provisional; Region: PRK05092 414684006674 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684006675 metal binding triad; other site 414684006676 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 414684006677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 414684006678 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 414684006679 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 414684006680 Usg-like family; Region: Usg; cl11567 414684006681 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 414684006682 oligomerisation interface [polypeptide binding]; other site 414684006683 mobile loop; other site 414684006684 roof hairpin; other site 414684006685 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 414684006686 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 414684006687 ring oligomerisation interface [polypeptide binding]; other site 414684006688 ATP/Mg binding site [chemical binding]; other site 414684006689 stacking interactions; other site 414684006690 hinge regions; other site 414684006691 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 414684006692 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 414684006693 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 414684006694 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 414684006695 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 414684006696 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 414684006697 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 414684006698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684006699 Family description; Region: UvrD_C_2; cl15862 414684006700 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 414684006701 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 414684006702 putative acyl-acceptor binding pocket; other site 414684006703 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684006704 Predicted transcriptional regulator [Transcription]; Region: COG4957 414684006705 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 414684006706 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 414684006707 CPxP motif; other site 414684006708 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684006709 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 414684006710 Coenzyme A binding pocket [chemical binding]; other site 414684006711 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 414684006712 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 414684006713 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 414684006714 putative FMN binding site [chemical binding]; other site 414684006715 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 414684006716 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 414684006717 NifU-like domain; Region: NifU; cl00484 414684006718 cyclase homology domain; Region: CHD; cd07302 414684006719 nucleotidyl binding site; other site 414684006720 metal binding site [ion binding]; metal-binding site 414684006721 dimer interface [polypeptide binding]; other site 414684006722 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 414684006723 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 414684006724 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 414684006725 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 414684006726 putative substrate binding pocket [chemical binding]; other site 414684006727 AC domain interface; other site 414684006728 catalytic triad [active] 414684006729 AB domain interface; other site 414684006730 interchain disulfide; other site 414684006731 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 414684006732 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 414684006733 active site 414684006734 HIGH motif; other site 414684006735 dimer interface [polypeptide binding]; other site 414684006736 KMSKS motif; other site 414684006737 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 414684006738 putative peptidase; Provisional; Region: PRK11649 414684006739 Rhomboid family; Region: Rhomboid; cl11446 414684006740 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 414684006741 Clp amino terminal domain; Region: Clp_N; pfam02861 414684006742 Clp amino terminal domain; Region: Clp_N; pfam02861 414684006743 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 414684006744 Walker A motif; other site 414684006745 ATP binding site [chemical binding]; other site 414684006746 Walker B motif; other site 414684006747 arginine finger; other site 414684006748 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 414684006749 Walker A motif; other site 414684006750 ATP binding site [chemical binding]; other site 414684006751 Walker B motif; other site 414684006752 arginine finger; other site 414684006753 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 414684006754 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 414684006755 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 414684006756 MOSC domain; Region: MOSC; pfam03473 414684006757 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 414684006758 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 414684006759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006760 peptide chain release factor 1; Validated; Region: prfA; PRK00591 414684006761 RF-1 domain; Region: RF-1; cl02875 414684006762 RF-1 domain; Region: RF-1; cl02875 414684006763 Protein of unknown function (DUF497); Region: DUF497; cl01108 414684006764 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 414684006765 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 414684006766 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 414684006767 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 414684006768 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 414684006769 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 414684006770 GAF domain; Region: GAF; cl15785 414684006771 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 414684006772 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 414684006773 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 414684006774 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 414684006775 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 414684006776 FMN binding site [chemical binding]; other site 414684006777 substrate binding site [chemical binding]; other site 414684006778 putative catalytic residue [active] 414684006779 aspartate kinase; Reviewed; Region: PRK06635 414684006780 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 414684006781 putative nucleotide binding site [chemical binding]; other site 414684006782 putative catalytic residues [active] 414684006783 putative Mg ion binding site [ion binding]; other site 414684006784 putative aspartate binding site [chemical binding]; other site 414684006785 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 414684006786 putative allosteric regulatory site; other site 414684006787 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 414684006788 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 414684006789 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 414684006790 S-adenosylmethionine binding site [chemical binding]; other site 414684006791 Histidine kinase; Region: HisKA_2; cl06527 414684006792 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006793 ATP binding site [chemical binding]; other site 414684006794 Mg2+ binding site [ion binding]; other site 414684006795 G-X-G motif; other site 414684006796 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 414684006797 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 414684006798 NAD binding site [chemical binding]; other site 414684006799 catalytic Zn binding site [ion binding]; other site 414684006800 structural Zn binding site [ion binding]; other site 414684006801 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684006802 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684006803 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684006804 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684006805 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 414684006806 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684006807 metal binding triad; other site 414684006808 Sodium:solute symporter family; Region: SSF; cl00456 414684006809 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 414684006810 Protein of unknown function, DUF485; Region: DUF485; cl01231 414684006811 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 414684006812 PAS domain S-box; Region: sensory_box; TIGR00229 414684006813 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 414684006814 putative active site [active] 414684006815 heme pocket [chemical binding]; other site 414684006816 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684006817 dimer interface [polypeptide binding]; other site 414684006818 phosphorylation site [posttranslational modification] 414684006819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006820 ATP binding site [chemical binding]; other site 414684006821 Mg2+ binding site [ion binding]; other site 414684006822 G-X-G motif; other site 414684006823 Response regulator receiver domain; Region: Response_reg; pfam00072 414684006824 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006825 active site 414684006826 phosphorylation site [posttranslational modification] 414684006827 intermolecular recognition site; other site 414684006828 dimerization interface [polypeptide binding]; other site 414684006829 Predicted amidohydrolase [General function prediction only]; Region: COG0388 414684006830 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 414684006831 putative active site [active] 414684006832 catalytic triad [active] 414684006833 dimer interface [polypeptide binding]; other site 414684006834 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 414684006835 GSH binding site [chemical binding]; other site 414684006836 catalytic residues [active] 414684006837 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 414684006838 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684006839 active site 414684006840 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 414684006841 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 414684006842 S-adenosylmethionine binding site [chemical binding]; other site 414684006843 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 414684006844 active site 414684006845 8-oxo-dGMP binding site [chemical binding]; other site 414684006846 nudix motif; other site 414684006847 metal binding site [ion binding]; metal-binding site 414684006848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684006849 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684006850 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 414684006851 heterotetramer interface [polypeptide binding]; other site 414684006852 active site pocket [active] 414684006853 cleavage site 414684006854 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 414684006855 PPIC-type PPIASE domain; Region: Rotamase; cl08278 414684006856 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 414684006857 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 414684006858 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 414684006859 nucleotide binding region [chemical binding]; other site 414684006860 hypothetical protein; Provisional; Region: PRK02250 414684006861 SEC-C motif; Region: SEC-C; pfam02810 414684006862 Protein of unknown function DUF86; Region: DUF86; cl01031 414684006863 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 414684006864 active site 414684006865 NTP binding site [chemical binding]; other site 414684006866 metal binding triad [ion binding]; metal-binding site 414684006867 antibiotic binding site [chemical binding]; other site 414684006868 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684006869 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 414684006870 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 414684006871 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 414684006872 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 414684006873 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 414684006874 Domain of unknown function DUF21; Region: DUF21; pfam01595 414684006875 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 414684006876 Transporter associated domain; Region: CorC_HlyC; cl08393 414684006877 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 414684006878 active site 414684006879 dimer interface [polypeptide binding]; other site 414684006880 metal binding site [ion binding]; metal-binding site 414684006881 shikimate kinase; Reviewed; Region: aroK; PRK00131 414684006882 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 414684006883 ADP binding site [chemical binding]; other site 414684006884 magnesium binding site [ion binding]; other site 414684006885 putative shikimate binding site; other site 414684006886 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 414684006887 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 414684006888 active site 414684006889 DNA binding site [nucleotide binding] 414684006890 Int/Topo IB signature motif; other site 414684006891 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 414684006892 MT-A70; Region: MT-A70; cl01947 414684006893 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 414684006894 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 414684006895 TMP-binding site; other site 414684006896 ATP-binding site [chemical binding]; other site 414684006897 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 414684006898 putative active site [active] 414684006899 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684006900 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 414684006901 non-specific DNA binding site [nucleotide binding]; other site 414684006902 salt bridge; other site 414684006903 sequence-specific DNA binding site [nucleotide binding]; other site 414684006904 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 414684006905 Domain of unknown function (DUF955); Region: DUF955; cl01076 414684006906 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 414684006907 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 414684006908 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 414684006909 tetramer interface [polypeptide binding]; other site 414684006910 active site 414684006911 Mg2+/Mn2+ binding site [ion binding]; other site 414684006912 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 414684006913 malate synthase A; Region: malate_syn_A; TIGR01344 414684006914 active site 414684006915 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 414684006916 dimanganese center [ion binding]; other site 414684006917 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 414684006918 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684006919 active site 414684006920 Flavin Reductases; Region: FlaRed; cl00801 414684006921 enoyl-CoA hydratase; Provisional; Region: PRK06210 414684006922 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 414684006923 substrate binding site [chemical binding]; other site 414684006924 oxyanion hole (OAH) forming residues; other site 414684006925 trimer interface [polypeptide binding]; other site 414684006926 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 414684006927 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684006928 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 414684006929 AMP-binding enzyme; Region: AMP-binding; cl15778 414684006930 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684006931 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 414684006932 dimerization interface [polypeptide binding]; other site 414684006933 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684006934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684006935 dimer interface [polypeptide binding]; other site 414684006936 putative CheW interface [polypeptide binding]; other site 414684006937 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 414684006938 Active_site [active] 414684006939 Transglycosylase; Region: Transgly; cl07896 414684006940 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 414684006941 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684006942 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 414684006943 FMN binding site [chemical binding]; other site 414684006944 active site 414684006945 substrate binding site [chemical binding]; other site 414684006946 catalytic residue [active] 414684006947 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 414684006948 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 414684006949 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 414684006950 trimer interface; other site 414684006951 sugar binding site [chemical binding]; other site 414684006952 Sodium:solute symporter family; Region: SSF; cl00456 414684006953 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684006954 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 414684006955 substrate binding pocket [chemical binding]; other site 414684006956 membrane-bound complex binding site; other site 414684006957 hinge residues; other site 414684006958 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684006959 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 414684006960 substrate binding pocket [chemical binding]; other site 414684006961 membrane-bound complex binding site; other site 414684006962 hinge residues; other site 414684006963 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 414684006964 ABC-ATPase subunit interface; other site 414684006965 putative PBP binding loops; other site 414684006966 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 414684006967 dimer interface [polypeptide binding]; other site 414684006968 conserved gate region; other site 414684006969 putative PBP binding loops; other site 414684006970 ABC-ATPase subunit interface; other site 414684006971 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 414684006972 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 414684006973 oligomerization interface [polypeptide binding]; other site 414684006974 active site 414684006975 NAD+ binding site [chemical binding]; other site 414684006976 PAS fold; Region: PAS; pfam00989 414684006977 PAS fold; Region: PAS_7; pfam12860 414684006978 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684006979 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684006980 dimer interface [polypeptide binding]; other site 414684006981 phosphorylation site [posttranslational modification] 414684006982 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006983 ATP binding site [chemical binding]; other site 414684006984 Mg2+ binding site [ion binding]; other site 414684006985 G-X-G motif; other site 414684006986 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 414684006987 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 414684006988 PAS domain S-box; Region: sensory_box; TIGR00229 414684006989 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 414684006990 putative active site [active] 414684006991 heme pocket [chemical binding]; other site 414684006992 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684006993 dimer interface [polypeptide binding]; other site 414684006994 phosphorylation site [posttranslational modification] 414684006995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006996 ATP binding site [chemical binding]; other site 414684006997 Mg2+ binding site [ion binding]; other site 414684006998 G-X-G motif; other site 414684006999 HemK family putative methylases; Region: hemK_fam; TIGR00536 414684007000 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 414684007001 S-adenosylmethionine binding site [chemical binding]; other site 414684007002 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 414684007003 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 414684007004 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 414684007005 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39C; cd02419 414684007006 putative active site [active] 414684007007 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 414684007008 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 414684007009 Walker A/P-loop; other site 414684007010 ATP binding site [chemical binding]; other site 414684007011 Q-loop/lid; other site 414684007012 ABC transporter signature motif; other site 414684007013 Walker B; other site 414684007014 D-loop; other site 414684007015 H-loop/switch region; other site 414684007016 Integrase core domain; Region: rve; cl01316 414684007017 Winged helix-turn helix; Region: HTH_29; pfam13551 414684007018 Helix-turn-helix domains; Region: HTH; cl00088 414684007019 Helix-turn-helix domains; Region: HTH; cl00088 414684007020 Winged helix-turn helix; Region: HTH_33; pfam13592 414684007021 Transposase domain (DUF772); Region: DUF772; cl15789 414684007022 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 414684007023 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 414684007024 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 414684007025 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684007026 active site 414684007027 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 414684007028 putative active site pocket [active] 414684007029 cleavage site 414684007030 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 414684007031 cleavage site 414684007032 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 414684007033 L-asparaginase II; Region: Asparaginase_II; cl01842 414684007034 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 414684007035 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 414684007036 NAD(P) binding site [chemical binding]; other site 414684007037 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 414684007038 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 414684007039 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 414684007040 ligand binding site; other site 414684007041 oligomer interface; other site 414684007042 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 414684007043 dimer interface [polypeptide binding]; other site 414684007044 N-terminal domain interface [polypeptide binding]; other site 414684007045 sulfate 1 binding site; other site 414684007046 glycogen synthase; Provisional; Region: glgA; PRK00654 414684007047 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 414684007048 ADP-binding pocket [chemical binding]; other site 414684007049 homodimer interface [polypeptide binding]; other site 414684007050 PAS fold; Region: PAS_4; pfam08448 414684007051 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684007052 dimer interface [polypeptide binding]; other site 414684007053 phosphorylation site [posttranslational modification] 414684007054 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007055 ATP binding site [chemical binding]; other site 414684007056 G-X-G motif; other site 414684007057 Response regulator receiver domain; Region: Response_reg; pfam00072 414684007058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007059 active site 414684007060 phosphorylation site [posttranslational modification] 414684007061 intermolecular recognition site; other site 414684007062 dimerization interface [polypeptide binding]; other site 414684007063 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 414684007064 active site 414684007065 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 414684007066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007067 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684007068 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684007069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007070 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 414684007071 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 414684007072 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 414684007073 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 414684007074 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 414684007075 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 414684007076 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 414684007077 FAD/NAD binding domain (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)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 414684007078 FAD binding pocket [chemical binding]; other site 414684007079 FAD binding motif [chemical binding]; other site 414684007080 phosphate binding motif [ion binding]; other site 414684007081 beta-alpha-beta structure motif; other site 414684007082 NAD binding pocket [chemical binding]; other site 414684007083 Iron coordination center [ion binding]; other site 414684007084 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684007085 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 414684007086 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684007087 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 414684007088 motif II; other site 414684007089 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 414684007090 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 414684007091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007092 CoA-ligase; Region: Ligase_CoA; cl02894 414684007093 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684007094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684007095 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684007096 Predicted membrane protein [Function unknown]; Region: COG3671 414684007097 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 414684007098 dimer interface [polypeptide binding]; other site 414684007099 substrate binding site [chemical binding]; other site 414684007100 metal binding sites [ion binding]; metal-binding site 414684007101 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 414684007102 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 414684007103 substrate binding site [chemical binding]; other site 414684007104 ATP binding site [chemical binding]; other site 414684007105 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 414684007106 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 414684007107 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 414684007108 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 414684007109 minor groove reading motif; other site 414684007110 helix-hairpin-helix signature motif; other site 414684007111 substrate binding pocket [chemical binding]; other site 414684007112 active site 414684007113 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 414684007114 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 414684007115 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 414684007116 active site 414684007117 kynureninase; Region: kynureninase; TIGR01814 414684007118 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 414684007119 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 414684007120 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684007121 peptide binding site [polypeptide binding]; other site 414684007122 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 414684007123 Putative cyclase; Region: Cyclase; cl00814 414684007124 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684007125 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 414684007126 putative DNA binding site [nucleotide binding]; other site 414684007127 putative Zn2+ binding site [ion binding]; other site 414684007128 Helix-turn-helix domains; Region: HTH; cl00088 414684007129 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 414684007130 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 414684007131 active site 414684007132 zinc binding site [ion binding]; other site 414684007133 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 414684007134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007135 Nitrogen regulatory protein P-II; Region: P-II; cl00412 414684007136 Nitrogen regulatory protein P-II; Region: P-II; smart00938 414684007137 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 414684007138 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 414684007139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684007140 homodimer interface [polypeptide binding]; other site 414684007141 catalytic residue [active] 414684007142 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 414684007143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684007144 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 414684007145 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684007146 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684007147 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 414684007148 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 414684007149 Peptidase C26; Region: Peptidase_C26; pfam07722 414684007150 catalytic triad [active] 414684007151 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 414684007152 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 414684007153 ferredoxin reductase fragment pseudogene 414684007154 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 414684007155 putative catalytic site [active] 414684007156 putative phosphate binding site [ion binding]; other site 414684007157 active site 414684007158 metal binding site A [ion binding]; metal-binding site 414684007159 DNA binding site [nucleotide binding] 414684007160 putative AP binding site [nucleotide binding]; other site 414684007161 putative metal binding site B [ion binding]; other site 414684007162 transcription termination factor Rho; Provisional; Region: