-- dump date 20140620_032936 -- class Genbank::misc_feature -- table misc_feature_note -- id note 414684000001 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684000002 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 414684000003 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 414684000004 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684000005 active site 414684000006 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 414684000007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684000008 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 414684000009 putative dimerization interface [polypeptide binding]; other site 414684000010 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 414684000011 gating phenylalanine in ion channel; other site 414684000012 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 414684000013 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 414684000014 DNA binding residues [nucleotide binding] 414684000015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 414684000016 Predicted membrane protein [Function unknown]; Region: COG4325 414684000017 Predicted membrane protein [Function unknown]; Region: COG2323 414684000018 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 414684000019 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 414684000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 414684000029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684000030 Coenzyme A binding pocket [chemical binding]; other site 414684000031 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000032 putative active site [active] 414684000033 putative metal binding site [ion binding]; other site 414684000034 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000035 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000036 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 414684000037 N-terminal plug; other site 414684000038 ligand-binding site [chemical binding]; other site 414684000039 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 414684000040 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 414684000041 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 414684000042 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 414684000043 GatB domain; Region: GatB_Yqey; smart00845 414684000044 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 414684000045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 414684000046 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 414684000047 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 414684000048 catalytic residues [active] 414684000049 catalytic nucleophile [active] 414684000050 Recombinase; Region: Recombinase; pfam07508 414684000051 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 414684000052 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684000053 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 414684000054 non-specific DNA binding site [nucleotide binding]; other site 414684000055 salt bridge; other site 414684000056 sequence-specific DNA binding site [nucleotide binding]; other site 414684000057 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 414684000058 Domain of unknown function (DUF955); Region: DUF955; pfam06114 414684000059 Helix-turn-helix domain; Region: HTH_17; pfam12728 414684000060 AAA domain; Region: AAA_24; pfam13479 414684000061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684000062 Walker A/P-loop; other site 414684000063 ATP binding site [chemical binding]; other site 414684000064 Q-loop/lid; other site 414684000065 ABC transporter signature motif; other site 414684000066 D-loop; other site 414684000067 AAA domain; Region: AAA_30; pfam13604 414684000068 Family description; Region: UvrD_C_2; pfam13538 414684000069 Toprim domain; Region: Toprim_3; pfam13362 414684000070 Virulence-associated protein E; Region: VirE; pfam05272 414684000071 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 414684000072 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 414684000073 ParB-like nuclease domain; Region: ParB; smart00470 414684000074 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 414684000075 DNA methylase; Region: N6_N4_Mtase; pfam01555 414684000076 ParB-like nuclease domain; Region: ParBc; pfam02195 414684000077 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 414684000078 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 414684000079 DNA methylase; Region: N6_N4_Mtase; pfam01555 414684000080 site-specific DNA methylase, pseudogene;Disrupted reading frame; identified by match to protein family HMM PF00145 414684000081 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 414684000082 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 414684000083 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 414684000084 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 414684000085 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 414684000086 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 414684000087 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 414684000088 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 414684000089 amidase catalytic site [active] 414684000090 Zn binding residues [ion binding]; other site 414684000091 substrate binding site [chemical binding]; other site 414684000092 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 414684000093 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 414684000094 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 414684000095 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 414684000096 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 414684000097 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 414684000098 Putative phage tail protein; Region: Phage-tail_3; pfam13550 414684000099 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 414684000100 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 414684000101 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 414684000102 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 414684000103 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 414684000104 Virulence protein [General function prediction only]; Region: COG3943 414684000105 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 414684000106 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 414684000107 DNA methylase; Region: N6_N4_Mtase; pfam01555 414684000108 DNA methylase; Region: N6_N4_Mtase; pfam01555 414684000109 AIPR protein; Region: AIPR; pfam10592 414684000110 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 414684000111 ATP binding site [chemical binding]; other site 414684000112 putative Mg++ binding site [ion binding]; other site 414684000113 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 414684000114 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 414684000115 nucleotide binding region [chemical binding]; other site 414684000116 ATP-binding site [chemical binding]; other site 414684000117 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 414684000118 putative active site [active] 414684000119 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 414684000120 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 414684000121 dimer interface [polypeptide binding]; other site 414684000122 putative functional site; other site 414684000123 putative MPT binding site; other site 414684000124 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 414684000125 trimer interface [polypeptide binding]; other site 414684000126 dimer interface [polypeptide binding]; other site 414684000127 putative active site [active] 414684000128 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 414684000129 active site 414684000130 ribulose/triose binding site [chemical binding]; other site 414684000131 phosphate binding site [ion binding]; other site 414684000132 substrate (anthranilate) binding pocket [chemical binding]; other site 414684000133 product (indole) binding pocket [chemical binding]; other site 414684000134 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 414684000135 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 414684000136 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 414684000137 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 414684000138 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 414684000139 glutamine binding [chemical binding]; other site 414684000140 catalytic triad [active] 414684000141 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 414684000142 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 414684000143 DNA binding residues [nucleotide binding] 414684000144 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 414684000145 NodB motif; other site 414684000146 putative active site [active] 414684000147 putative catalytic site [active] 414684000148 Zn binding site [ion binding]; other site 414684000149 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 414684000150 metal-binding site [ion binding] 414684000151 anthranilate synthase component I; Provisional; Region: PRK13573 414684000152 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 414684000153 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 414684000154 SurA N-terminal domain; Region: SurA_N_3; cl07813 414684000155 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 414684000156 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 414684000157 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 414684000158 triosephosphate isomerase; Provisional; Region: PRK14565 414684000159 substrate binding site [chemical binding]; other site 414684000160 dimer interface [polypeptide binding]; other site 414684000161 catalytic triad [active] 414684000162 Preprotein translocase SecG subunit; Region: SecG; pfam03840 414684000163 CTP synthetase; Validated; Region: pyrG; PRK05380 414684000164 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 414684000165 Catalytic site [active] 414684000166 active site 414684000167 UTP binding site [chemical binding]; other site 414684000168 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 414684000169 active site 414684000170 putative oxyanion hole; other site 414684000171 catalytic triad [active] 414684000172 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 414684000173 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 414684000174 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 414684000175 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 414684000176 putative acyl-acceptor binding pocket; other site 414684000177 enolase; Provisional; Region: eno; PRK00077 414684000178 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 414684000179 dimer interface [polypeptide binding]; other site 414684000180 metal binding site [ion binding]; metal-binding site 414684000181 substrate binding pocket [chemical binding]; other site 414684000182 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 414684000183 Septum formation initiator; Region: DivIC; pfam04977 414684000184 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 414684000185 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 414684000186 tetramer interface [polypeptide binding]; other site 414684000187 TPP-binding site [chemical binding]; other site 414684000188 heterodimer interface [polypeptide binding]; other site 414684000189 phosphorylation loop region [posttranslational modification] 414684000190 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 414684000191 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 414684000192 E3 interaction surface; other site 414684000193 lipoyl attachment site [posttranslational modification]; other site 414684000194 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 414684000195 alpha subunit interface [polypeptide binding]; other site 414684000196 TPP binding site [chemical binding]; other site 414684000197 heterodimer interface [polypeptide binding]; other site 414684000198 