rho; PRK09376 414684007163 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 414684007164 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 414684007165 RNA binding site [nucleotide binding]; other site 414684007166 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 414684007167 multimer interface [polypeptide binding]; other site 414684007168 Walker A motif; other site 414684007169 ATP binding site [chemical binding]; other site 414684007170 Walker B motif; other site 414684007171 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 414684007172 ligand binding site [chemical binding]; other site 414684007173 dimer interface [polypeptide binding]; other site 414684007174 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 414684007175 ferrochelatase; Reviewed; Region: hemH; PRK00035 414684007176 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 414684007177 C-terminal domain interface [polypeptide binding]; other site 414684007178 active site 414684007179 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 414684007180 active site 414684007181 N-terminal domain interface [polypeptide binding]; other site 414684007182 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 414684007183 substrate binding site [chemical binding]; other site 414684007184 active site 414684007185 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 414684007186 Maf-like protein; Provisional; Region: PRK14361 414684007187 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 414684007188 putative active site [active] 414684007189 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 414684007190 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 414684007191 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 414684007192 NAD(P) binding site [chemical binding]; other site 414684007193 shikimate binding site; other site 414684007194 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 414684007195 dephospho-CoA kinase; Region: TIGR00152 414684007196 CoA-binding site [chemical binding]; other site 414684007197 ATP-binding [chemical binding]; other site 414684007198 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 414684007199 active site 414684007200 catalytic site [active] 414684007201 substrate binding site [chemical binding]; other site 414684007202 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 414684007203 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 414684007204 NADP binding site [chemical binding]; other site 414684007205 dimer interface [polypeptide binding]; other site 414684007206 Dienelactone hydrolase family; Region: DLH; pfam01738 414684007207 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 414684007208 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 414684007209 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 414684007210 catalytic residues [active] 414684007211 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 414684007212 dimer interface [polypeptide binding]; other site 414684007213 [2Fe-2S] cluster binding site [ion binding]; other site 414684007214 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 414684007215 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 414684007216 trmE is a tRNA modification GTPase; Region: trmE; cd04164 414684007217 G1 box; other site 414684007218 GTP/Mg2+ binding site [chemical binding]; other site 414684007219 Switch I region; other site 414684007220 G2 box; other site 414684007221 Switch II region; other site 414684007222 G3 box; other site 414684007223 G4 box; other site 414684007224 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 414684007225 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 414684007226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007227 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 414684007228 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 414684007229 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 414684007230 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 414684007231 P-loop; other site 414684007232 Magnesium ion binding site [ion binding]; other site 414684007233 ParB-like nuclease domain; Region: ParBc; cl02129 414684007234 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 414684007235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684007237 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 414684007238 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684007239 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 414684007240 putative ADP-binding pocket [chemical binding]; other site 414684007241 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 414684007242 putative active site [active] 414684007243 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 414684007244 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 414684007245 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 414684007246 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 414684007247 active site 414684007248 dimer interface [polypeptide binding]; other site 414684007249 motif 1; other site 414684007250 motif 2; other site 414684007251 motif 3; other site 414684007252 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 414684007253 anticodon binding site; other site 414684007254 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 414684007255 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 414684007256 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 414684007257 active site 414684007258 substrate-binding site [chemical binding]; other site 414684007259 metal-binding site [ion binding] 414684007260 ATP binding site [chemical binding]; other site 414684007261 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 414684007262 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 414684007263 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 414684007264 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 414684007265 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007266 active site 414684007267 phosphorylation site [posttranslational modification] 414684007268 intermolecular recognition site; other site 414684007269 dimerization interface [polypeptide binding]; other site 414684007270 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 414684007271 DNA binding site [nucleotide binding] 414684007272 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 414684007273 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 414684007274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684007275 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 414684007276 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684007277 dimer interface [polypeptide binding]; other site 414684007278 phosphorylation site [posttranslational modification] 414684007279 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007280 ATP binding site [chemical binding]; other site 414684007281 Mg2+ binding site [ion binding]; other site 414684007282 G-X-G motif; other site 414684007283 PAS domain; Region: PAS_9; pfam13426 414684007284 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 414684007285 putative active site [active] 414684007286 heme pocket [chemical binding]; other site 414684007287 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 414684007288 PAS domain; Region: PAS_9; pfam13426 414684007289 putative active site [active] 414684007290 heme pocket [chemical binding]; other site 414684007291 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 414684007292 PAS fold; Region: PAS_3; pfam08447 414684007293 putative active site [active] 414684007294 heme pocket [chemical binding]; other site 414684007295 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684007296 dimer interface [polypeptide binding]; other site 414684007297 phosphorylation site [posttranslational modification] 414684007298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 414684007299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007300 ATP binding site [chemical binding]; other site 414684007301 Mg2+ binding site [ion binding]; other site 414684007302 G-X-G motif; other site 414684007303 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 414684007304 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 414684007305 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 414684007306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684007307 catalytic residue [active] 414684007308 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 414684007309 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 414684007310 substrate binding site [chemical binding]; other site 414684007311 active site 414684007312 catalytic residues [active] 414684007313 heterodimer interface [polypeptide binding]; other site 414684007314 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 414684007315 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684007316 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 414684007317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684007318 MAPEG family; Region: MAPEG; cl09190 414684007319 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 414684007320 catalytic residues [active] 414684007321 Ion transport protein; Region: Ion_trans; pfam00520 414684007322 Polycystin cation channel; Region: PKD_channel; pfam08016 414684007323 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 414684007324 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 414684007325 enoyl-CoA hydratase; Region: PLN02864 414684007326 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 414684007327 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 414684007328 dimer interaction site [polypeptide binding]; other site 414684007329 substrate-binding tunnel; other site 414684007330 active site 414684007331 catalytic site [active] 414684007332 substrate binding site [chemical binding]; other site 414684007333 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 414684007334 Major Facilitator Superfamily; Region: MFS_1; pfam07690 414684007335 putative substrate translocation pore; other site 414684007336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007337 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 414684007338 GAF domain; Region: GAF_2; pfam13185 414684007339 GAF domain; Region: GAF; cl15785 414684007340 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 414684007341 PAS fold; Region: PAS_3; pfam08447 414684007342 putative active site [active] 414684007343 heme pocket [chemical binding]; other site 414684007344 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684007345 dimer interface [polypeptide binding]; other site 414684007346 phosphorylation site [posttranslational modification] 414684007347 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007348 ATP binding site [chemical binding]; other site 414684007349 Mg2+ binding site [ion binding]; other site 414684007350 G-X-G motif; other site 414684007351 Response regulator receiver domain; Region: Response_reg; pfam00072 414684007352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007353 active site 414684007354 phosphorylation site [posttranslational modification] 414684007355 intermolecular recognition site; other site 414684007356 dimerization interface [polypeptide binding]; other site 414684007357 RecX family; Region: RecX; cl00936 414684007358 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684007359 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684007360 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 414684007361 5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase pseudogene;(Methionine synt Hase, vitamin-B12 independent isozyme) (Cobalamin-independent methionine synt Hase) 414684007362 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 414684007363 chaperone protein DnaJ; Provisional; Region: PRK10767 414684007364 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 414684007365 HSP70 interaction site [polypeptide binding]; other site 414684007366 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 414684007367 substrate binding site [polypeptide binding]; other site 414684007368 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 414684007369 Zn binding sites [ion binding]; other site 414684007370 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 414684007371 dimer interface [polypeptide binding]; other site 414684007372 Protein of unknown function (DUF952); Region: DUF952; cl01393 414684007373 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 414684007374 quinone interaction residues [chemical binding]; other site 414684007375 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 414684007376 active site 414684007377 catalytic residues [active] 414684007378 FMN binding site [chemical binding]; other site 414684007379 substrate binding site [chemical binding]; other site 414684007380 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 414684007381 conserved cys residue [active] 414684007382 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 414684007383 putative catalytic site [active] 414684007384 putative metal binding site [ion binding]; other site 414684007385 putative phosphate binding site [ion binding]; other site 414684007386 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 414684007387 active site 414684007388 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 414684007389 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 414684007390 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 414684007391 active pocket/dimerization site; other site 414684007392 active site 414684007393 phosphorylation site [posttranslational modification] 414684007394 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 414684007395 regulatory protein interface [polypeptide binding]; other site 414684007396 active site 414684007397 regulatory phosphorylation site [posttranslational modification]; other site 414684007398 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 414684007399 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 414684007400 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 414684007401 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 414684007402 YGGT family; Region: YGGT; cl00508 414684007403 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 414684007404 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 414684007405 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 414684007406 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 414684007407 homodimer interface [polypeptide binding]; other site 414684007408 NADP binding site [chemical binding]; other site 414684007409 substrate binding site [chemical binding]; other site 414684007410 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 414684007411 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 414684007412 glutathione synthetase; Provisional; Region: PRK05246 414684007413 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 414684007414 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684007415 Cysteine-rich domain; Region: CCG; pfam02754 414684007416 Cysteine-rich domain; Region: CCG; pfam02754 414684007417 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 414684007418 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 414684007419 4Fe-4S binding domain; Region: Fer4; cl02805 414684007420 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 414684007421 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 414684007422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 414684007423 Smr domain; Region: Smr; cl02619 414684007424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 414684007425 Phospholipid methyltransferase; Region: PEMT; cl00763 414684007426 putative cation:proton antiport protein; Provisional; Region: PRK10669 414684007427 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 414684007428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007429 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 414684007430 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 414684007431 ANP binding site [chemical binding]; other site 414684007432 Substrate Binding Site II [chemical binding]; other site 414684007433 Substrate Binding Site I [chemical binding]; other site 414684007434 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 414684007435 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 414684007436 putative active site [active] 414684007437 catalytic site [active] 414684007438 putative metal binding site [ion binding]; other site 414684007439 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 414684007440 intracellular protease, PfpI family; Region: PfpI; TIGR01382 414684007441 proposed catalytic triad [active] 414684007442 conserved cys residue [active] 414684007443 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 414684007444 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 414684007445 PAS fold; Region: PAS_3; pfam08447 414684007446 putative active site [active] 414684007447 heme pocket [chemical binding]; other site 414684007448 PAS domain S-box; Region: sensory_box; TIGR00229 414684007449 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 414684007450 putative active site [active] 414684007451 heme pocket [chemical binding]; other site 414684007452 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684007453 dimer interface [polypeptide binding]; other site 414684007454 phosphorylation site [posttranslational modification] 414684007455 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007456 ATP binding site [chemical binding]; other site 414684007457 Mg2+ binding site [ion binding]; other site 414684007458 G-X-G motif; other site 414684007459 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 414684007460 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 414684007461 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 414684007462 Walker A/P-loop; other site 414684007463 ATP binding site [chemical binding]; other site 414684007464 Q-loop/lid; other site 414684007465 ABC transporter signature motif; other site 414684007466 Walker B; other site 414684007467 D-loop; other site 414684007468 H-loop/switch region; other site 414684007469 MAPEG family; Region: MAPEG; cl09190 414684007470 NAD-dependent deacetylase; Provisional; Region: PRK00481 414684007471 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 414684007472 NAD+ binding site [chemical binding]; other site 414684007473 substrate binding site [chemical binding]; other site 414684007474 Zn binding site [ion binding]; other site 414684007475 Low molecular weight phosphatase family; Region: LMWPc; cd00115 414684007476 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 414684007477 active site 414684007478 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 414684007479 PAS domain; Region: PAS_5; pfam07310 414684007480 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 414684007481 MutS domain I; Region: MutS_I; pfam01624 414684007482 MutS domain II; Region: MutS_II; pfam05188 414684007483 MutS family domain IV; Region: MutS_IV; pfam05190 414684007484 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 414684007485 Walker A/P-loop; other site 414684007486 ATP binding site [chemical binding]; other site 414684007487 Q-loop/lid; other site 414684007488 ABC transporter signature motif; other site 414684007489 Walker B; other site 414684007490 D-loop; other site 414684007491 H-loop/switch region; other site 414684007492 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 414684007493 putative active site [active] 414684007494 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 414684007495 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 414684007496 Walker A/P-loop; other site 414684007497 ATP binding site [chemical binding]; other site 414684007498 Q-loop/lid; other site 414684007499 ABC transporter signature motif; other site 414684007500 Walker B; other site 414684007501 D-loop; other site 414684007502 H-loop/switch region; other site 414684007503 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684007504 FtsX-like permease family; Region: FtsX; cl15850 414684007505 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 414684007506 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 414684007507 Sm1 motif; other site 414684007508 RNA binding pocket [nucleotide binding]; other site 414684007509 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 414684007510 NusA N-terminal domain; Region: NusA_N; pfam08529 414684007511 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 414684007512 RNA binding site [nucleotide binding]; other site 414684007513 homodimer interface [polypeptide binding]; other site 414684007514 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 414684007515 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 414684007516 G-X-X-G motif; other site 414684007517 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 414684007518 hypothetical protein; Provisional; Region: PRK09190 414684007519 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 414684007520 putative RNA binding cleft [nucleotide binding]; other site 414684007521 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 414684007522 translation initiation factor IF-2; Region: IF-2; TIGR00487 414684007523 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 414684007524 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 414684007525 G1 box; other site 414684007526 putative GEF interaction site [polypeptide binding]; other site 414684007527 GTP/Mg2+ binding site [chemical binding]; other site 414684007528 Switch I region; other site 414684007529 G2 box; other site 414684007530 G3 box; other site 414684007531 Switch II region; other site 414684007532 G4 box; other site 414684007533 G5 box; other site 414684007534 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 414684007535 Translation-initiation factor 2; Region: IF-2; pfam11987 414684007536 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 414684007537 Helix-turn-helix domain; Region: HTH_18; pfam12833 414684007538 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_15; cd07264 414684007539 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684007540 Ribosome-binding factor A; Region: RBFA; cl00542 414684007541 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 414684007542 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 414684007543 RNA binding site [nucleotide binding]; other site 414684007544 active site 414684007545 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 414684007546 16S/18S rRNA binding site [nucleotide binding]; other site 414684007547 S13e-L30e interaction site [polypeptide binding]; other site 414684007548 25S rRNA binding site [nucleotide binding]; other site 414684007549 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 414684007550 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 414684007551 RNase E interface [polypeptide binding]; other site 414684007552 trimer interface [polypeptide binding]; other site 414684007553 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 414684007554 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 414684007555 RNase E interface [polypeptide binding]; other site 414684007556 trimer interface [polypeptide binding]; other site 414684007557 active site 414684007558 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 414684007559 putative nucleic acid binding region [nucleotide binding]; other site 414684007560 G-X-X-G motif; other site 414684007561 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 414684007562 RNA binding site [nucleotide binding]; other site 414684007563 domain interface; other site 414684007564 Transposase domain (DUF772); Region: DUF772; cl15789 414684007565 Transposase domain (DUF772); Region: DUF772; cl15789 414684007566 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684007567 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 414684007568 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684007569 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684007570 Peptidase M15; Region: Peptidase_M15_3; cl01194 414684007571 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684007572 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 414684007573 DNA binding site [nucleotide binding] 414684007574 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 414684007575 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 414684007576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007577 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 414684007578 putative NAD(P) binding site [chemical binding]; other site 414684007579 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 414684007580 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 414684007581 dimerization interface [polypeptide binding]; other site 414684007582 active site 414684007583 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 414684007584 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 414684007585 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 414684007586 putative active site [active] 414684007587 catalytic site [active] 414684007588 putative metal binding site [ion binding]; other site 414684007589 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 414684007590 FMN binding site [chemical binding]; other site 414684007591 substrate binding site [chemical binding]; other site 414684007592 putative catalytic residue [active] 414684007593 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 414684007594 metal binding site 2 [ion binding]; metal-binding site 414684007595 putative DNA binding helix; other site 414684007596 metal binding site 1 [ion binding]; metal-binding site 414684007597 dimer interface [polypeptide binding]; other site 414684007598 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 414684007599 ligand-binding site [chemical binding]; other site 414684007600 short chain dehydrogenase; Provisional; Region: PRK06523 414684007601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007602 NAD(P) binding site [chemical binding]; other site 414684007603 active site 414684007604 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 414684007605 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684007606 Transposase domain (DUF772); Region: DUF772; cl15789 414684007607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684007608 Helix-turn-helix domains; Region: HTH; cl00088 414684007609 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 414684007610 putative effector binding pocket; other site 414684007611 putative dimerization interface [polypeptide binding]; other site 414684007612 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 414684007613 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 414684007614 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 414684007615 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 414684007616 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 414684007617 Walker A motif; other site 414684007618 ATP binding site [chemical binding]; other site 414684007619 Walker B motif; other site 414684007620 arginine finger; other site 414684007621 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 414684007622 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 414684007623 dimer interface [polypeptide binding]; other site 414684007624 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 414684007625 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 414684007626 Helix-turn-helix domains; Region: HTH; cl00088 414684007627 HrcA protein C terminal domain; Region: HrcA; pfam01628 414684007628 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 414684007629 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 414684007630 ribonuclease PH; Reviewed; Region: rph; PRK00173 414684007631 Ribonuclease PH; Region: RNase_PH_bact; cd11362 414684007632 hexamer interface [polypeptide binding]; other site 414684007633 active site 414684007634 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 414684007635 active site 414684007636 dimerization interface [polypeptide binding]; other site 414684007637 Protein of unknown function (DUF541); Region: SIMPL; cl01077 414684007638 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 414684007639 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 414684007640 FeS/SAM binding site; other site 414684007641 HemN C-terminal domain; Region: HemN_C; pfam06969 414684007642 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 414684007643 AMP-binding enzyme; Region: AMP-binding; cl15778 414684007644 AMP-binding enzyme; Region: AMP-binding; cl15778 414684007645 acyl-CoA synthetase; Provisional; Region: PRK13388 414684007646 patatin-related protein; Region: TIGR03607 414684007647 Protein of unknown function (DUF3376); Region: DUF3376; pfam11856 414684007648 Helix-turn-helix domain; Region: HTH_18; pfam12833 414684007649 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 414684007650 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 414684007651 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 414684007652 DNA binding site [nucleotide binding] 414684007653 active site 414684007654 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 414684007655 dinuclear metal binding motif [ion binding]; other site 414684007656 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 414684007657 S-adenosylmethionine synthetase; Validated; Region: PRK05250 414684007658 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 414684007659 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 414684007660 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 414684007661 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684007662 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 414684007663 non-specific DNA binding site [nucleotide binding]; other site 414684007664 salt bridge; other site 414684007665 sequence-specific DNA binding site [nucleotide binding]; other site 414684007666 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 414684007667 putative active site [active] 414684007668 catalytic triad [active] 414684007669 putative dimer interface [polypeptide binding]; other site 414684007670 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 414684007671 Transporter associated domain; Region: CorC_HlyC; cl08393 414684007672 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 414684007673 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 414684007674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684007675 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 414684007676 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 414684007677 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 414684007678 FeS/SAM binding site; other site 414684007679 TRAM domain; Region: TRAM; cl01282 414684007680 RNA polymerase sigma factor; Provisional; Region: PRK12526 414684007681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684007682 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 414684007683 DNA binding residues [nucleotide binding] 414684007684 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 414684007685 Putative zinc-finger; Region: zf-HC2; cl15806 414684007686 Cupin domain; Region: Cupin_2; cl09118 414684007687 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684007688 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 414684007689 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 414684007690 ligand binding site [chemical binding]; other site 414684007691 flexible hinge region; other site 414684007692 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 414684007693 putative switch regulator; other site 414684007694 non-specific DNA interactions [nucleotide binding]; other site 414684007695 DNA binding site [nucleotide binding] 414684007696 sequence specific DNA binding site [nucleotide binding]; other site 414684007697 putative cAMP binding site [chemical binding]; other site 414684007698 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 414684007699 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 414684007700 S-adenosylmethionine binding site [chemical binding]; other site 414684007701 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684007702 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 414684007703 Quinolinate synthetase A protein; Region: NadA; cl00420 414684007704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007705 FAD binding domain; Region: FAD_binding_2; pfam00890 414684007706 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 414684007707 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 414684007708 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 414684007709 dimerization interface [polypeptide binding]; other site 414684007710 active site 414684007711 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684007712 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 414684007713 Low molecular weight phosphatase family; Region: LMWPc; cd00115 414684007714 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 414684007715 active site 414684007716 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 414684007717 Membrane transport protein; Region: Mem_trans; cl09117 414684007718 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_b; cd00914 414684007719 aromatic arch; other site 414684007720 DCoH dimer interaction site [polypeptide binding]; other site 414684007721 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 414684007722 DCoH tetramer interaction site [polypeptide binding]; other site 414684007723 substrate binding site [chemical binding]; other site 414684007724 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 414684007725 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 414684007726 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 414684007727 Walker A/P-loop; other site 414684007728 ATP binding site [chemical binding]; other site 414684007729 Q-loop/lid; other site 414684007730 ABC transporter signature motif; other site 414684007731 Walker B; other site 414684007732 D-loop; other site 414684007733 H-loop/switch region; other site 414684007734 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 414684007735 Tim44-like domain; Region: Tim44; cl09208 414684007736 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 414684007737 MltA specific insert domain; Region: MltA; cl08398 414684007738 3D domain; Region: 3D; cl01439 414684007739 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 414684007740 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 414684007741 N-terminal plug; other site 414684007742 ligand-binding site [chemical binding]; other site 414684007743 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 414684007744 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 414684007745 GAF domain; Region: GAF; cl15785 414684007746 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684007747 dimer interface [polypeptide binding]; other site 414684007748 phosphorylation site [posttranslational modification] 414684007749 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007750 ATP binding site [chemical binding]; other site 414684007751 Mg2+ binding site [ion binding]; other site 414684007752 G-X-G motif; other site 414684007753 aspartate aminotransferase; Provisional; Region: PRK06108 414684007754 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 414684007755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684007756 homodimer interface [polypeptide binding]; other site 414684007757 catalytic residue [active] 414684007758 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 414684007759 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684007760 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 414684007761 dimer interface [polypeptide binding]; other site 414684007762 active site 414684007763 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684007764 catalytic residues [active] 414684007765 substrate binding site [chemical binding]; other site 414684007766 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 414684007767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684007768 Walker A/P-loop; other site 414684007769 ATP binding site [chemical binding]; other site 414684007770 Q-loop/lid; other site 414684007771 ABC transporter signature motif; other site 414684007772 Walker B; other site 414684007773 D-loop; other site 414684007774 H-loop/switch region; other site 414684007775 CcmB protein; Region: CcmB; cl01016 414684007776 Peptidase family M23; Region: Peptidase_M23; pfam01551 414684007777 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 414684007778 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 414684007779 Heme exporter protein D (CcmD); Region: CcmD; cl11475 414684007780 CcmE; Region: CcmE; cl00994 414684007781 cytochrome c-type biogenesis protein CcmF;part of the cytochrome c-type biogenesis protein cluster 414684007782 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 414684007783 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 414684007784 catalytic residues [active] 414684007785 central insert; other site 414684007786 Cytochrome C biogenesis protein; Region: CcmH; cl01179 414684007787 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 414684007788 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 414684007789 Cache domain; Region: Cache_1; pfam02743 414684007790 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 414684007791 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684007792 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684007793 dimer interface [polypeptide binding]; other site 414684007794 putative CheW interface [polypeptide binding]; other site 414684007795 Response regulator receiver domain; Region: Response_reg; pfam00072 414684007796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007797 active site 414684007798 phosphorylation site [posttranslational modification] 414684007799 intermolecular recognition site; other site 414684007800 dimerization interface [polypeptide binding]; other site 414684007801 Cation efflux family; Region: Cation_efflux; cl00316 414684007802 Protein of unknown function (DUF808); Region: DUF808; cl01002 414684007803 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 414684007804 AMP-binding enzyme; Region: AMP-binding; cl15778 414684007805 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684007806 short chain dehydrogenase; Provisional; Region: PRK08278 414684007807 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 414684007808 NAD(P) binding site [chemical binding]; other site 414684007809 homodimer interface [polypeptide binding]; other site 414684007810 active site 414684007811 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 414684007812 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 414684007813 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 414684007814 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 414684007815 putative ligand binding site [chemical binding]; other site 414684007816 Predicted methyltransferases [General function prediction only]; Region: COG0313 414684007817 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 414684007818 Restriction endonuclease; Region: Mrr_cat; cl00516 414684007819 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 414684007820 Tetratricopeptide repeat; Region: TPR_9; pfam13371 414684007821 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684007822 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 414684007823 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684007824 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 414684007825 Flavoprotein; Region: Flavoprotein; cl08021 414684007826 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 414684007827 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 414684007828 trimer interface [polypeptide binding]; other site 414684007829 active site 414684007830 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684007831 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 414684007832 oligomeric interface; other site 414684007833 putative active site [active] 414684007834 homodimer interface [polypeptide binding]; other site 414684007835 Rrf2 family protein; Region: rrf2_super; TIGR00738 414684007836 Helix-turn-helix domains; Region: HTH; cl00088 414684007837 cysteine synthase; Region: PLN02565 414684007838 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 414684007839 dimer interface [polypeptide binding]; other site 414684007840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684007841 catalytic residue [active] 414684007842 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 414684007843 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 414684007844 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 414684007845 ATP binding site [chemical binding]; other site 414684007846 substrate interface [chemical binding]; other site 414684007847 DsrE/DsrF-like family; Region: DrsE; cl00672 414684007848 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 414684007849 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 414684007850 DNA binding site [nucleotide binding] 414684007851 catalytic residue [active] 414684007852 H2TH interface [polypeptide binding]; other site 414684007853 putative catalytic residues [active] 414684007854 turnover-facilitating residue; other site 414684007855 intercalation triad [nucleotide binding]; other site 414684007856 8OG recognition residue [nucleotide binding]; other site 414684007857 putative reading head residues; other site 414684007858 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 414684007859 enoyl-CoA hydratase; Provisional; Region: PRK05862 414684007860 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 414684007861 substrate binding site [chemical binding]; other site 414684007862 oxyanion hole (OAH) forming residues; other site 414684007863 trimer interface [polypeptide binding]; other site 414684007864 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 414684007865 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 414684007866 DnaA N-terminal domain; Region: DnaA_N; pfam11638 414684007867 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 414684007868 Walker A motif; other site 414684007869 ATP binding site [chemical binding]; other site 414684007870 Walker B motif; other site 414684007871 arginine finger; other site 414684007872 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 414684007873 DnaA box-binding interface [nucleotide binding]; other site 414684007874 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684007875 dimer interface [polypeptide binding]; other site 414684007876 phosphorylation site [posttranslational modification] 414684007877 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007878 ATP binding site [chemical binding]; other site 414684007879 Mg2+ binding site [ion binding]; other site 414684007880 G-X-G motif; other site 414684007881 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 414684007882 Histidine kinase; Region: HisKA_2; cl06527 414684007883 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007884 ATP binding site [chemical binding]; other site 414684007885 Mg2+ binding site [ion binding]; other site 414684007886 G-X-G motif; other site 414684007887 Phasin protein; Region: Phasin_2; cl11491 414684007888 DNA polymerase III subunit beta; Validated; Region: PRK05643 414684007889 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 414684007890 putative DNA binding surface [nucleotide binding]; other site 414684007891 dimer interface [polypeptide binding]; other site 414684007892 beta-clamp/clamp loader binding surface; other site 414684007893 beta-clamp/translesion DNA polymerase binding surface; other site 414684007894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684007895 recombination protein F; Reviewed; Region: recF; PRK00064 414684007896 Walker A/P-loop; other site 414684007897 ATP binding site [chemical binding]; other site 414684007898 Q-loop/lid; other site 414684007899 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684007900 ABC transporter signature motif; other site 414684007901 Walker B; other site 414684007902 D-loop; other site 414684007903 H-loop/switch region; other site 414684007904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007905 Mg2+ binding site [ion binding]; other site 414684007906 G-X-G motif; other site 414684007907 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 414684007908 anchoring element; other site 414684007909 dimer interface [polypeptide binding]; other site 414684007910 ATP binding site [chemical binding]; other site 414684007911 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 414684007912 active site 414684007913 putative metal-binding site [ion binding]; other site 414684007914 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 414684007915 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 414684007916 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 414684007917 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 414684007918 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684007919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684007920 dimer interface [polypeptide binding]; other site 414684007921 putative CheW interface [polypeptide binding]; other site 414684007922 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 414684007923 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 414684007924 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 414684007925 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 414684007926 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 414684007927 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 414684007928 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 414684007929 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 414684007930 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 414684007931 Helix-turn-helix domains; Region: HTH; cl00088 414684007932 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 414684007933 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 414684007934 metal ion-dependent adhesion site (MIDAS); other site 414684007935 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 414684007936 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 414684007937 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 414684007938 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 414684007939 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684007940 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 414684007941 HSP70 interaction site [polypeptide binding]; other site 414684007942 EamA-like transporter family; Region: EamA; cl01037 414684007943 BolA-like protein; Region: BolA; cl00386 414684007944 Ribbon-helix-helix domain; Region: RHH_4; cl01775 414684007945 Abi-like protein; Region: Abi_2; cl01988 414684007946 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684007947 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684007948 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684007949 dimer interface [polypeptide binding]; other site 414684007950 putative CheW interface [polypeptide binding]; other site 414684007951 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684007952 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 414684007953 ABC transporter ATP-binding protein, putative 414684007954 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 414684007955 active site 414684007956 catalytic triad [active] 414684007957 oxyanion hole [active] 414684007958 switch loop; other site 414684007959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 414684007960 FIST N domain; Region: FIST; cl10701 414684007961 FIST C domain; Region: FIST_C; pfam10442 414684007962 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 414684007963 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 414684007964 active site 414684007965 catalytic tetrad [active] 414684007966 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 414684007967 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 414684007968 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 414684007969 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 414684007970 non-specific DNA binding site [nucleotide binding]; other site 414684007971 salt bridge; other site 414684007972 sequence-specific DNA binding site [nucleotide binding]; other site 414684007973 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 414684007974 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 414684007975 active site 414684007976 dimer interface [polypeptide binding]; other site 414684007977 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 414684007978 active site 414684007979 membrane ATPase/protein kinase; Provisional; Region: PRK09435 414684007980 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 414684007981 Walker A; other site 414684007982 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 414684007983 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684007984 active site 414684007985 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 414684007986 ThiS interaction site; other site 414684007987 putative active site [active] 414684007988 tetramer interface [polypeptide binding]; other site 414684007989 Ubiquitin-like proteins; Region: UBQ; cl00155 414684007990 charged pocket; other site 414684007991 hydrophobic patch; other site 414684007992 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 414684007993 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 414684007994 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 414684007995 HipA N-terminal domain; Region: Couple_hipA; cl11853 414684007996 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 414684007997 hypothetical protein; Region: PHA00661 414684007998 hypothetical protein; Region: PHA00661 414684007999 hypothetical protein; Region: PHA00662 414684008000 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 414684008001 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 414684008002 active site 414684008003 substrate binding site [chemical binding]; other site 414684008004 coenzyme B12 binding site [chemical binding]; other site 414684008005 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 414684008006 B12 binding site [chemical binding]; other site 414684008007 cobalt ligand [ion binding]; other site 414684008008 Ribbon-helix-helix domain; Region: RHH_4; cl01775 414684008009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684008010 active site 414684008011 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 414684008012 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684008013 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 414684008014 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 414684008015 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 414684008016 substrate binding pocket [chemical binding]; other site 414684008017 membrane-bound complex binding site; other site 414684008018 hinge residues; other site 414684008019 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 414684008020 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 414684008021 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 414684008022 putative PBP binding loops; other site 414684008023 dimer interface [polypeptide binding]; other site 414684008024 ABC-ATPase subunit interface; other site 414684008025 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 414684008026 dimer interface [polypeptide binding]; other site 414684008027 conserved gate region; other site 414684008028 putative PBP binding loops; other site 414684008029 ABC-ATPase subunit interface; other site 414684008030 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 414684008031 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 414684008032 Walker A/P-loop; other site 414684008033 ATP binding site [chemical binding]; other site 414684008034 Q-loop/lid; other site 414684008035 ABC transporter signature motif; other site 414684008036 Walker B; other site 414684008037 D-loop; other site 414684008038 H-loop/switch region; other site 414684008039 Protein of unknown function (DUF497); Region: DUF497; cl01108 414684008040 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 414684008041 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 414684008042 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 414684008043 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 414684008044 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 414684008045 Cadherin repeat-like domain; Region: CA_like; cl15786 414684008046 Ca2+ binding site [ion binding]; other site 414684008047 Bacterial Ig-like domain; Region: Big_5; cl01012 414684008048 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008049 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008050 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008051 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008052 Ca2+ binding site [ion binding]; other site 414684008053 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 414684008054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008055 Bacterial SH3 domain; Region: SH3_3; cl02551 414684008056 Bacterial SH3 domain; Region: SH3_3; cl02551 414684008057 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 414684008058 intersubunit interface [polypeptide binding]; other site 414684008059 active site 414684008060 Zn2+ binding site [ion binding]; other site 414684008061 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 414684008062 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 414684008063 active site 414684008064 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 414684008065 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 414684008066 non-specific DNA binding site [nucleotide binding]; other site 414684008067 salt bridge; other site 414684008068 sequence-specific DNA binding site [nucleotide binding]; other site 414684008069 Domain of unknown function (DUF955); Region: DUF955; cl01076 414684008070 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 414684008071 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 414684008072 conserved hypothetical protein; Region: MG423; TIGR00649 414684008073 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684008074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008075 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 414684008076 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 414684008077 active site 414684008078 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 414684008079 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 414684008080 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 414684008081 S-adenosylmethionine binding site [chemical binding]; other site 414684008082 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 414684008083 Peptidase family M48; Region: Peptidase_M48; cl12018 414684008084 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 414684008085 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 414684008086 putative FMN binding site [chemical binding]; other site 414684008087 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 414684008088 Substrate binding site; other site 414684008089 metal-binding site 414684008090 aminoglycoside phosphotransferase, pseudogene;identified by match to protein family HMM PF00005 414684008091 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 414684008092 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 414684008093 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684008094 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 414684008095 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 414684008096 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 414684008097 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 414684008098 dimer interface [polypeptide binding]; other site 414684008099 putative PBP binding regions; other site 414684008100 ABC-ATPase subunit interface; other site 414684008101 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 414684008102 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 414684008103 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 414684008104 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 414684008105 metal binding site [ion binding]; metal-binding site 414684008106 dihydrodipicolinate reductase; Provisional; Region: PRK00048 414684008107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008108 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 414684008109 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 414684008110 putative active site [active] 414684008111 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 414684008112 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 414684008113 dimer interface [polypeptide binding]; other site 414684008114 PYR/PP interface [polypeptide binding]; other site 414684008115 TPP binding site [chemical binding]; other site 414684008116 substrate binding site [chemical binding]; other site 414684008117 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 414684008118 TPP-binding site; other site 414684008119 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 414684008120 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 414684008121 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 414684008122 substrate binding site [chemical binding]; other site 414684008123 threonine dehydratase; Provisional; Region: PRK07334 414684008124 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 414684008125 tetramer interface [polypeptide binding]; other site 414684008126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684008127 catalytic residue [active] 414684008128 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 414684008129 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 414684008130 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 414684008131 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 414684008132 active site 414684008133 motif I; other site 414684008134 motif II; other site 414684008135 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684008136 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 414684008137 Moco binding site; other site 414684008138 metal coordination site [ion binding]; other site 414684008139 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 414684008140 Mechanosensitive ion channel; Region: MS_channel; pfam00924 414684008141 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 414684008142 active site 414684008143 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 414684008144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008145 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 414684008146 RNA/DNA hybrid binding site [nucleotide binding]; other site 414684008147 active site 414684008148 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 414684008149 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684008150 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 414684008151 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 414684008152 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 414684008153 