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684000199 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 414684000200 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 414684000201 E3 interaction surface; other site 414684000202 lipoyl attachment site [posttranslational modification]; other site 414684000203 e3 binding domain; Region: E3_binding; pfam02817 414684000204 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 414684000205 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 414684000206 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684000207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684000208 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684000209 lipoyl synthase; Provisional; Region: PRK05481 414684000210 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 414684000211 putative coenzyme Q binding site [chemical binding]; other site 414684000212 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 414684000213 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 414684000214 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 414684000215 substrate binding site; other site 414684000216 dimer interface; other site 414684000217 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 414684000218 homotrimer interaction site [polypeptide binding]; other site 414684000219 zinc binding site [ion binding]; other site 414684000220 CDP-binding sites; other site 414684000221 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 414684000222 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 414684000223 FMN binding site [chemical binding]; other site 414684000224 active site 414684000225 catalytic residues [active] 414684000226 substrate binding site [chemical binding]; other site 414684000227 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 414684000228 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 414684000229 putative active site [active] 414684000230 heme pocket [chemical binding]; other site 414684000231 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684000232 dimer interface [polypeptide binding]; other site 414684000233 phosphorylation site [posttranslational modification] 414684000234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000235 ATP binding site [chemical binding]; other site 414684000236 Mg2+ binding site [ion binding]; other site 414684000237 G-X-G motif; other site 414684000238 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 414684000239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000240 active site 414684000241 phosphorylation site [posttranslational modification] 414684000242 intermolecular recognition site; other site 414684000243 dimerization interface [polypeptide binding]; other site 414684000244 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 414684000245 Walker A motif; other site 414684000246 ATP binding site [chemical binding]; other site 414684000247 Walker B motif; other site 414684000248 arginine finger; other site 414684000249 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 414684000250 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 414684000251 dimerization interface [polypeptide binding]; other site 414684000252 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 414684000253 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684000254 dimer interface [polypeptide binding]; other site 414684000255 phosphorylation site [posttranslational modification] 414684000256 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000257 ATP binding site [chemical binding]; other site 414684000258 Mg2+ binding site [ion binding]; other site 414684000259 G-X-G motif; other site 414684000260 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 414684000261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000262 active site 414684000263 phosphorylation site [posttranslational modification] 414684000264 intermolecular recognition site; other site 414684000265 dimerization interface [polypeptide binding]; other site 414684000266 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 414684000267 Walker A motif; other site 414684000268 ATP binding site [chemical binding]; other site 414684000269 Walker B motif; other site 414684000270 arginine finger; other site 414684000271 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 414684000272 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 414684000273 TrkA-N domain; Region: TrkA_N; pfam02254 414684000274 TrkA-C domain; Region: TrkA_C; pfam02080 414684000275 TrkA-N domain; Region: TrkA_N; pfam02254 414684000276 TrkA-C domain; Region: TrkA_C; pfam02080 414684000277 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 414684000278 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 414684000279 homodimer interface [polypeptide binding]; other site 414684000280 substrate-cofactor binding pocket; other site 414684000281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684000282 catalytic residue [active] 414684000283 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 414684000284 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 414684000285 motif II; other site 414684000286 bacterial Hfq-like; Region: Hfq; cd01716 414684000287 hexamer interface [polypeptide binding]; other site 414684000288 Sm1 motif; other site 414684000289 RNA binding site [nucleotide binding]; other site 414684000290 Sm2 motif; other site 414684000291 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 414684000292 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 414684000293 HflX GTPase family; Region: HflX; cd01878 414684000294 G1 box; other site 414684000295 GTP/Mg2+ binding site [chemical binding]; other site 414684000296 Switch I region; other site 414684000297 G2 box; other site 414684000298 G3 box; other site 414684000299 Switch II region; other site 414684000300 G4 box; other site 414684000301 G5 box; other site 414684000302 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 414684000303 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 414684000304 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 414684000305 putative active site [active] 414684000306 putative substrate binding site [chemical binding]; other site 414684000307 putative cosubstrate binding site; other site 414684000308 catalytic site [active] 414684000309 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 414684000310 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 414684000311 active site 414684000312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000313 NAD(P) binding site [chemical binding]; other site 414684000314 malonic semialdehyde reductase; Provisional; Region: PRK10538 414684000315 active site 414684000316 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 414684000317 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 414684000318 homodimer interface [polypeptide binding]; other site 414684000319 metal binding site [ion binding]; metal-binding site 414684000320 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 414684000321 homodimer interface [polypeptide binding]; other site 414684000322 active site 414684000323 putative chemical substrate binding site [chemical binding]; other site 414684000324 metal binding site [ion binding]; metal-binding site 414684000325 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 414684000326 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684000327 DNA binding residues [nucleotide binding] 414684000328 dimer interface [polypeptide binding]; other site 414684000329 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 414684000330 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 414684000331 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684000332 FAD binding site [chemical binding]; other site 414684000333 substrate binding pocket [chemical binding]; other site 414684000334 catalytic base [active] 414684000335 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 414684000336 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 414684000337 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684000338 MarR family; Region: MarR_2; pfam12802 414684000339 Uncharacterized conserved protein [Function unknown]; Region: COG0393 414684000340 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 414684000341 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 414684000342 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684000343 AMP-binding enzyme; Region: AMP-binding; pfam00501 414684000344 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684000345 active site 414684000346 CoA binding site [chemical binding]; other site 414684000347 AMP binding site [chemical binding]; other site 414684000348 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 414684000349 putative active site [active] 414684000350 YdjC motif; other site 414684000351 Mg binding site [ion binding]; other site 414684000352 putative homodimer interface [polypeptide binding]; other site 414684000353 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 414684000354 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 414684000355 Ligand binding site; other site 414684000356 Putative Catalytic site; other site 414684000357 DXD motif; other site 414684000358 exopolyphosphatase; Region: exo_poly_only; TIGR03706 414684000359 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 414684000360 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 414684000361 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 414684000362 S-adenosylmethionine binding site [chemical binding]; other site 414684000363 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 414684000364 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 414684000365 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 414684000366 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 414684000367 active site 414684000368 16S rRNA methyltransferase B; Provisional; Region: PRK14902 414684000369 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 414684000370 S-adenosylmethionine binding site [chemical binding]; other site 414684000371 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 414684000372 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 414684000373 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 414684000374 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 414684000375 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 414684000376 Amidase; Region: Amidase; cl11426 414684000377 Spore Coat Protein U domain; Region: SCPU; pfam05229 414684000378 Spore Coat Protein U domain; Region: SCPU; pfam05229 414684000379 Response regulator receiver domain; Region: Response_reg; pfam00072 414684000380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000381 active site 414684000382 phosphorylation site [posttranslational modification] 414684000383 intermolecular recognition site; other site 414684000384 dimerization interface [polypeptide binding]; other site 414684000385 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 414684000386 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684000387 Walker A motif; other site 414684000388 ATP binding site [chemical binding]; other site 414684000389 Walker B motif; other site 414684000390 arginine finger; other site 414684000391 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 414684000392 ParA-like protein; Provisional; Region: PHA02518 414684000393 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 414684000394 P-loop; other site 414684000395 Magnesium ion binding site [ion binding]; other site 414684000396 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 414684000397 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 414684000398 putative ADP-binding pocket [chemical binding]; other site 414684000399 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684000400 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 414684000401 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 