FeS/SAM binding site; other site 414684008154 HemN C-terminal domain; Region: HemN_C; pfam06969 414684008155 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684008156 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 414684008157 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 414684008158 FeS/SAM binding site; other site 414684008159 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 414684008160 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 414684008161 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 414684008162 binding surface 414684008163 TPR motif; other site 414684008164 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 414684008165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008166 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 414684008167 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 414684008168 Fe-S cluster binding site [ion binding]; other site 414684008169 active site 414684008170 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 414684008171 MPT binding site; other site 414684008172 trimer interface [polypeptide binding]; other site 414684008173 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 414684008174 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 414684008175 active site 414684008176 Helix-turn-helix domains; Region: HTH; cl00088 414684008177 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 414684008178 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 414684008179 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008180 Walker A/P-loop; other site 414684008181 ATP binding site [chemical binding]; other site 414684008182 Q-loop/lid; other site 414684008183 ABC transporter signature motif; other site 414684008184 Walker B; other site 414684008185 D-loop; other site 414684008186 H-loop/switch region; other site 414684008187 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 414684008188 Sel1 repeat; Region: Sel1; cl02723 414684008189 Sel1 repeat; Region: Sel1; cl02723 414684008190 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 414684008191 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 414684008192 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 414684008193 active site 414684008194 dimer interface [polypeptide binding]; other site 414684008195 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 414684008196 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 414684008197 active site 414684008198 FMN binding site [chemical binding]; other site 414684008199 substrate binding site [chemical binding]; other site 414684008200 3Fe-4S cluster binding site [ion binding]; other site 414684008201 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 414684008202 domain interface; other site 414684008203 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684008204 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 414684008205 putative C-terminal domain interface [polypeptide binding]; other site 414684008206 putative GSH binding site (G-site) [chemical binding]; other site 414684008207 putative dimer interface [polypeptide binding]; other site 414684008208 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 414684008209 N-terminal domain interface [polypeptide binding]; other site 414684008210 dimer interface [polypeptide binding]; other site 414684008211 substrate binding pocket (H-site) [chemical binding]; other site 414684008212 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 414684008213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684008214 Bacitracin resistance protein BacA; Region: BacA; cl00858 414684008215 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 414684008216 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 414684008217 putative NAD(P) binding site [chemical binding]; other site 414684008218 active site 414684008219 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 414684008220 catalytic site [active] 414684008221 putative active site [active] 414684008222 putative substrate binding site [chemical binding]; other site 414684008223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 414684008224 OstA-like protein; Region: OstA; cl00844 414684008225 OstA-like protein; Region: OstA; cl00844 414684008226 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 414684008227 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 414684008228 Walker A/P-loop; other site 414684008229 ATP binding site [chemical binding]; other site 414684008230 Q-loop/lid; other site 414684008231 ABC transporter signature motif; other site 414684008232 Walker B; other site 414684008233 D-loop; other site 414684008234 H-loop/switch region; other site 414684008235 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 414684008236 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 414684008237 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 414684008238 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 414684008239 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 414684008240 30S subunit binding site; other site 414684008241 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 414684008242 active site 414684008243 phosphorylation site [posttranslational modification] 414684008244 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 414684008245 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 414684008246 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 414684008247 putative dimer interface [polypeptide binding]; other site 414684008248 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 414684008249 substrate binding pocket [chemical binding]; other site 414684008250 membrane-bound complex binding site; other site 414684008251 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684008252 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 414684008253 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 414684008254 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 414684008255 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 414684008256 N-terminal plug; other site 414684008257 ligand-binding site [chemical binding]; other site 414684008258 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684008259 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684008260 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 414684008261 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 414684008262 Sodium:solute symporter family; Region: SSF; cl00456 414684008263 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 414684008264 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 414684008265 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 414684008266 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684008267 metal binding triad; other site 414684008268 TolB amino-terminal domain; Region: TolB_N; cl00639 414684008269 Bacterial SH3 domain; Region: SH3_3; cl02551 414684008270 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 414684008271 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 414684008272 GAF domain; Region: GAF; cl15785 414684008273 Phytochrome region; Region: PHY; pfam00360 414684008274 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684008275 dimer interface [polypeptide binding]; other site 414684008276 phosphorylation site [posttranslational modification] 414684008277 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008278 ATP binding site [chemical binding]; other site 414684008279 Mg2+ binding site [ion binding]; other site 414684008280 G-X-G motif; other site 414684008281 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684008282 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 414684008283 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684008284 Protein export membrane protein; Region: SecD_SecF; cl14618 414684008285 Protein export membrane protein; Region: SecD_SecF; cl14618 414684008286 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 414684008287 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 414684008288 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 414684008289 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 414684008290 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 414684008291 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 414684008292 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 414684008293 pseudouridine synthase; Region: TIGR00093 414684008294 probable active site [active] 414684008295 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 414684008296 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 414684008297 DNA-binding site [nucleotide binding]; DNA binding site 414684008298 UTRA domain; Region: UTRA; cl01230 414684008299 imidazolonepropionase; Validated; Region: PRK09356 414684008300 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 414684008301 active site 414684008302 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 414684008303 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 414684008304 active site 414684008305 urocanate hydratase; Provisional; Region: PRK05414 414684008306 N-formylglutamate amidohydrolase; Region: FGase; cl01522 414684008307 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 414684008308 active sites [active] 414684008309 tetramer interface [polypeptide binding]; other site 414684008310 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 414684008311 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 414684008312 NAD(P) binding site [chemical binding]; other site 414684008313 catalytic residues [active] 414684008314 short chain dehydrogenase; Provisional; Region: PRK06181 414684008315 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 414684008316 putative NAD(P) binding site [chemical binding]; other site 414684008317 active site 414684008318 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684008319 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684008320 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 414684008321 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 414684008322 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 414684008323 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 414684008324 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 414684008325 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 414684008326 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 414684008327 FOG: CBS domain [General function prediction only]; Region: COG0517 414684008328 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 414684008329 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 414684008330 Zinc-finger domain; Region: zf-CHCC; cl01821 414684008331 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684008332 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684008333 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684008334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008335 Walker A/P-loop; other site 414684008336 ATP binding site [chemical binding]; other site 414684008337 Q-loop/lid; other site 414684008338 ABC transporter signature motif; other site 414684008339 Walker B; other site 414684008340 D-loop; other site 414684008341 H-loop/switch region; other site 414684008342 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 414684008343 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 414684008344 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 414684008345 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 414684008346 CoA-transferase family III; Region: CoA_transf_3; pfam02515 414684008347 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 414684008348 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 414684008349 FMN binding site [chemical binding]; other site 414684008350 substrate binding site [chemical binding]; other site 414684008351 putative catalytic residue [active] 414684008352 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 414684008353 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 414684008354 Malic enzyme, N-terminal domain; Region: malic; pfam00390 414684008355 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 414684008356 putative NAD(P) binding site [chemical binding]; other site 414684008357 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 414684008358 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684008359 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684008360 dimer interface [polypeptide binding]; other site 414684008361 phosphorylation site [posttranslational modification] 414684008362 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008363 ATP binding site [chemical binding]; other site 414684008364 Mg2+ binding site [ion binding]; other site 414684008365 G-X-G motif; other site 414684008366 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 414684008367 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 414684008368 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 414684008369 dimer interface [polypeptide binding]; other site 414684008370 conserved gate region; other site 414684008371 putative PBP binding loops; other site 414684008372 ABC-ATPase subunit interface; other site 414684008373 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 414684008374 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 414684008375 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 414684008376 ABC-ATPase subunit interface; other site 414684008377 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 414684008378 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 414684008379 Walker A/P-loop; other site 414684008380 ATP binding site [chemical binding]; other site 414684008381 Q-loop/lid; other site 414684008382 ABC transporter signature motif; other site 414684008383 Walker B; other site 414684008384 D-loop; other site 414684008385 H-loop/switch region; other site 414684008386 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 414684008387 PhoU domain; Region: PhoU; pfam01895 414684008388 PhoU domain; Region: PhoU; pfam01895 414684008389 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 414684008390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684008391 active site 414684008392 phosphorylation site [posttranslational modification] 414684008393 intermolecular recognition site; other site 414684008394 dimerization interface [polypeptide binding]; other site 414684008395 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 414684008396 DNA binding site [nucleotide binding] 414684008397 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 414684008398 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 414684008399 S-adenosylmethionine binding site [chemical binding]; other site 414684008400 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684008401 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 414684008402 active site 414684008403 NTP binding site [chemical binding]; other site 414684008404 metal binding triad [ion binding]; metal-binding site 414684008405 antibiotic binding site [chemical binding]; other site 414684008406 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 414684008407 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684008408 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 414684008409 putative NAD(P) binding site [chemical binding]; other site 414684008410 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684008411 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684008412 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 414684008413 N-terminal domain interface [polypeptide binding]; other site 414684008414 dimer interface [polypeptide binding]; other site 414684008415 substrate binding pocket (H-site) [chemical binding]; other site 414684008416 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 414684008417 S-adenosylmethionine binding site [chemical binding]; other site 414684008418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684008420 Coenzyme A binding pocket [chemical binding]; other site 414684008421 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 414684008422 hypothetical protein; Provisional; Region: PRK07877 414684008423 dimer interface [polypeptide binding]; other site 414684008424 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 414684008425 multidrug resistance protein MdtN; Provisional; Region: PRK10476 414684008426 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 414684008427 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 414684008428 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 414684008429 Walker A/P-loop; other site 414684008430 ATP binding site [chemical binding]; other site 414684008431 Q-loop/lid; other site 414684008432 ABC transporter signature motif; other site 414684008433 Walker B; other site 414684008434 D-loop; other site 414684008435 H-loop/switch region; other site 414684008436 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684008437 FtsX-like permease family; Region: FtsX; cl15850 414684008438 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684008439 FtsX-like permease family; Region: FtsX; cl15850 414684008440 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 414684008441 AMP-binding enzyme; Region: AMP-binding; cl15778 414684008442 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684008443 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 414684008444 Phage Tail Collar Domain; Region: Collar; pfam07484 414684008445 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 414684008446 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 414684008447 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 414684008448 Walker A motif; other site 414684008449 ATP binding site [chemical binding]; other site 414684008450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008451 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 414684008452 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 414684008453 active site 414684008454 HslU subunit interaction site [polypeptide binding]; other site 414684008455 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 414684008456 4-fold oligomerization interface [polypeptide binding]; other site 414684008457 putative active site pocket [active] 414684008458 metal binding residues [ion binding]; metal-binding site 414684008459 3-fold/trimer interface [polypeptide binding]; other site 414684008460 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 414684008461 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 414684008462 putative active site [active] 414684008463 oxyanion strand; other site 414684008464 catalytic triad [active] 414684008465 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684008466 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 414684008467 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 414684008468 catalytic residues [active] 414684008469 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 414684008470 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 414684008471 substrate binding site [chemical binding]; other site 414684008472 glutamase interaction surface [polypeptide binding]; other site 414684008473 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 414684008474 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 414684008475 nucleotide binding site/active site [active] 414684008476 HIT family signature motif; other site 414684008477 catalytic residue [active] 414684008478 L-lactate permease; Region: Lactate_perm; cl00701 414684008479 L-lactate permease; Region: Lactate_perm; cl00701 414684008480 MarC family integral membrane protein; Region: MarC; cl00919 414684008481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008482 AAA domain; Region: AAA_28; pfam13521 414684008483 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 414684008484 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684008485 active site 414684008486 nucleotide binding site [chemical binding]; other site 414684008487 HIGH motif; other site 414684008488 KMSKS motif; other site 414684008489 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 414684008490 Family description; Region: VCBS; pfam13517 414684008491 Transglycosylase; Region: Transgly; cl07896 414684008492 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684008493 dimer interface [polypeptide binding]; other site 414684008494 phosphorylation site [posttranslational modification] 414684008495 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008496 ATP binding site [chemical binding]; other site 414684008497 Mg2+ binding site [ion binding]; other site 414684008498 G-X-G motif; other site 414684008499 D-alanyl-D-alanine carboxypeptidase, pseudogene;identified by match to protein family HMM PF00529 414684008500 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 414684008501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008502 ATP binding site [chemical binding]; other site 414684008503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008504 tellurite resistance protein terB; Region: terB; cd07176 414684008505 putative metal binding site [ion binding]; other site 414684008506 Predicted transcriptional regulator [Transcription]; Region: COG2932 414684008507 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 414684008508 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 414684008509 Catalytic site [active] 414684008510 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 414684008511 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 414684008512 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 414684008513 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 414684008514 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 414684008515 active site 414684008516 catalytic site [active] 414684008517 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 414684008518 DNA-binding site [nucleotide binding]; DNA binding site 414684008519 RNA-binding motif; other site 414684008520 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 414684008521 putative metal binding site [ion binding]; other site 414684008522 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 414684008523 putative substrate translocation pore; other site 414684008524 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 414684008525 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 414684008526 N-terminal plug; other site 414684008527 ligand-binding site [chemical binding]; other site 414684008528 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 414684008529 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 414684008530 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 414684008531 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 414684008532 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 414684008533 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 414684008534 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 414684008535 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 414684008536 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008537 hypothetical protein; Provisional; Region: PRK13560 414684008538 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 414684008539 PAS domain; Region: PAS_9; pfam13426 414684008540 putative active site [active] 414684008541 heme pocket [chemical binding]; other site 414684008542 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684008543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008544 ATP binding site [chemical binding]; other site 414684008545 Mg2+ binding site [ion binding]; other site 414684008546 G-X-G motif; other site 414684008547 Response regulator receiver domain; Region: Response_reg; pfam00072 414684008548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684008549 active site 414684008550 phosphorylation site [posttranslational modification] 414684008551 intermolecular recognition site; other site 414684008552 dimerization interface [polypeptide binding]; other site 414684008553 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 414684008554 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 414684008555 dimer interface [polypeptide binding]; other site 414684008556 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 414684008557 active site 414684008558 Fe binding site [ion binding]; other site 414684008559 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684008560 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 414684008561 putative DNA binding site [nucleotide binding]; other site 414684008562 putative Zn2+ binding site [ion binding]; other site 414684008563 Helix-turn-helix domains; Region: HTH; cl00088 414684008564 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684008565 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 414684008566 cofactor binding site; other site 414684008567 metal binding site [ion binding]; metal-binding site 414684008568 Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]; Region: GlmS; COG0449 414684008569 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 414684008570 active site 414684008571 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 414684008572 dimer interface [polypeptide binding]; other site 414684008573 active site 414684008574 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 414684008575 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 414684008576 active site 414684008577 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 414684008578 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684008579 dimer interface [polypeptide binding]; other site 414684008580 phosphorylation site [posttranslational modification] 414684008581 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008582 ATP binding site [chemical binding]; other site 414684008583 G-X-G motif; other site 414684008584 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 414684008585 dimer interface [polypeptide binding]; other site 414684008586 conserved gate region; other site 414684008587 ABC-ATPase subunit interface; other site 414684008588 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 414684008589 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 414684008590 Walker A/P-loop; other site 414684008591 ATP binding site [chemical binding]; other site 414684008592 Q-loop/lid; other site 414684008593 ABC transporter signature motif; other site 414684008594 Walker B; other site 414684008595 D-loop; other site 414684008596 H-loop/switch region; other site 414684008597 NIL domain; Region: NIL; cl09633 414684008598 NMT1-like family; Region: NMT1_2; cl15260 414684008599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684008600 Helix-turn-helix domains; Region: HTH; cl00088 414684008601 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 414684008602 putative effector binding pocket; other site 414684008603 putative dimerization interface [polypeptide binding]; other site 414684008604 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 414684008605 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 414684008606 active site 414684008607 catalytic tetrad [active] 414684008608 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 414684008609 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 414684008610 putative NAD(P) binding site [chemical binding]; other site 414684008611 putative substrate binding site [chemical binding]; other site 414684008612 catalytic Zn binding site [ion binding]; other site 414684008613 structural Zn binding site [ion binding]; other site 414684008614 dimer interface [polypeptide binding]; other site 414684008615 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 414684008616 GAF domain; Region: GAF; cl15785 414684008617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684008618 metal binding site [ion binding]; metal-binding site 414684008619 active site 414684008620 I-site; other site 414684008621 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 414684008622 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 414684008623 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 414684008624 ATP binding site [chemical binding]; other site 414684008625 active site 414684008626 substrate binding site [chemical binding]; other site 414684008627 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 414684008628 SlyX; Region: SlyX; cl01090 414684008629 aconitate hydratase; Validated; Region: PRK09277 414684008630 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 414684008631 substrate binding site [chemical binding]; other site 414684008632 ligand binding site [chemical binding]; other site 414684008633 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 414684008634 substrate binding site [chemical binding]; other site 414684008635 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 414684008636 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 414684008637 dimer interface [polypeptide binding]; other site 414684008638 conserved gate region; other site 414684008639 putative PBP binding loops; other site 414684008640 ABC-ATPase subunit interface; other site 414684008641 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 414684008642 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 414684008643 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 414684008644 dimer interface [polypeptide binding]; other site 414684008645 conserved gate region; other site 414684008646 putative PBP binding loops; other site 414684008647 ABC-ATPase subunit interface; other site 414684008648 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 414684008649 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 414684008650 Walker A/P-loop; other site 414684008651 ATP binding site [chemical binding]; other site 414684008652 Q-loop/lid; other site 414684008653 ABC transporter signature motif; other site 414684008654 Walker B; other site 414684008655 D-loop; other site 414684008656 H-loop/switch region; other site 414684008657 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 414684008658 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 414684008659 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 414684008660 Walker A/P-loop; other site 414684008661 ATP binding site [chemical binding]; other site 414684008662 Q-loop/lid; other site 414684008663 ABC transporter signature motif; other site 414684008664 Walker B; other site 414684008665 D-loop; other site 414684008666 H-loop/switch region; other site 414684008667 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 414684008668 Integral membrane protein TerC family; Region: TerC; cl10468 414684008669 Putative esterase; Region: Esterase; pfam00756 414684008670 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_4; cd04511 414684008671 nudix motif; other site 414684008672 Entericidin EcnA/B family; Region: Entericidin; cl02322 414684008673 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 414684008674 Domain of unknown function (DUF307); Region: DUF307; pfam03733 414684008675 Domain of unknown function (DUF307); Region: DUF307; pfam03733 414684008676 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 414684008677 Phosphoglycerate kinase; Region: PGK; pfam00162 414684008678 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 414684008679 substrate binding site [chemical binding]; other site 414684008680 hinge regions; other site 414684008681 ADP binding site [chemical binding]; other site 414684008682 catalytic site [active] 414684008683 MgtC family; Region: MgtC; pfam02308 414684008684 Protein of unknown function DUF45; Region: DUF45; cl00636 414684008685 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 414684008686 EamA-like transporter family; Region: EamA; cl01037 414684008687 EamA-like transporter family; Region: EamA; cl01037 414684008688 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 414684008689 active site 414684008690 N-acetyltransferase; Region: Acetyltransf_2; cl00949 414684008691 adenylosuccinate lyase; Provisional; Region: PRK07492 414684008692 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 414684008693 tetramer interface [polypeptide binding]; other site 414684008694 active site 414684008695 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 414684008696 active site 414684008697 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 414684008698 hypothetical protein; Reviewed; Region: PRK00024 414684008699 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 414684008700 MPN+ (JAMM) motif; other site 414684008701 Zinc-binding site [ion binding]; other site 414684008702 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 414684008703 active site 414684008704 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 414684008705 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684008706 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 414684008707 putative dimer interface [polypeptide binding]; other site 414684008708 N-terminal domain interface [polypeptide binding]; other site 414684008709 putative substrate binding pocket (H-site) [chemical binding]; other site 414684008710 Sugar fermentation stimulation protein; Region: SfsA; cl00647 414684008711 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 414684008712 putative MPT binding site; other site 414684008713 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 414684008714 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 414684008715 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 414684008716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008717 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 414684008718 CHASE4 domain; Region: CHASE4; cl01308 414684008719 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684008720 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 414684008721 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684008722 dimer interface [polypeptide binding]; other site 414684008723 phosphorylation site [posttranslational modification] 414684008724 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008725 ATP binding site [chemical binding]; other site 414684008726 Mg2+ binding site [ion binding]; other site 414684008727 G-X-G motif; other site 414684008728 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 414684008729 active site 414684008730 Cytochrome c; Region: Cytochrom_C; cl11414 414684008731 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 414684008732 Ligand binding site; other site 414684008733 oligomer interface; other site 414684008734 prephenate dehydratase; Provisional; Region: PRK11899 414684008735 Prephenate dehydratase; Region: PDT; pfam00800 414684008736 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 414684008737 putative L-Phe binding site [chemical binding]; other site 414684008738 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 414684008739 putative active site [active] 414684008740 Ap4A binding site [chemical binding]; other site 414684008741 nudix motif; other site 414684008742 putative metal binding site [ion binding]; other site 414684008743 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 414684008744 double-transmembrane region pseudogene;identified by match to protein family HMM PF02308 414684008745 double-transmembrane region pseudogene;identified by match to protein family HMM PF01863 414684008746 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 414684008747 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 414684008748 MoxR-like ATPases [General function prediction only]; Region: COG0714 414684008749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008750 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 414684008751 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 414684008752 putative active site [active] 414684008753 putative CoA binding site [chemical binding]; other site 414684008754 nudix motif; other site 414684008755 metal binding site [ion binding]; metal-binding site 414684008756 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 414684008757 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 414684008758 active site 414684008759 NTP binding site [chemical binding]; other site 414684008760 metal binding triad [ion binding]; metal-binding site 414684008761 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 414684008762 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 414684008763 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 414684008764 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 414684008765 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 414684008766 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 414684008767 [2Fe-2S] cluster binding site [ion binding]; other site 414684008768 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 414684008769 Qi binding site; other site 414684008770 intrachain domain interface; other site 414684008771 interchain domain interface [polypeptide binding]; other site 414684008772 cytochrome b; Provisional; Region: CYTB; MTH00156 414684008773 heme bH binding site [chemical binding]; other site 414684008774 heme bL binding site [chemical binding]; other site 414684008775 Qo binding site; other site 414684008776 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 414684008777 interchain domain interface [polypeptide binding]; other site 414684008778 intrachain domain interface; other site 414684008779 Qi binding site; other site 414684008780 Qo binding site; other site 414684008781 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 414684008782 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 414684008783 GTP-binding protein YchF; Reviewed; Region: PRK09601 414684008784 YchF GTPase; Region: YchF; cd01900 414684008785 G1 box; other site 414684008786 GTP/Mg2+ binding site [chemical binding]; other site 414684008787 Switch I region; other site 414684008788 G2 box; other site 414684008789 Switch II region; other site 414684008790 G3 box; other site 414684008791 G4 box; other site 414684008792 G5 box; other site 414684008793 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 414684008794 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 414684008795 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 414684008796 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 414684008797 heme binding site [chemical binding]; other site 414684008798 ferroxidase pore; other site 414684008799 ferroxidase diiron center [ion binding]; other site 414684008800 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 414684008801 putative glutathione S-transferase; Provisional; Region: PRK10357 414684008802 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 414684008803 putative C-terminal domain interface [polypeptide binding]; other site 414684008804 putative GSH binding site (G-site) [chemical binding]; other site 414684008805 putative dimer interface [polypeptide binding]; other site 414684008806 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 414684008807 dimer interface [polypeptide binding]; other site 414684008808 N-terminal domain interface [polypeptide binding]; other site 414684008809 putative substrate binding pocket (H-site) [chemical binding]; other site 414684008810 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684008811 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684008812 metal binding site [ion binding]; metal-binding site 414684008813 active site 414684008814 I-site; other site 414684008815 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 414684008816 Prostaglandin dehydrogenases; Region: PGDH; cd05288 414684008817 NAD(P) binding site [chemical binding]; other site 414684008818 substrate binding site [chemical binding]; other site 414684008819 dimer interface [polypeptide binding]; other site 414684008820 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 414684008821 Helix-turn-helix domains; Region: HTH; cl00088 414684008822 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 414684008823 dimerization interface [polypeptide binding]; other site 414684008824 substrate binding pocket [chemical binding]; other site 414684008825 Fatty acyltransferase-like subfamily of the SGNH hydrolases, 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...; Region: fatty_acyltransferase_like; cd01846 414684008826 active site 414684008827 catalytic triad [active] 414684008828 oxyanion hole [active] 414684008829 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 414684008830 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684008831 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 414684008832 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684008833 Helix-turn-helix domains; Region: HTH; cl00088 414684008834 WHG domain; Region: WHG; pfam13305 414684008835 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 414684008836 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 414684008837 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 414684008838 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 414684008839 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 414684008840 biofilm formation regulator HmsP; Provisional; Region: PRK11829 414684008841 PAS domain S-box; Region: sensory_box; TIGR00229 414684008842 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 414684008843 putative active site [active] 414684008844 heme pocket [chemical binding]; other site 414684008845 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 414684008846 PAS fold; Region: PAS_3; pfam08447 414684008847 putative active site [active] 414684008848 heme pocket [chemical binding]; other site 414684008849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684008850 metal binding site [ion binding]; metal-binding site 414684008851 active site 414684008852 I-site; other site 414684008853 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 414684008854 YcjX-like family, DUF463; Region: DUF463; cl01193 414684008855 hypothetical protein; Provisional; Region: PRK05415 414684008856 Domain of unknown function (DUF697); Region: DUF697; cl12064 414684008857 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 414684008858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008859 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 414684008860 Protein of unknown function (DUF445); Region: DUF445; pfam04286 414684008861 FOG: CBS domain [General function prediction only]; Region: COG0517 414684008862 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 414684008863 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 414684008864 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 414684008865 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 414684008866 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 414684008867 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 414684008868 two-component response regulator; Provisional; Region: PRK09191 414684008869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684008870 active site 414684008871 phosphorylation site [posttranslational modification] 414684008872 intermolecular recognition site; other site 414684008873 dimerization interface [polypeptide binding]; other site 414684008874 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 414684008875 active site 414684008876 metal binding site [ion binding]; metal-binding site 414684008877 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 414684008878 BON domain; Region: BON; cl02771 414684008879 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; cl02940 414684008880 Protein of unknown function (DUF520); Region: DUF520; cl00723 414684008881 PAS fold; Region: PAS_4; pfam08448 414684008882 PAS domain S-box; Region: sensory_box; TIGR00229 414684008883 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684008884 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 414684008885 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008886 ATP binding site [chemical binding]; other site 414684008887 Mg2+ binding site [ion binding]; other site 414684008888 G-X-G motif; other site 414684008889 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684008890 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 414684008891 active site 414684008892 metal binding site [ion binding]; metal-binding site 414684008893 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 414684008894 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 414684008895 active site 414684008896 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684008897 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 414684008898 Family description; Region: VCBS; pfam13517 414684008899 Family description; Region: VCBS; pfam13517 414684008900 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 414684008901 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684008902 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 414684008903 Class I ribonucleotide reductase; Region: RNR_I; cd01679 414684008904 active site 414684008905 dimer interface [polypeptide binding]; other site 414684008906 catalytic residues [active] 414684008907 effector binding site; other site 414684008908 R2 peptide binding site; other site 414684008909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 414684008910 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008911 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 414684008912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 414684008913 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 414684008914 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 414684008915 active site 414684008916 metal binding site [ion binding]; metal-binding site 414684008917 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 414684008918 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 414684008919 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 414684008920 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 414684008921 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cd09682 414684008922 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 414684008923 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 414684008924 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 414684008925 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 414684008926 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 414684008927 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 414684008928 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684008929 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684008930 Domain of unknown function DUF29; Region: DUF29; pfam01724 414684008931 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 414684008932 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 414684008933 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 414684008934 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 414684008935 dimer interface [polypeptide binding]; other site 414684008936 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 414684008937 putative radical transfer pathway; other site 414684008938 diiron center [ion binding]; other site 414684008939 tyrosyl radical; other site 414684008940 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 414684008941 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 414684008942 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 414684008943 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 414684008944 active site 414684008945 motif I; other site 414684008946 motif II; other site 414684008947 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 414684008948 oligomerization interface [polypeptide binding]; other site 414684008949 active site 414684008950 metal binding site [ion binding]; metal-binding site 414684008951 Septum formation topological specificity factor MinE; Region: MinE; cl00538 414684008952 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 414684008953 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 414684008954 Switch I; other site 414684008955 Switch II; other site 414684008956 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 414684008957 septum formation inhibitor; Reviewed; Region: minC; PRK04804 414684008958 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 414684008959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684008960 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 414684008961 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 414684008962 NAD binding site [chemical binding]; other site 414684008963 dimer interface [polypeptide binding]; other site 414684008964 substrate binding site [chemical binding]; other site 414684008965 tetramer (dimer of dimers) interface [polypeptide binding]; other site 414684008966 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 414684008967 Cu(I) binding site [ion binding]; other site 414684008968 Protein of unknown function (DUF461); Region: DUF461; cl01071 414684008969 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 414684008970 ATP synthase A chain; Region: ATP-synt_A; cl00413 414684008971 ATP synthase subunit C; Region: ATP-synt_C; cl00466 414684008972 Plant ATP synthase F0; Region: YMF19; cl07975 414684008973 Plant ATP synthase F0; Region: YMF19; cl07975 414684008974 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 414684008975 glucokinase, proteobacterial type; Region: glk; TIGR00749 414684008976 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 414684008977 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 414684008978 active site 414684008979 homotetramer interface [polypeptide binding]; other site 414684008980 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684008981 N-formylglutamate amidohydrolase; Region: FGase; cl01522 414684008982 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 414684008983 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 414684008984 AMP-binding domain protein; Validated; Region: PRK07529 414684008985 AMP-binding enzyme; Region: AMP-binding; cl15778 414684008986 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684008987 enoyl-CoA hydratase; Provisional; Region: PRK06210 414684008988 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 414684008989 substrate binding site [chemical binding]; other site 414684008990 oxyanion hole (OAH) forming residues; other site 414684008991 trimer interface [polypeptide binding]; other site 414684008992 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 414684008993 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684008994 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 414684008995 N-terminal plug; other site 414684008996 ligand-binding site [chemical binding]; other site 414684008997 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684008998 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 414684008999 Helix-turn-helix domains; Region: HTH; cl00088 414684009000 WHG domain; Region: WHG; pfam13305 414684009001 acyl-CoA synthetase; Validated; Region: PRK06839 414684009002 AMP-binding enzyme; Region: AMP-binding; cl15778 414684009003 (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 414684009004 active site 414684009005 catalytic site [active] 414684009006 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 414684009007 active site 1 [active] 414684009008 active site 2 [active] 414684009009 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 414684009010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009011 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 414684009012 NAD(P) binding site [chemical binding]; other site 414684009013 active site 414684009014 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 414684009015 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684009016 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684009017 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 414684009018 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 414684009019 carboxyltransferase (CT) interaction site; other site 414684009020 biotinylation site [posttranslational modification]; other site 414684009021 enoyl-CoA hydratase; Provisional; Region: PRK05995 414684009022 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 414684009023 substrate binding site [chemical binding]; other site 414684009024 oxyanion hole (OAH) forming residues; other site 414684009025 trimer interface [polypeptide binding]; other site 414684009026 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 414684009027 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684009028 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 414684009029 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684009030 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684009031 active site 414684009032 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 414684009033 AMP-binding enzyme; Region: AMP-binding; cl15778 414684009034 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684009035 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684009036 Helix-turn-helix domains; Region: HTH; cl00088 414684009037 elongation factor G; Reviewed; Region: PRK00007 414684009038 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 414684009039 G1 box; other site 414684009040 putative GEF interaction site [polypeptide binding]; other site 414684009041 GTP/Mg2+ binding site [chemical binding]; other site 414684009042 Switch I region; other site 414684009043 G2 box; other site 414684009044 G3 box; other site 414684009045 Switch II region; other site 414684009046 G4 box; other site 414684009047 G5 box; other site 414684009048 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 414684009049 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 414684009050 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 414684009051 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 414684009052 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 414684009053 putative oligomer interface [polypeptide binding]; other site 414684009054 putative active site [active] 414684009055 metal binding site [ion binding]; metal-binding site 414684009056 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 414684009057 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684009058 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684009059 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 414684009060 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 414684009061 active site 414684009062 dimer interface [polypeptide binding]; other site 414684009063 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 414684009064 Ligand Binding Site [chemical binding]; other site 414684009065 Molecular Tunnel; other site 414684009066 ferrochelatase; Reviewed; Region: hemH; PRK00035 414684009067 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 414684009068 C-terminal domain interface [polypeptide binding]; other site 414684009069 active site 414684009070 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 414684009071 active site 414684009072 N-terminal domain interface [polypeptide binding]; other site 414684009073 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 414684009074 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 414684009075 tetramer interface [polypeptide binding]; other site 414684009076 heme binding pocket [chemical binding]; other site 414684009077 NADPH binding site [chemical binding]; other site 414684009078 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 414684009079 Helix-turn-helix domains; Region: HTH; cl00088 414684009080 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 414684009081 dimerization interface [polypeptide binding]; other site 414684009082 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 414684009083 active site 414684009084 PrkA family serine protein kinase; Provisional; Region: PRK15455 414684009085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684009086 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 414684009087 Uncharacterized conserved protein [Function unknown]; Region: COG2718 414684009088 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 414684009089 SpoVR family protein; Provisional; Region: PRK11767 414684009090 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 414684009091 enoyl-CoA hydratase; Provisional; Region: PRK06688 414684009092 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 414684009093 substrate binding site [chemical binding]; other site 414684009094 oxyanion hole (OAH) forming residues; other site 414684009095 trimer interface [polypeptide binding]; other site 414684009096 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 414684009097 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 414684009098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009099 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 414684009100 TPR motif; other site 414684009101 binding surface 414684009102 Tetratricopeptide repeat; Region: TPR_12; pfam13424 414684009103 Tetratricopeptide repeat; Region: TPR_12; pfam13424 414684009104 GAF domain; Region: GAF_2; pfam13185 414684009105 GAF domain; Region: GAF; cl15785 414684009106 sensory histidine kinase AtoS; Provisional; Region: PRK11360 414684009107 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 414684009108 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 414684009109 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684009110 phosphoenolpyruvate synthase; Validated; Region: PRK06464 414684009111 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 414684009112 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 414684009113 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 414684009114 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 414684009115 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 414684009116 DNA binding residues [nucleotide binding] 414684009117 chaperone protein DnaJ; Provisional; Region: PRK14299 414684009118 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 414684009119 HSP70 interaction site [polypeptide binding]; other site 414684009120 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 414684009121 substrate binding site [polypeptide binding]; other site 414684009122 dimer interface [polypeptide binding]; other site 414684009123 thioredoxin 2; Provisional; Region: PRK10996 414684009124 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684009125 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 414684009126 catalytic residues [active] 414684009127 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684009128 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 414684009129 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 414684009130 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 414684009131 Helix-turn-helix domains; Region: HTH; cl00088 414684009132 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 414684009133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684009134 dimer interface [polypeptide binding]; other site 414684009135 putative CheW interface [polypeptide binding]; other site 414684009136 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 414684009137 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684009138 active site 414684009139 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 414684009140 active site 414684009141 substrate binding pocket [chemical binding]; other