414684000402 Substrate binding site; other site 414684000403 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 414684000404 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 414684000405 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 414684000406 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 414684000407 FliG C-terminal domain; Region: FliG_C; pfam01706 414684000408 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 414684000409 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 414684000410 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684000411 flagellar assembly protein H; Validated; Region: fliH; PRK06032 414684000412 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 414684000413 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 414684000414 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 414684000415 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 414684000416 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 414684000417 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 414684000418 Uncharacterized conserved protein [Function unknown]; Region: COG3334 414684000419 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 414684000420 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 414684000421 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 414684000422 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 414684000423 FHIPEP family; Region: FHIPEP; pfam00771 414684000424 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 414684000425 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 414684000426 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 414684000427 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 414684000428 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 414684000429 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684000430 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 414684000431 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 414684000432 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 414684000433 Walker A motif/ATP binding site; other site 414684000434 Walker B motif; other site 414684000435 Phosphate transporter family; Region: PHO4; pfam01384 414684000436 Phosphate transporter family; Region: PHO4; pfam01384 414684000437 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 414684000438 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 414684000439 Flagellar protein FlbT; Region: FlbT; pfam07378 414684000440 Flagellar protein FlaF; Region: FlaF; pfam07309 414684000441 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 414684000442 flagellin; Reviewed; Region: PRK12687 414684000443 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684000444 Rod binding protein; Region: Rod-binding; pfam10135 414684000445 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 414684000446 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 414684000447 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684000448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000449 active site 414684000450 phosphorylation site [posttranslational modification] 414684000451 intermolecular recognition site; other site 414684000452 dimerization interface [polypeptide binding]; other site 414684000453 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 414684000454 DNA binding site [nucleotide binding] 414684000455 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 414684000456 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684000457 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 414684000458 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 414684000459 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 414684000460 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 414684000461 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 414684000462 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684000463 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 414684000464 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684000465 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684000466 ligand binding site [chemical binding]; other site 414684000467 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 414684000468 flagellar motor protein MotA; Validated; Region: PRK09110 414684000469 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 414684000470 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684000471 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 414684000472 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 414684000473 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684000474 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 414684000475 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 414684000476 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12788 414684000477 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684000478 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 414684000479 non-specific DNA binding site [nucleotide binding]; other site 414684000480 salt bridge; other site 414684000481 sequence-specific DNA binding site [nucleotide binding]; other site 414684000482 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 414684000483 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 414684000484 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 414684000485 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 414684000486 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 414684000487 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 414684000488 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 414684000489 aldolase II superfamily protein; Provisional; Region: PRK07044 414684000490 intersubunit interface [polypeptide binding]; other site 414684000491 active site 414684000492 Zn2+ binding site [ion binding]; other site 414684000493 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 414684000494 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 414684000495 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 414684000496 active site 414684000497 catalytic site [active] 414684000498 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 414684000499 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 414684000500 active site 414684000501 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 414684000502 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 414684000503 putative acyl-acceptor binding pocket; other site 414684000504 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684000505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684000506 NAD(P) binding site [chemical binding]; other site 414684000507 active site 414684000508 Methyltransferase domain; Region: Methyltransf_31; pfam13847 414684000509 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 414684000510 S-adenosylmethionine binding site [chemical binding]; other site 414684000511 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 414684000512 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684000513 PYR/PP interface [polypeptide binding]; other site 414684000514 dimer interface [polypeptide binding]; other site 414684000515 TPP binding site [chemical binding]; other site 414684000516 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 414684000517 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 414684000518 TPP-binding site [chemical binding]; other site 414684000519 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 414684000520 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...; Region: APH; cd05150 414684000521 Phosphotransferase enzyme family; Region: APH; pfam01636 414684000522 active site 414684000523 ATP binding site [chemical binding]; other site 414684000524 antibiotic binding site [chemical binding]; other site 414684000525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684000526 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 414684000527 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 414684000528 putative dimerization interface [polypeptide binding]; other site 414684000529 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 414684000530 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 414684000531 dimer interface [polypeptide binding]; other site 414684000532 catalytic residue [active] 414684000533 metal binding site [ion binding]; metal-binding site 414684000534 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 414684000535 multimerization interface [polypeptide binding]; other site 414684000536 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 414684000537 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 414684000538 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 414684000539 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 414684000540 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 414684000541 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 414684000542 PhoD-like phosphatase; Region: PhoD; pfam09423 414684000543 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000544 putative active site [active] 414684000545 putative metal binding site [ion binding]; other site 414684000546 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000547 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 414684000548 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 414684000549 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 414684000550 ligand binding site [chemical binding]; other site 414684000551 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 414684000552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684000553 Walker A/P-loop; other site 414684000554 ATP binding site [chemical binding]; other site 414684000555 Q-loop/lid; other site 414684000556 ABC transporter signature motif; other site 414684000557 Walker B; other site 414684000558 D-loop; other site 414684000559 H-loop/switch region; other site 414684000560 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 414684000561 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 414684000562 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 414684000563 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 414684000564 TM-ABC transporter signature motif; other site 414684000565 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 414684000566 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 414684000567 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 414684000568 TM-ABC transporter signature motif; other site 414684000569 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 414684000570 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 414684000571 active site 414684000572 metal binding site [ion binding]; metal-binding site 414684000573 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 414684000574 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 414684000575 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 414684000576 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 414684000577 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 414684000578 Ligand Binding Site [chemical binding]; other site 414684000579 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 414684000580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684000581 Coenzyme A binding pocket [chemical binding]; other site 414684000582 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 414684000583 CoenzymeA binding site [chemical binding]; other site 414684000584 subunit interaction site [polypeptide binding]; other site 414684000585 PHB binding site; other site 414684000586 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 414684000587 putative active site [active] 414684000588 putative catalytic site [active] 414684000589 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 414684000590 RNA polymerase sigma factor; Provisional; Region: PRK12511 414684000591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684000592 