site 414684009142 dimer interface [polypeptide binding]; other site 414684009143 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 414684009144 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 414684009145 dimer interface [polypeptide binding]; other site 414684009146 motif 1; other site 414684009147 active site 414684009148 motif 2; other site 414684009149 motif 3; other site 414684009150 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 414684009151 anticodon binding site; other site 414684009152 glycosyl transferase, family 51, pseudogene;identified by match to protein family HMM PF00762 match to protein family HMM TIGR00109 414684009153 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 414684009154 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 414684009155 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 414684009156 dimer interaction site [polypeptide binding]; other site 414684009157 substrate-binding tunnel; other site 414684009158 active site 414684009159 catalytic site [active] 414684009160 substrate binding site [chemical binding]; other site 414684009161 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684009162 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684009163 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 414684009164 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 414684009165 active site 414684009166 Riboflavin kinase; Region: Flavokinase; cl03312 414684009167 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 414684009168 oligomeric interface; other site 414684009169 putative active site [active] 414684009170 homodimer interface [polypeptide binding]; other site 414684009171 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 414684009172 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684009173 active site 414684009174 HIGH motif; other site 414684009175 nucleotide binding site [chemical binding]; other site 414684009176 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 414684009177 active site 414684009178 KMSKS motif; other site 414684009179 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 414684009180 tRNA binding surface [nucleotide binding]; other site 414684009181 anticodon binding site; other site 414684009182 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 414684009183 lipoprotein signal peptidase; Provisional; Region: PRK14787 414684009184 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 414684009185 conserved hypothetical protein, pseudogene 414684009186 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684009187 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684009188 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684009189 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684009190 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684009191 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 414684009192 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 414684009193 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 414684009194 active site 414684009195 dimer interface [polypeptide binding]; other site 414684009196 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 414684009197 dimer interface [polypeptide binding]; other site 414684009198 active site 414684009199 secreted effector protein PipB; Provisional; Region: PRK15197 414684009200 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009201 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684009202 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009203 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009204 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009205 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009206 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 414684009207 nucleoside/Zn binding site; other site 414684009208 dimer interface [polypeptide binding]; other site 414684009209 catalytic motif [active] 414684009210 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684009211 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684009212 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684009213 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 414684009214 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 414684009215 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 414684009216 RNA binding surface [nucleotide binding]; other site 414684009217 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 414684009218 active site 414684009219 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 414684009220 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 414684009221 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 414684009222 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009223 ATP binding site [chemical binding]; other site 414684009224 Mg2+ binding site [ion binding]; other site 414684009225 G-X-G motif; other site 414684009226 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 414684009227 ATP binding site [chemical binding]; other site 414684009228 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 414684009229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009230 TPR domain protein, pseudogene;identified by match to protein family HMM PF01979 match to protein family HMM TIGR00856 414684009231 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 414684009232 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 414684009233 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684009234 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 414684009235 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 414684009236 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 414684009237 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684009238 catalytic residue [active] 414684009239 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 414684009240 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 414684009241 PhnA protein; Region: PhnA; pfam03831 414684009242 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 414684009243 non-specific DNA binding site [nucleotide binding]; other site 414684009244 salt bridge; other site 414684009245 sequence-specific DNA binding site [nucleotide binding]; other site 414684009246 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 414684009247 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 414684009248 generic binding surface II; other site 414684009249 generic binding surface I; other site 414684009250 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 414684009251 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 414684009252 Cupin domain; Region: Cupin_2; cl09118 414684009253 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 414684009254 putative acyl-acceptor binding pocket; other site 414684009255 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 414684009256 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 414684009257 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684009258 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 414684009259 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 414684009260 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 414684009261 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684009262 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 414684009263 Predicted methyltransferase [General function prediction only]; Region: COG3897 414684009264 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 414684009265 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684009266 UbiA prenyltransferase family; Region: UbiA; cl00337 414684009267 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 414684009268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 414684009269 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 414684009270 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 414684009271 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 414684009272 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 414684009273 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 414684009274 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 414684009275 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 414684009276 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 414684009277 Subunit I/III interface [polypeptide binding]; other site 414684009278 D-pathway; other site 414684009279 Subunit I/VIIc interface [polypeptide binding]; other site 414684009280 Subunit I/IV interface [polypeptide binding]; other site 414684009281 Subunit I/II interface [polypeptide binding]; other site 414684009282 Low-spin heme (heme a) binding site [chemical binding]; other site 414684009283 Subunit I/VIIa interface [polypeptide binding]; other site 414684009284 Subunit I/VIa interface [polypeptide binding]; other site 414684009285 Dimer interface; other site 414684009286 Putative water exit pathway; other site 414684009287 Binuclear center (heme a3/CuB) [ion binding]; other site 414684009288 K-pathway; other site 414684009289 Subunit I/Vb interface [polypeptide binding]; other site 414684009290 Putative proton exit pathway; other site 414684009291 Subunit I/VIb interface; other site 414684009292 Subunit I/VIc interface [polypeptide binding]; other site 414684009293 Electron transfer pathway; other site 414684009294 Subunit I/VIIIb interface [polypeptide binding]; other site 414684009295 Subunit I/VIIb interface [polypeptide binding]; other site 414684009296 UbiA prenyltransferase family; Region: UbiA; cl00337 414684009297 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 414684009298 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 414684009299 Phospholipid binding site [chemical binding]; other site 414684009300 Subunit III/VIIa interface [polypeptide binding]; other site 414684009301 Subunit I/III interface [polypeptide binding]; other site 414684009302 Subunit III/VIb interface [polypeptide binding]; other site 414684009303 Subunit III/VIa interface; other site 414684009304 Subunit III/Vb interface [polypeptide binding]; other site 414684009305 Protein of unknown function (DUF983); Region: DUF983; cl02211 414684009306 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 414684009307 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 414684009308 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 414684009309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684009310 catalytic residue [active] 414684009311 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684009312 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684009313 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684009314 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684009315 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 414684009316 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 414684009317 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 414684009318 catalytic triad [active] 414684009319 dimer interface [polypeptide binding]; other site 414684009320 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 414684009321 RNA/DNA hybrid binding site [nucleotide binding]; other site 414684009322 active site 414684009323 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 414684009324 Phosphotransferase enzyme family; Region: APH; pfam01636 414684009325 putative active site [active] 414684009326 putative substrate binding site [chemical binding]; other site 414684009327 ATP binding site [chemical binding]; other site 414684009328 phage shock protein A; Region: phageshock_pspA; TIGR02977 414684009329 PspC domain; Region: PspC; cl00864 414684009330 PemK-like protein; Region: PemK; cl00995 414684009331 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684009332 LytB protein; Region: LYTB; cl00507 414684009333 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 414684009334 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 414684009335 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 414684009336 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 414684009337 lipoyl attachment site [posttranslational modification]; other site 414684009338 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 414684009339 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 414684009340 tetramer interface [polypeptide binding]; other site 414684009341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684009342 catalytic residue [active] 414684009343 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 414684009344 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 414684009345 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684009346 catalytic residue [active] 414684009347 hypothetical protein; Provisional; Region: PRK08912 414684009348 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 414684009349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684009350 homodimer interface [polypeptide binding]; other site 414684009351 catalytic residue [active] 414684009352 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 414684009353 MG2 domain; Region: A2M_N; pfam01835 414684009354 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 414684009355 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 414684009356 Alpha-2-macroglobulin family; Region: A2M; pfam00207 414684009357 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 414684009358 surface patch; other site 414684009359 thioester region; other site 414684009360 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 414684009361 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 414684009362 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 414684009363 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 414684009364 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684009365 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 414684009366 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 414684009367 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 414684009368 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 414684009369 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 414684009370 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 414684009371 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 414684009372 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 414684009373 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 414684009374 DNA-binding site [nucleotide binding]; DNA binding site 414684009375 RNA-binding motif; other site 414684009376 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 414684009377 DNA-binding site [nucleotide binding]; DNA binding site 414684009378 RNA-binding motif; other site 414684009379 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 414684009380 AMP-binding enzyme; Region: AMP-binding; cl15778 414684009381 AMP-binding enzyme; Region: AMP-binding; cl15778 414684009382 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684009383 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684009384 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684009385 Integrase core domain; Region: rve; cl01316 414684009386 Winged helix-turn helix; Region: HTH_29; pfam13551 414684009387 Helix-turn-helix domains; Region: HTH; cl00088 414684009388 Winged helix-turn helix; Region: HTH_33; pfam13592 414684009389 Rop-like; Region: Rop-like; cl02247 414684009390 Protein of unknown function, DUF269; Region: DUF269; cl03973 414684009391 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 414684009392 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 414684009393 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 414684009394 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 414684009395 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 414684009396 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 414684009397 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 414684009398 MoFe protein beta/alpha subunit interactions; other site 414684009399 Beta subunit P cluster binding residues; other site 414684009400 MoFe protein beta subunit/Fe protein contacts; other site 414684009401 MoFe protein dimer/ dimer interactions; other site 414684009402 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 414684009403 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 414684009404 MoFe protein alpha/beta subunit interactions; other site 414684009405 Alpha subunit P cluster binding residues; other site 414684009406 FeMoco binding residues [chemical binding]; other site 414684009407 MoFe protein alpha subunit/Fe protein contacts; other site 414684009408 MoFe protein dimer/ dimer interactions; other site 414684009409 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 414684009410 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 414684009411 Nucleotide-binding sites [chemical binding]; other site 414684009412 Walker A motif; other site 414684009413 Switch I region of nucleotide binding site; other site 414684009414 Fe4S4 binding sites [ion binding]; other site 414684009415 Switch II region of nucleotide binding site; other site 414684009416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684009417 TOBE domain; Region: TOBE_2; cl01440 414684009418 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 414684009419 NifT/FixU protein; Region: NifT; cl02351 414684009420 NifZ domain; Region: NifZ; pfam04319 414684009421 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 414684009422 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 414684009423 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 414684009424 FeS/SAM binding site; other site 414684009425 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 414684009426 Nif-specific regulatory protein; Region: nifA; TIGR01817 414684009427 GAF domain; Region: GAF; cl15785 414684009428 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 414684009429 Walker A motif; other site 414684009430 ATP binding site [chemical binding]; other site 414684009431 Walker B motif; other site 414684009432 arginine finger; other site 414684009433 Helix-turn-helix domains; Region: HTH; cl00088 414684009434 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 414684009435 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 414684009436 active site 414684009437 catalytic residues [active] 414684009438 metal binding site [ion binding]; metal-binding site 414684009439 Nitrogen fixation protein NifW; Region: NifW; cl03935 414684009440 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 414684009441 Ligand binding site [chemical binding]; other site 414684009442 Electron transfer flavoprotein domain; Region: ETF; pfam01012 414684009443 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 414684009444 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 414684009445 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 414684009446 oxidoreductase; Provisional; Region: PRK10015 414684009447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009448 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 414684009449 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 414684009450 ArsC family; Region: ArsC; pfam03960 414684009451 catalytic residues [active] 414684009452 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 414684009453 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 414684009454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684009455 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 414684009456 DNA binding residues [nucleotide binding] 414684009457 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 414684009458 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 414684009459 Protein of unknown function (DUF917); Region: DUF917; pfam06032 414684009460 Uncharacterized conserved protein [Function unknown]; Region: COG3535 414684009461 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684009462 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 414684009463 N-terminal plug; other site 414684009464 ligand-binding site [chemical binding]; other site 414684009465 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 414684009466 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 414684009467 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 414684009468 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 414684009469 Cupin domain; Region: Cupin_2; cl09118 414684009470 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 414684009471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009472 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 414684009473 active site 414684009474 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 414684009475 putative FMN binding site [chemical binding]; other site 414684009476 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 414684009477 oligomeric interface; other site 414684009478 putative active site [active] 414684009479 homodimer interface [polypeptide binding]; other site 414684009480 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 414684009481 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 414684009482 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 414684009483 active site 414684009484 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684009485 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 414684009486 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 414684009487 PAS domain; Region: PAS_9; pfam13426 414684009488 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 414684009489 putative active site [active] 414684009490 heme pocket [chemical binding]; other site 414684009491 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684009492 dimer interface [polypeptide binding]; other site 414684009493 phosphorylation site [posttranslational modification] 414684009494 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009495 ATP binding site [chemical binding]; other site 414684009496 Mg2+ binding site [ion binding]; other site 414684009497 G-X-G motif; other site 414684009498 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 414684009499 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 414684009500 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 414684009501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684009502 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 414684009503 Walker A/P-loop; other site 414684009504 ATP binding site [chemical binding]; other site 414684009505 Q-loop/lid; other site 414684009506 ABC transporter signature motif; other site 414684009507 Walker B; other site 414684009508 D-loop; other site 414684009509 H-loop/switch region; other site 414684009510 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684009511 Walker A/P-loop; other site 414684009512 ATP binding site [chemical binding]; other site 414684009513 Q-loop/lid; other site 414684009514 ABC transporter signature motif; other site 414684009515 Walker B; other site 414684009516 D-loop; other site 414684009517 H-loop/switch region; other site 414684009518 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684009519 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684009520 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 414684009521 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 414684009522 non-specific DNA binding site [nucleotide binding]; other site 414684009523 salt bridge; other site 414684009524 sequence-specific DNA binding site [nucleotide binding]; other site 414684009525 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 414684009526 dimer interface [polypeptide binding]; other site 414684009527 conserved gate region; other site 414684009528 putative PBP binding loops; other site 414684009529 ABC-ATPase subunit interface; other site 414684009530 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 414684009531 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 414684009532 dimer interface [polypeptide binding]; other site 414684009533 conserved gate region; other site 414684009534 putative PBP binding loops; other site 414684009535 ABC-ATPase subunit interface; other site 414684009536 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 414684009537 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 414684009538 Walker A/P-loop; other site 414684009539 ATP binding site [chemical binding]; other site 414684009540 Q-loop/lid; other site 414684009541 ABC transporter signature motif; other site 414684009542 Walker B; other site 414684009543 D-loop; other site 414684009544 H-loop/switch region; other site 414684009545 TOBE domain; Region: TOBE_2; cl01440 414684009546 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 414684009547 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 414684009548 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 414684009549 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 414684009550 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 414684009551 homodimer interaction site [polypeptide binding]; other site 414684009552 cofactor binding site; other site 414684009553 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 414684009554 N-terminal plug; other site 414684009555 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 414684009556 ligand-binding site [chemical binding]; other site 414684009557 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 414684009558 putative metal binding site [ion binding]; other site 414684009559 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 414684009560 ABC-ATPase subunit interface; other site 414684009561 dimer interface [polypeptide binding]; other site 414684009562 putative PBP binding regions; other site 414684009563 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 414684009564 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 414684009565 Walker A/P-loop; other site 414684009566 ATP binding site [chemical binding]; other site 414684009567 Q-loop/lid; other site 414684009568 ABC transporter signature motif; other site 414684009569 Walker B; other site 414684009570 D-loop; other site 414684009571 H-loop/switch region; other site 414684009572 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 414684009573 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 414684009574 P-loop; other site 414684009575 Magnesium ion binding site [ion binding]; other site 414684009576 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 414684009577 Magnesium ion binding site [ion binding]; other site 414684009578 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 414684009579 ParB-like nuclease domain; Region: ParBc; cl02129 414684009580 Predicted membrane protein [Function unknown]; Region: COG2364 414684009581 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 414684009582 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 414684009583 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684009584 dimer interface [polypeptide binding]; other site 414684009585 phosphorylation site [posttranslational modification] 414684009586 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009587 ATP binding site [chemical binding]; other site 414684009588 Mg2+ binding site [ion binding]; other site 414684009589 G-X-G motif; other site 414684009590 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684009591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684009592 active site 414684009593 phosphorylation site [posttranslational modification] 414684009594 intermolecular recognition site; other site 414684009595 dimerization interface [polypeptide binding]; other site 414684009596 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 414684009597 DNA binding site [nucleotide binding] 414684009598 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 414684009599 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 414684009600 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 414684009601 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 414684009602 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 414684009603 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 414684009604 putative ADP-binding pocket [chemical binding]; other site 414684009605 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 414684009606 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 414684009607 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 414684009608 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 414684009609 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 414684009610 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684009611 Flagellar protein FlbT; Region: FlbT; cl11455 414684009612 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 414684009613 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 414684009614 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684009615 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 414684009616 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 414684009617 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684009618 flagellin; Reviewed; Region: PRK12687 414684009619 Flagellar protein FlaF; Region: FlaF; cl11454 414684009620 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 414684009621 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 414684009622 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 414684009623 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 414684009624 NAD(P) binding site [chemical binding]; other site 414684009625 catalytic residues [active] 414684009626 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 414684009627 ligand binding site; other site 414684009628 tetramer interface; other site 414684009629 transketolase; Reviewed; Region: PRK05899 414684009630 