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 414684000593 DNA binding residues [nucleotide binding] 414684000594 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 414684000595 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 414684000596 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 414684000597 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 414684000598 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 414684000599 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 414684000600 N- and C-terminal domain interface [polypeptide binding]; other site 414684000601 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 414684000602 active site 414684000603 MgATP binding site [chemical binding]; other site 414684000604 catalytic site [active] 414684000605 metal binding site [ion binding]; metal-binding site 414684000606 glycerol binding site [chemical binding]; other site 414684000607 homotetramer interface [polypeptide binding]; other site 414684000608 homodimer interface [polypeptide binding]; other site 414684000609 FBP binding site [chemical binding]; other site 414684000610 protein IIAGlc interface [polypeptide binding]; other site 414684000611 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 414684000612 ACT domain; Region: ACT_6; pfam13740 414684000613 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 414684000614 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 414684000615 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 414684000616 substrate binding site [chemical binding]; other site 414684000617 catalytic Zn binding site [ion binding]; other site 414684000618 NAD binding site [chemical binding]; other site 414684000619 structural Zn binding site [ion binding]; other site 414684000620 dimer interface [polypeptide binding]; other site 414684000621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684000622 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684000623 dimer interface [polypeptide binding]; other site 414684000624 phosphorylation site [posttranslational modification] 414684000625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000626 ATP binding site [chemical binding]; other site 414684000627 G-X-G motif; other site 414684000628 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684000629 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684000630 WHG domain; Region: WHG; pfam13305 414684000631 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684000632 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684000633 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 414684000634 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684000635 Protein export membrane protein; Region: SecD_SecF; cl14618 414684000636 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 414684000637 Zn binding site [ion binding]; other site 414684000638 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684000639 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 414684000640 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000641 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 414684000642 N-terminal plug; other site 414684000643 ligand-binding site [chemical binding]; other site 414684000644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684000645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684000646 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684000647 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684000648 multidrug efflux protein; Reviewed; Region: PRK09579 414684000649 V4R domain; Region: V4R; cl15268 414684000650 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 414684000651 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 414684000652 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 414684000653 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 414684000654 FeS/SAM binding site; other site 414684000655 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 414684000656 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 414684000657 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 414684000658 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 414684000659 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 414684000660 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 414684000661 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 414684000662 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 414684000663 putative active site [active] 414684000664 catalytic site [active] 414684000665 putative metal binding site [ion binding]; other site 414684000666 PhoD-like phosphatase; Region: PhoD; pfam09423 414684000667 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000668 putative active site [active] 414684000669 putative metal binding site [ion binding]; other site 414684000670 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684000671 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000672 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 414684000673 N-terminal plug; other site 414684000674 ligand-binding site [chemical binding]; other site 414684000675 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684000676 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000677 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684000678 Phytase; Region: Phytase; cl17685 414684000679 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 414684000680 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 414684000681 dimerization interface [polypeptide binding]; other site 414684000682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000684 dimer interface [polypeptide binding]; other site 414684000685 putative CheW interface [polypeptide binding]; other site 414684000686 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 414684000687 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000688 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000689 dimer interface [polypeptide binding]; other site 414684000690 putative CheW interface [polypeptide binding]; other site 414684000691 Predicted integral membrane protein [Function unknown]; Region: COG0392 414684000692 Uncharacterized conserved protein [Function unknown]; Region: COG2898 414684000693 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 414684000694 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 414684000695 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 414684000696 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 414684000697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684000698 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 414684000699 Soluble P-type ATPase [General function prediction only]; Region: COG4087 414684000700 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 414684000701 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 414684000702 Zn2+ binding site [ion binding]; other site 414684000703 Mg2+ binding site [ion binding]; other site 414684000704 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684000705 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 414684000706 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 414684000707 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 414684000708 Walker A/P-loop; other site 414684000709 ATP binding site [chemical binding]; other site 414684000710 Q-loop/lid; other site 414684000711 ABC transporter signature motif; other site 414684000712 Walker B; other site 414684000713 D-loop; other site 414684000714 H-loop/switch region; other site 414684000715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684000716 Walker A/P-loop; other site 414684000717 ATP binding site [chemical binding]; other site 414684000718 Q-loop/lid; other site 414684000719 ABC transporter signature motif; other site 414684000720 Walker B; other site 414684000721 D-loop; other site 414684000722 H-loop/switch region; other site 414684000723 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 414684000724 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684000725 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 414684000726 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684000727 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684000728 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684000729 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 414684000730 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 414684000731 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684000732 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 414684000733 N-terminal plug; other site 414684000734 ligand-binding site [chemical binding]; other site 414684000735 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 414684000736 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 414684000737 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 414684000738 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684000739 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684000740 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 414684000741 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 414684000742 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 414684000743 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 414684000744 active site 414684000745 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 414684000746 catalytic tetrad [active] 414684000747 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 414684000748 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684000749 intersubunit interface [polypeptide binding]; other site 414684000750 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 414684000751 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 414684000752 ABC-ATPase subunit interface; other site 414684000753 dimer interface [polypeptide binding]; other site 414684000754 putative PBP binding regions; other site 414684000755 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 414684000756 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 414684000757 Walker A/P-loop; other site 414684000758 ATP binding site [chemical binding]; other site 414684000759 Q-loop/lid; other site 414684000760 ABC transporter signature motif; other site 414684000761 Walker B; other site 414684000762 D-loop; other site 414684000763 H-loop/switch region; other site 414684000764 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 414684000765 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 414684000766 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 414684000767 FeS/SAM binding site; other site 414684000768 pseudogene;identified by match to protein family HMM PF00005 414684000769 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 414684000770 ATP cone domain; Region: ATP-cone; pfam03477 414684000771 Class III ribonucleotide reductase; Region: RNR_III; cd01675 414684000772 effector binding site; other site 414684000773 active site 414684000774 Zn binding site [ion binding]; other site 414684000775 glycine loop; other site 414684000776 cobyric acid synthase; Provisional; Region: PRK00784 414684000777 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 414684000778 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 414684000779 catalytic triad [active] 414684000780 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 414684000781 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 414684000782 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 414684000783 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 414684000784 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 414684000785 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684000786 catalytic residue [active] 414684000787 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 414684000788 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 414684000789 N-terminal plug; other site 414684000790 ligand-binding site [chemical binding]; other site 414684000791 