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 414684009631 TPP-binding site [chemical binding]; other site 414684009632 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 414684009633 PYR/PP interface [polypeptide binding]; other site 414684009634 dimer interface [polypeptide binding]; other site 414684009635 TPP binding site [chemical binding]; other site 414684009636 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684009637 short chain dehydrogenase; Provisional; Region: PRK06841 414684009638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009639 NAD(P) binding site [chemical binding]; other site 414684009640 active site 414684009641 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 414684009642 NeuB family; Region: NeuB; cl00496 414684009643 SAF domain; Region: SAF; cl00555 414684009644 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 414684009645 active site 414684009646 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 414684009647 extended (e) SDRs; Region: SDR_e; cd08946 414684009648 NAD(P) binding site [chemical binding]; other site 414684009649 active site 414684009650 substrate binding site [chemical binding]; other site 414684009651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009654 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684009655 Cupin domain; Region: Cupin_2; cl09118 414684009656 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 414684009657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009658 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684009659 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 414684009660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009661 NAD(P) binding site [chemical binding]; other site 414684009662 active site 414684009663 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 414684009664 substrate binding site; other site 414684009665 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 414684009666 active site 414684009667 dimer interface [polypeptide binding]; other site 414684009668 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 414684009669 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 414684009670 Ligand Binding Site [chemical binding]; other site 414684009671 Molecular Tunnel; other site 414684009672 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 414684009673 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 414684009674 cyclase homology domain; Region: CHD; cd07302 414684009675 nucleotidyl binding site; other site 414684009676 metal binding site [ion binding]; metal-binding site 414684009677 dimer interface [polypeptide binding]; other site 414684009678 Predicted ATPase [General function prediction only]; Region: COG3899 414684009679 Ribbon-helix-helix domain; Region: RHH_4; cl01775 414684009680 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 414684009681 YcaO-like family; Region: YcaO; pfam02624 414684009682 Uncharacterized conserved protein [Function unknown]; Region: COG3482 414684009683 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684009684 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 414684009685 ligand binding site [chemical binding]; other site 414684009686 flexible hinge region; other site 414684009687 Helix-turn-helix domains; Region: HTH; cl00088 414684009688 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 414684009689 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 414684009690 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684009691 Walker A/P-loop; other site 414684009692 ATP binding site [chemical binding]; other site 414684009693 Q-loop/lid; other site 414684009694 ABC transporter signature motif; other site 414684009695 Walker B; other site 414684009696 D-loop; other site 414684009697 H-loop/switch region; other site 414684009698 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684009699 KpsF/GutQ family protein; Region: kpsF; TIGR00393 414684009700 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 414684009701 putative active site [active] 414684009702 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 414684009703 Transmembrane secretion effector; Region: MFS_3; pfam05977 414684009704 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 414684009705 putative substrate translocation pore; other site 414684009706 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 414684009707 Replication initiator protein A; Region: RPA; cl02339 414684009708 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684009709 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 414684009710 NAD binding site [chemical binding]; other site 414684009711 putative substrate binding site 2 [chemical binding]; other site 414684009712 putative substrate binding site 1 [chemical binding]; other site 414684009713 active site 414684009714 PAS fold; Region: PAS_2; pfam08446 414684009715 GAF domain; Region: GAF; cl15785 414684009716 Phytochrome region; Region: PHY; pfam00360 414684009717 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 414684009718 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684009719 dimer interface [polypeptide binding]; other site 414684009720 phosphorylation site [posttranslational modification] 414684009721 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009722 ATP binding site [chemical binding]; other site 414684009723 Mg2+ binding site [ion binding]; other site 414684009724 G-X-G motif; other site 414684009725 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 414684009726 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 414684009727 tetramer interface [polypeptide binding]; other site 414684009728 active site 414684009729 Mg2+/Mn2+ binding site [ion binding]; other site 414684009730 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 414684009731 Citrate synthase; Region: Citrate_synt; pfam00285 414684009732 oxalacetate binding site [chemical binding]; other site 414684009733 citrylCoA binding site [chemical binding]; other site 414684009734 coenzyme A binding site [chemical binding]; other site 414684009735 catalytic triad [active] 414684009736 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 414684009737 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 414684009738 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 414684009739 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 414684009740 Domain of unknown function (DUF955); Region: DUF955; cl01076 414684009741 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 414684009742 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684009743 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684009744 Secretin and TonB N terminus short domain; Region: STN; cl06624 414684009745 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 414684009746 N-terminal plug; other site 414684009747 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 414684009748 ligand-binding site [chemical binding]; other site 414684009749 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684009750 FecR protein; Region: FecR; pfam04773 414684009751 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 414684009752 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684009753 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 414684009754 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 414684009755 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684009756 Beta-Casp domain; Region: Beta-Casp; cl12567 414684009757 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 414684009758 RES domain; Region: RES; cl02411 414684009759 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 414684009760 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 414684009761 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 414684009762 active site 414684009763 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684009764 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 414684009765 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 414684009766 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 414684009767 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 414684009768 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 414684009769 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 414684009770 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 414684009771 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 414684009772 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 414684009773 VCBS repeat; Region: VCBS_repeat; TIGR01965 414684009774 Cadherin repeat-like domain; Region: CA_like; cl15786 414684009775 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684009776 Ca2+ binding site [ion binding]; other site 414684009777 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684009778 Cadherin repeat-like domain; Region: CA_like; cl15786 414684009779 Ca2+ binding site [ion binding]; other site 414684009780 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684009781 Cadherin repeat-like domain; Region: CA_like; cl15786 414684009782 Ca2+ binding site [ion binding]; other site 414684009783 Cadherin repeat-like domain; Region: CA_like; cl15786 414684009784 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684009785 Ca2+ binding site [ion binding]; other site 414684009786 Cadherin repeat-like domain; Region: CA_like; cl15786 414684009787 Ca2+ binding site [ion binding]; other site 414684009788 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684009789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 414684009790 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 414684009791 heme-binding site [chemical binding]; other site 414684009792 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684009793 dimer interface [polypeptide binding]; other site 414684009794 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684009795 putative CheW interface [polypeptide binding]; other site 414684009796 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 414684009797 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 414684009798 Domain of unknown function DUF87; Region: DUF87; pfam01935 414684009799 HerA helicase [Replication, recombination, and repair]; Region: COG0433 414684009800 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_cladeB; cd00884 414684009801 active site clefts [active] 414684009802 zinc binding site [ion binding]; other site 414684009803 dimer interface [polypeptide binding]; other site 414684009804 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 414684009805 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 414684009806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684009807 dimer interface [polypeptide binding]; other site 414684009808 putative CheW interface [polypeptide binding]; other site 414684009809 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684009810 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 414684009811 Gram-negative bacterial tonB protein; Region: TonB; cl10048 414684009812 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684009813 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 414684009814 Walker A/P-loop; other site 414684009815 ATP binding site [chemical binding]; other site 414684009816 Q-loop/lid; other site 414684009817 ABC transporter signature motif; other site 414684009818 Walker B; other site 414684009819 D-loop; other site 414684009820 H-loop/switch region; other site 414684009821 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684009822 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 414684009823 Cation efflux family; Region: Cation_efflux; cl00316 414684009824 Cation efflux family; Region: Cation_efflux; cl00316 414684009825 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 414684009826 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 414684009827 FeS/SAM binding site; other site 414684009828 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 414684009829 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684009830 FecR protein; Region: FecR; pfam04773 414684009831 Domain of unknown function DUF87; Region: DUF87; pfam01935 414684009832 HerA helicase [Replication, recombination, and repair]; Region: COG0433 414684009833 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 414684009834 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 414684009835 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684009836 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 414684009837 DNA binding residues [nucleotide binding] 414684009838 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 414684009839 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 414684009840 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 414684009841 Sm1 motif; other site 414684009842 D1 - D2 interaction site; other site 414684009843 D3 - B interaction site; other site 414684009844 Hfq - Hfq interaction site; other site 414684009845 RNA binding pocket [nucleotide binding]; other site 414684009846 Sm2 motif; other site 414684009847 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 414684009848 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684009849 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 414684009850 ligand binding site [chemical binding]; other site 414684009851 flexible hinge region; other site 414684009852 Helix-turn-helix domains; Region: HTH; cl00088 414684009853 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 414684009854 active site residue [active] 414684009855 OsmC-like protein; Region: OsmC; cl00767 414684009856 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 414684009857 gating phenylalanine in ion channel; other site 414684009858 Creatinine amidohydrolase; Region: Creatininase; cl00618 414684009859 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 414684009860 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 414684009861 N-terminal plug; other site 414684009862 ligand-binding site [chemical binding]; other site 414684009863 Hemin uptake protein hemP; Region: hemP; cl10043 414684009864 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 414684009865 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 414684009866 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 414684009867 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 414684009868 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684009869 intersubunit interface [polypeptide binding]; other site 414684009870 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 414684009871 putative PBP binding regions; other site 414684009872 ABC-ATPase subunit interface; other site 414684009873 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 414684009874 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 414684009875 Walker A/P-loop; other site 414684009876 ATP binding site [chemical binding]; other site 414684009877 Q-loop/lid; other site 414684009878 ABC transporter signature motif; other site 414684009879 Walker B; other site 414684009880 D-loop; other site 414684009881 H-loop/switch region; other site 414684009882 Rrf2 family protein; Region: rrf2_super; TIGR00738 414684009883 Helix-turn-helix domains; Region: HTH; cl00088 414684009884 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 414684009885 PAS domain; Region: PAS_9; pfam13426 414684009886 putative active site [active] 414684009887 heme pocket [chemical binding]; other site 414684009888 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684009889 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684009890 dimer interface [polypeptide binding]; other site 414684009891 putative CheW interface [polypeptide binding]; other site 414684009892 PilZ domain; Region: PilZ; cl01260 414684009893 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 414684009894 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 414684009895 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 414684009896 dimer interface [polypeptide binding]; other site 414684009897 conserved gate region; other site 414684009898 putative PBP binding loops; other site 414684009899 ABC-ATPase subunit interface; other site 414684009900 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 414684009901 dimer interface [polypeptide binding]; other site 414684009902 conserved gate region; other site 414684009903 putative PBP binding loops; other site 414684009904 ABC-ATPase subunit interface; other site 414684009905 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 414684009906 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 414684009907 Walker A/P-loop; other site 414684009908 ATP binding site [chemical binding]; other site 414684009909 Q-loop/lid; other site 414684009910 ABC transporter signature motif; other site 414684009911 Walker B; other site 414684009912 D-loop; other site 414684009913 H-loop/switch region; other site 414684009914 TOBE-like domain; Region: TOBE_3; pfam12857 414684009915 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684009916 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 414684009917 N-terminal plug; other site 414684009918 ligand-binding site [chemical binding]; other site 414684009919 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 414684009920 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684009921 intersubunit interface [polypeptide binding]; other site 414684009922 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 414684009923 dimer interface [polypeptide binding]; other site 414684009924 putative PBP binding regions; other site 414684009925 ABC-ATPase subunit interface; other site 414684009926 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 414684009927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684009928 Walker A/P-loop; other site 414684009929 ATP binding site [chemical binding]; other site 414684009930 Q-loop/lid; other site 414684009931 ABC transporter signature motif; other site 414684009932 Walker B; other site 414684009933 D-loop; other site 414684009934 H-loop/switch region; other site 414684009935 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 414684009936 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 414684009937 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684009938 catalytic residue [active] 414684009939 PAS fold; Region: PAS_3; pfam08447 414684009940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684009941 metal binding site [ion binding]; metal-binding site 414684009942 active site 414684009943 I-site; other site 414684009944 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 414684009945 CheB methylesterase; Region: CheB_methylest; pfam01339 414684009946 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684009947 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 414684009948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009949 PAS domain; Region: PAS_10; pfam13596 414684009950 PAS fold; Region: PAS; pfam00989 414684009951 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 414684009952 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 414684009953 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 414684009954 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 414684009955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684009956 metal binding site [ion binding]; metal-binding site 414684009957 active site 414684009958 I-site; other site 414684009959 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684009960 Helix-turn-helix domains; Region: HTH; cl00088 414684009961 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684009962 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 414684009963 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 414684009964 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 414684009965 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 414684009966 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 414684009967 Trp docking motif [polypeptide binding]; other site 414684009968 putative active site [active] 414684009969 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 414684009970 PAS domain; Region: PAS_9; pfam13426 414684009971 putative active site [active] 414684009972 heme pocket [chemical binding]; other site 414684009973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684009974 dimer interface [polypeptide binding]; other site 414684009975 putative CheW interface [polypeptide binding]; other site 414684009976 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 414684009977 PAS domain; Region: PAS_9; pfam13426 414684009978 putative active site [active] 414684009979 heme pocket [chemical binding]; other site 414684009980 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 414684009981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684009982 dimer interface [polypeptide binding]; other site 414684009983 putative CheW interface [polypeptide binding]; other site 414684009984 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684009985 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 414684009986 N-terminal plug; other site 414684009987 ligand-binding site [chemical binding]; other site 414684009988 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684009989 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684009990 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 414684009991 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 414684009992 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 414684009993 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 414684009994 Protein export membrane protein; Region: SecD_SecF; cl14618 414684009995 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 414684009996 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 414684009997 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 414684009998 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 414684009999 Helix-turn-helix domains; Region: HTH; cl00088 414684010000 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 414684010001 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 414684010002 RNA polymerase sigma factor; Reviewed; Region: PRK05602 414684010003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684010004 conserved hypothetical protein, pseudogene;identified by match to protein family HMM PF01032 414684010005 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684010006 ApbE family; Region: ApbE; cl00643 414684010007 NosL; Region: NosL; cl01769 414684010008 ABC-2 type transporter; Region: ABC2_membrane; cl11417 414684010009 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684010010 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 414684010011 Walker A/P-loop; other site 414684010012 ATP binding site [chemical binding]; other site 414684010013 Q-loop/lid; other site 414684010014 ABC transporter signature motif; other site 414684010015 Walker B; other site 414684010016 D-loop; other site 414684010017 H-loop/switch region; other site 414684010018 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 414684010019 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 414684010020 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 414684010021 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 414684010022 nitrous-oxide reductase; Validated; Region: PRK02888 414684010023 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 414684010024 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 414684010025 FMN-binding domain; Region: FMN_bind; cl01081 414684010026 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 414684010027 4Fe-4S binding domain; Region: Fer4_5; pfam12801 414684010028 PAS domain S-box; Region: sensory_box; TIGR00229 414684010029 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 414684010030 putative active site [active] 414684010031 heme pocket [chemical binding]; other site 414684010032 PAS domain; Region: PAS_9; pfam13426 414684010033 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 414684010034 PAS fold; Region: PAS_3; pfam08447 414684010035 putative active site [active] 414684010036 heme pocket [chemical binding]; other site 414684010037 PAS fold; Region: PAS_4; pfam08448 414684010038 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 414684010039 putative active site [active] 414684010040 heme pocket [chemical binding]; other site 414684010041 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684010042 Histidine kinase; Region: HisKA_2; cl06527 414684010043 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684010044 VacJ like lipoprotein; Region: VacJ; cl01073 414684010045 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_3; cd06151 414684010046 homotrimer interaction site [polypeptide binding]; other site 414684010047 putative active site [active] 414684010048 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684010049 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 414684010050 N-terminal plug; other site 414684010051 ligand-binding site [chemical binding]; other site 414684010052 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 414684010053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010054 Cytochrome c; Region: Cytochrom_C; cl11414 414684010055 PAS domain S-box; Region: sensory_box; TIGR00229 414684010056 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 414684010057 putative active site [active] 414684010058 heme pocket [chemical binding]; other site 414684010059 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 414684010060 PAS domain; Region: PAS_9; pfam13426 414684010061 hypothetical protein; Provisional; Region: PRK13560 414684010062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684010063 metal binding site [ion binding]; metal-binding site 414684010064 active site 414684010065 I-site; other site 414684010066 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 414684010067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 414684010068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 414684010069 Family of unknown function (DUF490); Region: DUF490; pfam04357 414684010070 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 414684010071 Surface antigen; Region: Bac_surface_Ag; cl03097 414684010072 AMP nucleosidase; Provisional; Region: PRK08292 414684010073 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 414684010074 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 414684010075 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 414684010076 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 414684010077 pyridoxamine kinase; Validated; Region: PRK05756 414684010078 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 414684010079 dimer interface [polypeptide binding]; other site 414684010080 pyridoxal binding site [chemical binding]; other site 414684010081 ATP binding site [chemical binding]; other site 414684010082 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 414684010083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010084 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 414684010085 Protein of unknown function (DUF962); Region: DUF962; cl01879 414684010086 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684010087 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010088 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684010089 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010090 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010091 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010092 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010093 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 414684010094 N-terminal plug; other site 414684010095 ligand-binding site [chemical binding]; other site 414684010096 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 414684010097 Iron-sulfur protein interface; other site 414684010098 proximal quinone binding site [chemical binding]; other site 414684010099 SdhD (CybS) interface [polypeptide binding]; other site 414684010100 proximal heme binding site [chemical binding]; other site 414684010101 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 414684010102 putative proximal heme binding site [chemical binding]; other site 414684010103 putative Iron-sulfur protein interface [polypeptide binding]; other site 414684010104 putative proximal quinone binding site; other site 414684010105 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 414684010106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010107 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 414684010108 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 414684010109 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 414684010110 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 414684010111 short chain dehydrogenase; Provisional; Region: PRK06181 414684010112 NADP binding site [chemical binding]; other site 414684010113 homodimer interface [polypeptide binding]; other site 414684010114 substrate binding site [chemical binding]; other site 414684010115 active site 414684010116 Intracellular septation protein A; Region: IspA; cl01098 414684010117 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 414684010118 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 414684010119 G1 box; other site 414684010120 putative GEF interaction site [polypeptide binding]; other site 414684010121 GTP/Mg2+ binding site [chemical binding]; other site 414684010122 Switch I region; other site 414684010123 G2 box; other site 414684010124 G3 box; other site 414684010125 Switch II region; other site 414684010126 G4 box; other site 414684010127 G5 box; other site 414684010128 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 414684010129 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 