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 414684000792 PAS fold; Region: PAS_3; pfam08447 414684000793 putative active site [active] 414684000794 heme pocket [chemical binding]; other site 414684000795 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 414684000796 PAS domain; Region: PAS_9; pfam13426 414684000797 putative active site [active] 414684000798 heme pocket [chemical binding]; other site 414684000799 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000800 dimer interface [polypeptide binding]; other site 414684000801 putative CheW interface [polypeptide binding]; other site 414684000802 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684000803 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 414684000804 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 414684000805 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 414684000806 outer membrane receptor FepA; Provisional; Region: PRK13528 414684000807 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 414684000808 N-terminal plug; other site 414684000809 ligand-binding site [chemical binding]; other site 414684000810 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 414684000811 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684000812 putative active site [active] 414684000813 heme pocket [chemical binding]; other site 414684000814 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 414684000815 PAS fold; Region: PAS_3; pfam08447 414684000816 putative active site [active] 414684000817 heme pocket [chemical binding]; other site 414684000818 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684000819 HWE histidine kinase; Region: HWE_HK; smart00911 414684000820 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684000821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000822 active site 414684000823 phosphorylation site [posttranslational modification] 414684000824 intermolecular recognition site; other site 414684000825 dimerization interface [polypeptide binding]; other site 414684000826 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 414684000827 putative binding surface; other site 414684000828 active site 414684000829 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 414684000830 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 414684000831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000832 ATP binding site [chemical binding]; other site 414684000833 Mg2+ binding site [ion binding]; other site 414684000834 G-X-G motif; other site 414684000835 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 414684000836 Response regulator receiver domain; Region: Response_reg; pfam00072 414684000837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000838 active site 414684000839 phosphorylation site [posttranslational modification] 414684000840 intermolecular recognition site; other site 414684000841 dimerization interface [polypeptide binding]; other site 414684000842 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684000843 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 414684000844 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 414684000845 HEAT repeats; Region: HEAT_2; pfam13646 414684000846 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 414684000847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000848 active site 414684000849 phosphorylation site [posttranslational modification] 414684000850 intermolecular recognition site; other site 414684000851 dimerization interface [polypeptide binding]; other site 414684000852 CheB methylesterase; Region: CheB_methylest; pfam01339 414684000853 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 414684000854 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 414684000855 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 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 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000860 dimer interface [polypeptide binding]; other site 414684000861 putative CheW interface [polypeptide binding]; other site 414684000862 PAS fold; Region: PAS; pfam00989 414684000863 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 414684000864 putative active site [active] 414684000865 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684000866 dimer interface [polypeptide binding]; other site 414684000867 phosphorylation site [posttranslational modification] 414684000868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000869 phosphorylation site [posttranslational modification] 414684000870 intermolecular recognition site; other site 414684000871 serine;Alternate names identified by match to protein family HMM PF01584 414684000872 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 414684000873 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 414684000874 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 414684000875 Response regulator receiver domain; Region: Response_reg; pfam00072 414684000876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000877 active site 414684000878 phosphorylation site [posttranslational modification] 414684000879 intermolecular recognition site; other site 414684000880 dimerization interface [polypeptide binding]; other site 414684000881 PAS domain; Region: PAS_9; pfam13426 414684000882 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 414684000883 putative active site [active] 414684000884 heme pocket [chemical binding]; other site 414684000885 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684000886 dimer interface [polypeptide binding]; other site 414684000887 phosphorylation site [posttranslational modification] 414684000888 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684000889 ATP binding site [chemical binding]; other site 414684000890 G-X-G motif; other site 414684000891 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684000892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000893 active site 414684000894 phosphorylation site [posttranslational modification] 414684000895 intermolecular recognition site; other site 414684000896 dimerization interface [polypeptide binding]; other site 414684000897 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000898 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000899 dimer interface [polypeptide binding]; other site 414684000900 putative CheW interface [polypeptide binding]; other site 414684000901 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 414684000902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684000903 active site 414684000904 phosphorylation site [posttranslational modification] 414684000905 intermolecular recognition site; other site 414684000906 dimerization interface [polypeptide binding]; other site 414684000907 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 414684000908 dimerization interface [polypeptide binding]; other site 414684000909 DNA binding residues [nucleotide binding] 414684000910 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684000911 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 414684000912 Probable Catalytic site; other site 414684000913 metal-binding site 414684000914 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 414684000915 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 414684000916 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 414684000917 Walker A/P-loop; other site 414684000918 ATP binding site [chemical binding]; other site 414684000919 Q-loop/lid; other site 414684000920 ABC transporter signature motif; other site 414684000921 Walker B; other site 414684000922 D-loop; other site 414684000923 H-loop/switch region; other site 414684000924 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 414684000925 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684000926 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684000927 SapC; Region: SapC; pfam07277 414684000928 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 414684000929 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 414684000930 alpha subunit interaction interface [polypeptide binding]; other site 414684000931 Walker A motif; other site 414684000932 ATP binding site [chemical binding]; other site 414684000933 Walker B motif; other site 414684000934 inhibitor binding site; inhibition site 414684000935 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684000936 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 414684000937 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 414684000938 gamma subunit interface [polypeptide binding]; other site 414684000939 epsilon subunit interface [polypeptide binding]; other site 414684000940 LBP interface [polypeptide binding]; other site 414684000941 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 414684000942 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 414684000943 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 414684000944 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 414684000945 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 414684000946 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 414684000947 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 414684000948 Walker A motif; other site 414684000949 ATP binding site [chemical binding]; other site 414684000950 Walker B motif; other site 414684000951 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684000952 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 414684000953 core domain interface [polypeptide binding]; other site 414684000954 delta subunit interface [polypeptide binding]; other site 414684000955 epsilon subunit interface [polypeptide binding]; other site 414684000956 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 414684000957 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 414684000958 active site 414684000959 catalytic residues [active] 414684000960 metal binding site [ion binding]; metal-binding site 414684000961 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684000962 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684000963 active site 414684000964 Predicted membrane protein [Function unknown]; Region: COG1238 414684000965 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 414684000966 dimerization interface [polypeptide binding]; other site 414684000967 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684000968 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000969 dimer interface [polypeptide binding]; other site 414684000970 putative CheW interface [polypeptide binding]; other site 414684000971 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 414684000972 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684000973 ATP-grasp domain; Region: ATP-grasp_4; cl17255 414684000974 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 414684000975 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 414684000976 carboxyltransferase (CT) interaction site; other site 414684000977 biotinylation site [posttranslational modification]; other site 414684000978 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 414684000979 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 414684000980 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 414684000981 TrkA-N domain; Region: TrkA_N; pfam02254 414684000982 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 414684000983 dimerization interface [polypeptide binding]; other site 414684000984 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684000985 dimer interface [polypeptide binding]; other site 414684000986 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684000987 putative CheW interface [polypeptide binding]; other site 414684000988 Ion channel; Region: Ion_trans_2; pfam07885 414684000989 enoyl-CoA hydratase; Provisional; Region: PRK05995 414684000990 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 414684000991 substrate binding site [chemical binding]; other site 414684000992 oxyanion hole (OAH) forming residues; other site 414684000993 trimer interface [polypeptide binding]; other site 414684000994 flagellin; Reviewed; Region: PRK08869 414684000995 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 414684000996 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 414684000997 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 414684000998 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 414684000999 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 414684001000 structural tetrad; other site 414684001001 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 414684001002 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684001003 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 414684001004 Fatty acid desaturase; Region: FA_desaturase; pfam00487 414684001005 Di-iron ligands [ion binding]; other site 414684001006 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 414684001007 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 414684001008 putative catalytic residue [active] 414684001009 C factor cell-cell signaling protein; Provisional; Region: PRK09009 414684001010 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 414684001011 NADP binding site [chemical binding]; other site 414684001012 homodimer interface [polypeptide binding]; other site 414684001013 active site 414684001014 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 414684001015 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 414684001016 active site 414684001017 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 414684001018 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 414684001019 dimer interface [polypeptide binding]; other site 414684001020 active site 414684001021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684001022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684001023 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 414684001024 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684001025 ligand binding site [chemical binding]; other site 414684001026 flexible hinge region; other site 414684001027 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 414684001028 isovaleryl-CoA dehydrogenase; Region: PLN02519 414684001029 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 414684001030 substrate binding site [chemical binding]; other site 414684001031 FAD binding site [chemical binding]; other site 414684001032 catalytic base [active] 414684001033 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001034 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001035 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684001036 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684001037 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001038 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001039 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684001040 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 414684001041 MgtE intracellular N domain; Region: MgtE_N; smart00924 414684001042 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 414684001043 Divalent cation transporter; Region: MgtE; pfam01769 414684001044 malic enzyme; Reviewed; Region: PRK12862 414684001045 Malic enzyme, N-terminal domain; Region: malic; pfam00390 414684001046 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 414684001047 putative NAD(P) binding site [chemical binding]; other site 414684001048 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 414684001049 lipoate-protein ligase B; Provisional; Region: PRK14341 414684001050 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 414684001051 dinuclear metal binding motif [ion binding]; other site 414684001052 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 414684001053 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 414684001054 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684001055 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 414684001056 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 414684001057 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 414684001058 carboxyltransferase (CT) interaction site; other site 414684001059 biotinylation site [posttranslational modification]; other site 414684001060 Flagellin N-methylase; Region: FliB; cl00497 414684001061 2TM domain; Region: 2TM; pfam13239 414684001062 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 414684001063 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 414684001064 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 414684001065 SCP-2 sterol transfer family; Region: SCP2; pfam02036 414684001066 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 414684001067 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 414684001068 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 414684001069 ATP12 chaperone protein; Region: ATP12; pfam07542 414684001070 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 414684001071 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 414684001072 motif II; other site 414684001073 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 414684001074 S4 RNA-binding domain; Region: S4; smart00363 414684001075 RNA binding surface [nucleotide binding]; other site 414684001076 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 414684001077 active site 414684001078 camphor resistance protein CrcB; Provisional; Region: PRK14195 414684001079 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684001080 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001081 recombination factor protein RarA; Reviewed; Region: PRK13342 414684001082 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 414684001083 Walker A motif; other site 414684001084 ATP binding site [chemical binding]; other site 414684001085 Walker B motif; other site 414684001086 arginine finger; other site 414684001087 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 414684001088 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 414684001089 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 414684001090 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 414684001091 protein binding site [polypeptide binding]; other site 414684001092 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 414684001093 protein binding site [polypeptide binding]; other site 414684001094 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 414684001095 aspartate racemase; Region: asp_race; TIGR00035 414684001096 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684001097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001098 active site 414684001099 phosphorylation site [posttranslational modification] 414684001100 intermolecular recognition site; other site 414684001101 dimerization interface [polypeptide binding]; other site 414684001102 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 414684001103 DNA binding site [nucleotide binding] 414684001104 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 414684001105 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 414684001106 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 414684001107 Ligand Binding Site [chemical binding]; other site 414684001108 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 414684001109 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684001110 dimer interface [polypeptide binding]; other site 414684001111 phosphorylation site [posttranslational modification] 414684001112 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001113 ATP binding site [chemical binding]; other site 414684001114 Mg2+ binding site [ion binding]; other site 414684001115 G-X-G motif; other site 414684001116 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 414684001117 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 414684001118 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684001119 Soluble P-type ATPase [General function prediction only]; Region: COG4087 414684001120 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 414684001121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684001122 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 414684001123 dimerization interface [polypeptide binding]; other site 414684001124 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 414684001125 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 414684001126 dimer interface [polypeptide binding]; other site 414684001127 decamer (pentamer of dimers) interface [polypeptide binding]; other site 414684001128 catalytic triad [active] 414684001129 peroxidatic and resolving cysteines [active] 414684001130 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 414684001131 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 414684001132 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 414684001133 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 414684001134 putative DNA binding site [nucleotide binding]; other site 414684001135 putative Zn2+ binding site [ion binding]; other site 414684001136 AsnC family; Region: AsnC_trans_reg; pfam01037 414684001137 gamma-glutamyl kinase; Provisional; Region: PRK05429 414684001138 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 414684001139 nucleotide binding site [chemical binding]; other site 414684001140 homotetrameric interface [polypeptide binding]; other site 414684001141 putative phosphate binding site [ion binding]; other site 414684001142 putative allosteric binding site; other site 414684001143 PUA domain; Region: PUA; pfam01472 414684001144 GTPase CgtA; Reviewed; Region: obgE; PRK12299 414684001145 GTP1/OBG; Region: GTP1_OBG; pfam01018 414684001146 Obg GTPase; Region: Obg; cd01898 414684001147 G1 box; other site 414684001148 GTP/Mg2+ binding site [chemical binding]; other site 414684001149 Switch I region; other site 414684001150 G2 box; other site 414684001151 G3 box; other site 414684001152 Switch II region; other site 414684001153 G4 box; other site 414684001154 G5 box; other site 414684001155 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 414684001156 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 414684001157 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 414684001158 AAA domain; Region: AAA_27; pfam13514 414684001159 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 414684001160 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 414684001161 active site 414684001162 metal binding site [ion binding]; metal-binding site 414684001163 DNA binding site [nucleotide binding] 414684001164 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 414684001165 active site 414684001166 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 414684001167 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 414684001168 ferredoxin-type protein; Provisional; Region: PRK10194 414684001169 NapD protein; Region: NapD; pfam03927 414684001170 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 414684001171 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 414684001172 [4Fe-4S] binding site [ion binding]; other site 414684001173 molybdopterin cofactor binding site; other site 414684001174 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 414684001175 molybdopterin cofactor binding site; other site 414684001176 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 414684001177 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 414684001178 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 414684001179 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 414684001180 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 414684001181 active site 414684001182 copper-transporting P-type ATPase;identified by match to protein family HMM PF03927 414684001183 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 414684001184 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 414684001186 SEC-C motif; Region: SEC-C; pfam02810 414684001187 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 414684001188 Flavodoxin; Region: Flavodoxin_1; pfam00258 