414684010130 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684010131 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010132 ATP binding site [chemical binding]; other site 414684010133 Mg2+ binding site [ion binding]; other site 414684010134 G-X-G motif; other site 414684010135 putative acyltransferase; Provisional; Region: PRK05790 414684010136 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 414684010137 dimer interface [polypeptide binding]; other site 414684010138 active site 414684010139 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 414684010140 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 414684010141 NAD(P) binding site [chemical binding]; other site 414684010142 homotetramer interface [polypeptide binding]; other site 414684010143 homodimer interface [polypeptide binding]; other site 414684010144 active site 414684010145 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_15; cd04673 414684010146 nudix motif; other site 414684010147 EamA-like transporter family; Region: EamA; cl01037 414684010148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010149 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 414684010150 Radical SAM superfamily; Region: Radical_SAM; pfam04055 414684010151 FeS/SAM binding site; other site 414684010152 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 414684010153 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 414684010154 Fe-S cluster binding site [ion binding]; other site 414684010155 active site 414684010156 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 414684010157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010158 NAD(P) binding site [chemical binding]; other site 414684010159 active site 414684010160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 414684010161 NMT1-like family; Region: NMT1_2; cl15260 414684010162 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 414684010163 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 414684010164 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 414684010165 substrate binding site [chemical binding]; other site 414684010166 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 414684010167 tartrate dehydrogenase; Provisional; Region: PRK08194 414684010168 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684010169 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 414684010170 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 414684010171 catalytic core [active] 414684010172 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684010173 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 414684010174 substrate binding pocket [chemical binding]; other site 414684010175 membrane-bound complex binding site; other site 414684010176 hinge residues; other site 414684010177 Predicted ATPase [General function prediction only]; Region: COG1485 414684010178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684010179 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684010180 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 414684010181 ThiC-associated domain; Region: ThiC-associated; pfam13667 414684010182 ThiC family; Region: ThiC; cl08031 414684010183 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 414684010184 GMP synthase; Reviewed; Region: guaA; PRK00074 414684010185 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 414684010186 AMP/PPi binding site [chemical binding]; other site 414684010187 candidate oxyanion hole; other site 414684010188 catalytic triad [active] 414684010189 potential glutamine specificity residues [chemical binding]; other site 414684010190 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 414684010191 ATP Binding subdomain [chemical binding]; other site 414684010192 Ligand Binding sites [chemical binding]; other site 414684010193 Dimerization subdomain; other site 414684010194 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684010195 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 414684010196 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 414684010197 classical (c) SDRs; Region: SDR_c; cd05233 414684010198 NAD(P) binding site [chemical binding]; other site 414684010199 active site 414684010200 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 414684010201 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 414684010202 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 414684010203 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 414684010204 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684010205 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 414684010206 ligand binding site [chemical binding]; other site 414684010207 flexible hinge region; other site 414684010208 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 414684010209 putative switch regulator; other site 414684010210 non-specific DNA interactions [nucleotide binding]; other site 414684010211 DNA binding site [nucleotide binding] 414684010212 sequence specific DNA binding site [nucleotide binding]; other site 414684010213 putative cAMP binding site [chemical binding]; other site 414684010214 NnrS protein; Region: NnrS; cl01258 414684010215 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684010216 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684010217 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 414684010218 N-terminal plug; other site 414684010219 ligand-binding site [chemical binding]; other site 414684010220 Cytochrome c; Region: Cytochrom_C; cl11414 414684010221 Predicted dehydrogenase [General function prediction only]; Region: COG0579 414684010222 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 414684010223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010224 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684010225 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 414684010226 classical (c) SDRs; Region: SDR_c; cd05233 414684010227 NAD(P) binding site [chemical binding]; other site 414684010228 active site 414684010229 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684010230 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 414684010231 metal binding site [ion binding]; metal-binding site 414684010232 Cupin domain; Region: Cupin_2; cl09118 414684010233 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 414684010234 substrate binding site; other site 414684010235 MatE; Region: MatE; cl10513 414684010236 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684010237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010238 NAD(P) binding site [chemical binding]; other site 414684010239 active site 414684010240 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 414684010241 extended (e) SDRs; Region: SDR_e; cd08946 414684010242 NAD(P) binding site [chemical binding]; other site 414684010243 active site 414684010244 substrate binding site [chemical binding]; other site 414684010245 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684010246 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 414684010247 active site 414684010248 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 414684010249 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 414684010250 substrate binding site; other site 414684010251 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 414684010252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010253 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684010254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010255 Putative peptidase family; Region: Metallopep; pfam12044 414684010256 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 414684010257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010258 ATP binding site [chemical binding]; other site 414684010259 Mg2+ binding site [ion binding]; other site 414684010260 G-X-G motif; other site 414684010261 colanic acid exporter; Provisional; Region: PRK10459 414684010262 colanic acid exporter; Provisional; Region: PRK10459 414684010263 MatE; Region: MatE; cl10513 414684010264 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 414684010265 active site 414684010266 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 414684010267 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 414684010268 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684010269 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010270 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684010271 Ca2+ binding site [ion binding]; other site 414684010272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010273 Bacterial sugar transferase; Region: Bac_transf; cl00939 414684010274 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 414684010275 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 414684010276 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 414684010277 SLBB domain; Region: SLBB; pfam10531 414684010278 Chain length determinant protein; Region: Wzz; cl15801 414684010279 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 414684010280 Chain length determinant protein; Region: Wzz; cl15801 414684010281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684010282 putative glycosyl transferase; Provisional; Region: PRK10307 414684010283 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 414684010284 Methyltransferase domain; Region: Methyltransf_31; pfam13847 414684010285 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 414684010286 S-adenosylmethionine binding site [chemical binding]; other site 414684010287 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 414684010288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684010289 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 414684010290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010291 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 414684010292 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684010293 putative metal binding site; other site 414684010294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010295 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684010296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010297 NAD(P) binding site [chemical binding]; other site 414684010298 active site 414684010299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010300 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 414684010301 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 414684010302 active site 414684010303 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 414684010304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010305 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 414684010306 S-adenosylmethionine binding site [chemical binding]; other site 414684010307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684010308 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 414684010309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684010310 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 414684010311 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 414684010312 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 414684010313 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 414684010314 active site 414684010315 dimer interface [polypeptide binding]; other site 414684010316 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 414684010317 Ligand Binding Site [chemical binding]; other site 414684010318 Molecular Tunnel; other site 414684010319 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 414684010320 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684010321 NAD binding site [chemical binding]; other site 414684010322 putative substrate binding site 2 [chemical binding]; other site 414684010323 putative substrate binding site 1 [chemical binding]; other site 414684010324 active site 414684010325 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 414684010326 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 414684010327 NADP-binding site; other site 414684010328 homotetramer interface [polypeptide binding]; other site 414684010329 substrate binding site [chemical binding]; other site 414684010330 homodimer interface [polypeptide binding]; other site 414684010331 active site 414684010332 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 414684010333 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 414684010334 NADP binding site [chemical binding]; other site 414684010335 active site 414684010336 putative substrate binding site [chemical binding]; other site 414684010337 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 414684010338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010339 NAD(P) binding site [chemical binding]; other site 414684010340 active site 414684010341 Cupin domain; Region: Cupin_2; cl09118 414684010342 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 414684010343 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 414684010344 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 414684010345 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 414684010346 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 414684010347 ABC transporter ATP-binding protein CydD, pseudogene;identified by match to protein family HMM PF02706 414684010348 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 414684010349 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684010350 Walker A/P-loop; other site 414684010351 ATP binding site [chemical binding]; other site 414684010352 Q-loop/lid; other site 414684010353 ABC transporter signature motif; other site 414684010354 Walker B; other site 414684010355 D-loop; other site 414684010356 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684010357 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 414684010358 N-terminal plug; other site 414684010359 ligand-binding site [chemical binding]; other site 414684010360 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684010361 putative active site [active] 414684010362 putative metal binding site [ion binding]; other site 414684010363 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684010364 Transcriptional regulators [Transcription]; Region: MarR; COG1846 414684010365 Helix-turn-helix domains; Region: HTH; cl00088 414684010366 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 414684010367 catalytic residues [active] 414684010368 dimer interface [polypeptide binding]; other site 414684010369 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 414684010370 CoenzymeA binding site [chemical binding]; other site 414684010371 subunit interaction site [polypeptide binding]; other site 414684010372 PHB binding site; other site 414684010373 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 414684010374 Helix-turn-helix domains; Region: HTH; cl00088 414684010375 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 414684010376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 414684010377 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 414684010378 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 414684010379 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 414684010380 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 414684010381 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 414684010382 putative substrate translocation pore; other site 414684010383 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 414684010384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 414684010385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010386 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 414684010387 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 414684010388 substrate binding pocket [chemical binding]; other site 414684010389 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 414684010390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684010391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010392 active site 414684010393 phosphorylation site [posttranslational modification] 414684010394 intermolecular recognition site; other site 414684010395 dimerization interface [polypeptide binding]; other site 414684010396 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 414684010397 DNA binding site [nucleotide binding] 414684010398 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 414684010399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010400 active site 414684010401 phosphorylation site [posttranslational modification] 414684010402 intermolecular recognition site; other site 414684010403 dimerization interface [polypeptide binding]; other site 414684010404 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 414684010405 Zn2+ binding site [ion binding]; other site 414684010406 Mg2+ binding site [ion binding]; other site 414684010407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010408 Response regulator receiver domain; Region: Response_reg; pfam00072 414684010409 active site 414684010410 phosphorylation site [posttranslational modification] 414684010411 intermolecular recognition site; other site 414684010412 dimerization interface [polypeptide binding]; other site 414684010413 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 414684010414 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 414684010415 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 414684010416 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684010417 dimer interface [polypeptide binding]; other site 414684010418 phosphorylation site [posttranslational modification] 414684010419 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010420 ATP binding site [chemical binding]; other site 414684010421 Mg2+ binding site [ion binding]; other site 414684010422 G-X-G motif; other site 414684010423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010424 Response regulator receiver domain; Region: Response_reg; pfam00072 414684010425 active site 414684010426 phosphorylation site [posttranslational modification] 414684010427 intermolecular recognition site; other site 414684010428 dimerization interface [polypeptide binding]; other site 414684010429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010430 Response regulator receiver domain; Region: Response_reg; pfam00072 414684010431 active site 414684010432 phosphorylation site [posttranslational modification] 414684010433 intermolecular recognition site; other site 414684010434 dimerization interface [polypeptide binding]; other site 414684010435 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684010436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010437 dimer interface [polypeptide binding]; other site 414684010438 putative CheW interface [polypeptide binding]; other site 414684010439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684010440 Helix-turn-helix domains; Region: HTH; cl00088 414684010441 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 414684010442 putative dimerization interface [polypeptide binding]; other site 414684010443 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 414684010444 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 414684010445 homodimer interface [polypeptide binding]; other site 414684010446 active site 414684010447 heterodimer interface [polypeptide binding]; other site 414684010448 catalytic residue [active] 414684010449 metal binding site [ion binding]; metal-binding site 414684010450 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 414684010451 multimerization interface [polypeptide binding]; other site 414684010452 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 414684010453 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 414684010454 substrate binding site [chemical binding]; other site 414684010455 hexamer interface [polypeptide binding]; other site 414684010456 metal binding site [ion binding]; metal-binding site 414684010457 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 414684010458 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 414684010459 Walker A motif; other site 414684010460 ATP binding site [chemical binding]; other site 414684010461 Walker B motif; other site 414684010462 arginine finger; other site 414684010463 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 414684010464 AMP binding site [chemical binding]; other site 414684010465 metal binding site [ion binding]; metal-binding site 414684010466 active site 414684010467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 414684010468 transketolase; Reviewed; Region: PRK12753 414684010469 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 414684010470 TPP-binding site [chemical binding]; other site 414684010471 dimer interface [polypeptide binding]; other site 414684010472 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 414684010473 PYR/PP interface [polypeptide binding]; other site 414684010474 dimer interface [polypeptide binding]; other site 414684010475 TPP binding site [chemical binding]; other site 414684010476 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684010477 hypothetical protein; Provisional; Region: PRK08185 414684010478 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 414684010479 intersubunit interface [polypeptide binding]; other site 414684010480 active site 414684010481 zinc binding site [ion binding]; other site 414684010482 Na+ binding site [ion binding]; other site 414684010483 phosphoglycolate phosphatase; Provisional; Region: PRK13222 414684010484 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 414684010485 active site 414684010486 motif I; other site 414684010487 motif II; other site 414684010488 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 414684010489 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 414684010490 motif II; other site 414684010491 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 414684010492 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 414684010493 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 414684010494 ATP-grasp domain; Region: ATP-grasp_4; cl03087 414684010495 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 414684010496 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 414684010497 NADP binding site [chemical binding]; other site 414684010498 active site 414684010499 putative substrate binding site [chemical binding]; other site 414684010500 Cupin domain; Region: Cupin_2; cl09118 414684010501 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684010502 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 414684010503 Probable Catalytic site; other site 414684010504 metal-binding site 414684010505 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 414684010506 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 414684010507 substrate binding pocket [chemical binding]; other site 414684010508 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684010509 membrane-bound complex binding site; other site 414684010510 hinge residues; other site 414684010511 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 414684010512 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; cl15306 414684010513 substrate binding pocket [chemical binding]; other site 414684010514 membrane-bound complex binding site; other site 414684010515 hinge residues; other site 414684010516 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 414684010517 malate dehydrogenase; Reviewed; Region: PRK06223 414684010518 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 414684010519 NAD(P) binding site [chemical binding]; other site 414684010520 dimer interface [polypeptide binding]; other site 414684010521 tetramer (dimer of dimers) interface [polypeptide binding]; other site 414684010522 substrate binding site [chemical binding]; other site 414684010523 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 414684010524 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 414684010525 S-adenosylmethionine binding site [chemical binding]; other site 414684010526 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 414684010527 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 414684010528 hypothetical protein; Provisional; Region: PRK06034 414684010529 Chorismate mutase type II; Region: CM_2; cl00693 414684010530 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 414684010531 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 414684010532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684010533 homodimer interface [polypeptide binding]; other site 414684010534 catalytic residue [active] 414684010535 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 414684010536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010537 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 414684010538 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 414684010539 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 414684010540 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 414684010541 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684010542 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684010543 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684010544 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; cd06661 414684010545 putative active site pocket [active] 414684010546 dimerization interface [polypeptide binding]; other site 414684010547 putative catalytic residue [active] 414684010548 CHASE3 domain; Region: CHASE3; cl05000 414684010549 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 414684010550 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684010551 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010552 dimer interface [polypeptide binding]; other site 414684010553 putative CheW interface [polypeptide binding]; other site 414684010554 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 414684010555 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684010556 replicative DNA helicase; Validated; Region: PRK07773 414684010557 DNA endonuclease related to intein-encoded endonucleases [DNA replication, recombination, and repair]; Region: COG3780 414684010558 replicative DNA helicase; Validated; Region: PRK07773 414684010559 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684010560 TSCPD domain; Region: TSCPD; cl14834 414684010561 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 414684010562 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 414684010563 putative acyl-acceptor binding pocket; other site 414684010564 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 414684010565 putative active site [active] 414684010566 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 414684010567 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 414684010568 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 414684010569 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 414684010570 diaminopimelate decarboxylase; Region: lysA; TIGR01048 414684010571 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 414684010572 active site 414684010573 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684010574 substrate binding site [chemical binding]; other site 414684010575 catalytic residues [active] 414684010576 dimer interface [polypeptide binding]; other site 414684010577 argininosuccinate lyase; Provisional; Region: PRK00855 414684010578 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 414684010579 active sites [active] 414684010580 tetramer interface [polypeptide binding]; other site 414684010581 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 414684010582 catalytic residues [active] 414684010583 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 414684010584 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 414684010585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010586 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684010587 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 414684010588 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 414684010589 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 414684010590 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 414684010591 Ligand binding site [chemical binding]; other site 414684010592 Electron transfer flavoprotein domain; Region: ETF; pfam01012 414684010593 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 414684010594 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 414684010595 nudix motif; other site 414684010596 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684010597 active site 414684010598 HIGH motif; other site 414684010599 nucleotide binding site [chemical binding]; other site 414684010600 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684010601 active site 414684010602 KMSKS motif; other site 414684010603 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 414684010604 active site 414684010605 YceI-like domain; Region: YceI; cl01001 414684010606 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 414684010607 diiron binding motif [ion binding]; other site 414684010608 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 414684010609 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 414684010610 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 414684010611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684010612 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 414684010613 FecR protein; Region: FecR; pfam04773 414684010614 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684010615 Secretin and TonB N terminus short domain; Region: STN; cl06624 414684010616 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 414684010617 TonB-dependent siderophore receptor, pseudogene;identified by match to protein family HMM PF01553 414684010618 TonB dependent receptor, pseudogene