414684001189 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 414684001190 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 414684001191 FAD binding pocket [chemical binding]; other site 414684001192 conserved FAD binding motif [chemical binding]; other site 414684001193 phosphate binding motif [ion binding]; other site 414684001194 beta-alpha-beta structure motif; other site 414684001195 NAD binding pocket [chemical binding]; other site 414684001196 Dihaem cytochrome c; Region: DHC; pfam09626 414684001197 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 414684001198 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 414684001199 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 414684001200 Predicted membrane protein [Function unknown]; Region: COG3212 414684001201 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 414684001202 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684001203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001204 active site 414684001205 phosphorylation site [posttranslational modification] 414684001206 intermolecular recognition site; other site 414684001207 dimerization interface [polypeptide binding]; other site 414684001208 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 414684001209 DNA binding site [nucleotide binding] 414684001210 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684001211 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001212 ATP binding site [chemical binding]; other site 414684001213 Mg2+ binding site [ion binding]; other site 414684001214 G-X-G motif; other site 414684001215 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684001216 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 414684001217 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684001218 dimer interface [polypeptide binding]; other site 414684001219 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684001220 putative CheW interface [polypeptide binding]; other site 414684001221 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 414684001222 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 414684001223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684001224 catalytic residue [active] 414684001225 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 414684001226 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 414684001227 trimerization site [polypeptide binding]; other site 414684001228 active site 414684001229 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 414684001230 NifU-like domain; Region: NifU; pfam01106 414684001231 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 414684001232 NifQ; Region: NifQ; pfam04891 414684001233 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 414684001234 DDE superfamily endonuclease; Region: DDE_3; pfam13358 414684001235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 414684001236 Winged helix-turn helix; Region: HTH_29; pfam13551 414684001237 Helix-turn-helix domain; Region: HTH_28; pfam13518 414684001238 Winged helix-turn helix; Region: HTH_33; pfam13592 414684001239 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 414684001240 ADP-ribose binding site [chemical binding]; other site 414684001241 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 414684001242 Domain of unknown function DUF59; Region: DUF59; cl00941 414684001243 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 414684001244 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 414684001245 trimerization site [polypeptide binding]; other site 414684001246 active site 414684001247 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 414684001248 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 414684001249 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684001250 catalytic residue [active] 414684001251 FeS assembly protein SufD; Region: sufD; TIGR01981 414684001252 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 414684001253 FeS assembly ATPase SufC; Region: sufC; TIGR01978 414684001254 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 414684001255 Walker A/P-loop; other site 414684001256 ATP binding site [chemical binding]; other site 414684001257 Q-loop/lid; other site 414684001258 ABC transporter signature motif; other site 414684001259 Walker B; other site 414684001260 D-loop; other site 414684001261 H-loop/switch region; other site 414684001262 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 414684001263 putative ABC transporter; Region: ycf24; CHL00085 414684001264 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 414684001265 Transcriptional regulator; Region: Rrf2; pfam02082 414684001266 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684001267 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684001268 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684001269 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684001270 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 414684001271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001272 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684001273 active site 414684001274 phosphorylation site [posttranslational modification] 414684001275 intermolecular recognition site; other site 414684001276 dimerization interface [polypeptide binding]; other site 414684001277 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 414684001278 DNA binding site [nucleotide binding] 414684001279 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684001280 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684001281 phosphorylation site [posttranslational modification] 414684001282 dimer interface [polypeptide binding]; other site 414684001283 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001284 ATP binding site [chemical binding]; other site 414684001285 Mg2+ binding site [ion binding]; other site 414684001286 G-X-G motif; other site 414684001287 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 414684001288 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684001289 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 414684001290 ligand binding site [chemical binding]; other site 414684001291 flexible hinge region; other site 414684001292 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 414684001293 Ligand Binding Site [chemical binding]; other site 414684001294 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 414684001295 FOG: CBS domain [General function prediction only]; Region: COG0517 414684001296 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 414684001297 AAA domain; Region: AAA_23; pfam13476 414684001298 Walker A/P-loop; other site 414684001299 ATP binding site [chemical binding]; other site 414684001300 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 414684001301 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 414684001302 ABC transporter signature motif; other site 414684001303 Walker B; other site 414684001304 D-loop; other site 414684001305 H-loop/switch region; other site 414684001306 Thioredoxin; Region: Thioredoxin_4; pfam13462 414684001307 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 414684001308 Protein of unknown function (DUF721); Region: DUF721; cl02324 414684001309 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 414684001310 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 414684001311 minor groove reading motif; other site 414684001312 helix-hairpin-helix signature motif; other site 414684001313 substrate binding pocket [chemical binding]; other site 414684001314 active site 414684001315 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 414684001316 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 414684001317 DNA binding and oxoG recognition site [nucleotide binding] 414684001318 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 414684001319 Spore Coat Protein U domain; Region: SCPU; cl02253 414684001320 glycogen branching enzyme; Provisional; Region: PRK05402 414684001321 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 414684001322 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 414684001323 active site 414684001324 catalytic site [active] 414684001325 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 414684001326 trehalose synthase; Region: treS_nterm; TIGR02456 414684001327 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 414684001328 active site 414684001329 catalytic site [active] 414684001330 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 414684001331 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 414684001332 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 414684001333 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 414684001334 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 414684001335 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 414684001336 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 414684001337 active site 414684001338 catalytic site [active] 414684001339 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 414684001340 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 414684001341 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 414684001342 active site 414684001343 homodimer interface [polypeptide binding]; other site 414684001344 catalytic site [active] 414684001345 acceptor binding site [chemical binding]; other site 414684001346 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 414684001347 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 414684001348 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 414684001349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684001350 catalytic residue [active] 414684001351 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 414684001352 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 414684001353 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 414684001354 active site 414684001355 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684001356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001357 NAD(P) binding site [chemical binding]; other site 414684001358 active site 414684001359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001360 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684001361 NAD(P) binding site [chemical binding]; other site 414684001362 active site 414684001363 B12-binding domain/radical SAM domain protein, rhizo-twelve system; Region: B12_rSAM_oligo; TIGR04295 414684001364 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 414684001365 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 414684001366 FeS/SAM binding site; other site 414684001367 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 414684001368 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 414684001369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684001370 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 414684001371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684001372 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 414684001373 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 414684001374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684001375 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 414684001376 Putative phosphatase (DUF442); Region: DUF442; cl17385 414684001377 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 414684001378 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 414684001379 active site 414684001380 SnoaL-like domain; Region: SnoaL_3; pfam13474 414684001381 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 414684001382 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 414684001383 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 414684001384 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684001385 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 414684001386 Ligand binding site; other site 414684001387 DXD motif; other site 414684001388 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 414684001389 nucleotide binding site/active site [active] 414684001390 HIT family signature motif; other site 414684001391 catalytic residue [active] 414684001392 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684001393 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 414684001394 dimerization interface [polypeptide binding]; other site 414684001395 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684001396 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684001397 dimer interface [polypeptide binding]; other site 414684001398 putative CheW interface [polypeptide binding]; other site 414684001399 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 414684001400 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 414684001401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 414684001402 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 414684001403 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 414684001404 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 414684001405 HicB family; Region: HicB; pfam05534 414684001406 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 414684001407 substrate binding site [chemical binding]; other site 414684001408 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 414684001409 oxyanion hole (OAH) forming residues; other site 414684001410 trimer interface [polypeptide binding]; other site 414684001411 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 414684001412 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684001413 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684001414 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 414684001415 Prostaglandin dehydrogenases; Region: PGDH; cd05288 414684001416 NAD(P) binding site [chemical binding]; other site 414684001417 substrate binding site [chemical binding]; other site 414684001418 dimer interface [polypeptide binding]; other site 414684001419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001420 NAD(P) binding site [chemical binding]; other site 414684001421 short chain dehydrogenase; Validated; Region: PRK07069 414684001422 active site 414684001423 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 414684001424 classical (c) SDRs; Region: SDR_c; cd05233 414684001425 NAD(P) binding site [chemical binding]; other site 414684001426 active site 414684001427 Phosphotransferase enzyme family; Region: APH; pfam01636 414684001428 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 414684001429 putative active site [active] 414684001430 putative substrate binding site [chemical binding]; other site 414684001431 ATP binding site [chemical binding]; other site 414684001432 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 414684001433 nudix motif; other site 414684001434 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; cl17299 414684001435 heme binding pocket [chemical binding]; other site 414684001436 heme ligand [chemical binding]; other site 414684001437 conserved hypothetical protein, pseudogene;identified by match to protein family HMM PF00107 414684001438 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 414684001439 C-terminal peptidase (prc); Region: prc; TIGR00225 414684001440 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 414684001441 protein binding site [polypeptide binding]; other site 414684001442 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 414684001443 Catalytic dyad [active] 414684001444 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 414684001445 Peptidase family M23; Region: Peptidase_M23; pfam01551 414684001446 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 414684001447 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 414684001448 inhibitor-cofactor binding pocket; inhibition site 414684001449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684001450 catalytic residue [active] 414684001451 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 414684001452 Amidinotransferase; Region: Amidinotransf; cl12043 414684001453 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684001454 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 414684001455 putative DNA binding site [nucleotide binding]; other site 414684001456 putative Zn2+ binding site [ion binding]; other site 414684001457 AsnC family; Region: AsnC_trans_reg; pfam01037 414684001458 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 414684001459 putative DNA binding site [nucleotide binding]; other site 414684001460 putative Zn2+ binding site [ion binding]; other site 414684001461 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 414684001462 CPxP motif; other site 414684001463 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 414684001464 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 414684001465 putative active site [active] 414684001466 Zn binding site [ion binding]; other site 414684001467 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 414684001468 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 414684001469 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 414684001470 substrate binding pocket [chemical binding]; other site 414684001471 chain length determination region; other site 414684001472 substrate-Mg2+ binding site; other site 414684001473 catalytic residues [active] 414684001474 aspartate-rich region 1; other site 414684001475 active site lid residues [active] 414684001476 aspartate-rich region 2; other site 414684001477 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 414684001478 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 414684001479 TPP-binding site; other site 414684001480 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 414684001481 PYR/PP interface [polypeptide binding]; other site 414684001482 dimer interface [polypeptide binding]; other site 414684001483 TPP binding site [chemical binding]; other site 414684001484 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684001485 Predicted small secreted protein [Function unknown]; Region: COG5510 414684001486 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 414684001487 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 414684001488 RNA binding surface [nucleotide binding]; other site 414684001489 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 414684001490 S-adenosylmethionine binding site [chemical binding]; other site 414684001491 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 414684001492 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 414684001493 tandem repeat interface [polypeptide binding]; other site 414684001494 oligomer interface [polypeptide binding]; other site 414684001495 active site residues [active] 414684001496 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 414684001497 tandem repeat interface [polypeptide binding]; other site 414684001498 oligomer interface [polypeptide binding]; other site 414684001499 active site residues [active] 414684001500 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 414684001501 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 414684001502 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 414684001503 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 414684001504 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 414684001505 substrate-cofactor binding pocket; other site 414684001506 homodimer interface [polypeptide binding]; other site 414684001507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684001508 catalytic residue [active] 414684001509 Protein of unknown function (DUF466); Region: DUF466; pfam04328 414684001510 carbon starvation protein A; Provisional; Region: PRK15015 414684001511 Carbon starvation protein CstA; Region: CstA; pfam02554 414684001512 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 414684001513 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 414684001514 active site 414684001515 catalytic site [active] 414684001516 substrate binding site [chemical binding]; other site 414684001517 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 414684001518 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 414684001519 Tetramer interface [polypeptide binding]; other site 414684001520 active site 414684001521 FMN-binding site [chemical binding]; other site 414684001522 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 414684001523 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 414684001524 NAD binding site [chemical binding]; other site 414684001525 homotetramer interface [polypeptide binding]; other site 414684001526 homodimer interface [polypeptide binding]; other site 414684001527 substrate binding site [chemical binding]; other site 414684001528 active site 414684001529 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 414684001530 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001531 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684001532 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684001533 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 414684001534 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 414684001535 HSP70 interaction site [polypeptide binding]; other site 414684001536 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 414684001537 substrate binding site [polypeptide binding]; other site 414684001538 dimer interface [polypeptide binding]; other site 414684001539 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684001540 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 414684001541 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 414684001542 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 414684001543 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 414684001544 Cation efflux family; Region: Cation_efflux; cl00316 414684001545 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 414684001546 PRC-barrel domain; Region: PRC; pfam05239 414684001547 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 414684001548 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 414684001549 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 414684001550 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 414684001551 metal binding site 2 [ion binding]; metal-binding site 414684001552 putative DNA binding helix; other site 414684001553 metal binding site 1 [ion binding]; metal-binding site 414684001554 dimer interface [polypeptide binding]; other site 414684001555 structural Zn2+ binding site [ion binding]; other site 414684001556 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 414684001557 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 414684001558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684001559 short chain dehydrogenase; Provisional; Region: PRK07024 414684001560 NAD(P) binding site [chemical binding]; other site 414684001561 active site 414684001562 SnoaL-like domain; Region: SnoaL_2; pfam12680 414684001563 Pantoate-beta-alanine ligase; Region: PanC; cd00560 414684001564 pantoate--beta-alanine ligase; Region: panC; TIGR00018 414684001565 active site 414684001566 ATP-binding site [chemical binding]; other site 414684001567 pantoate-binding site; other site 414684001568 HXXH motif; other site 414684001569 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 414684001570 dimer interface [polypeptide binding]; other site 414684001571 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684001572 active site 414684001573 metal binding site [ion binding]; metal-binding site 414684001574 glutathione binding site [chemical binding]; other site 414684001575 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 414684001576 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 414684001577 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 414684001578 nucleotide binding pocket [chemical binding]; other site 414684001579 K-X-D-G motif; other site 414684001580 catalytic site [active] 414684001581 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 414684001582 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 414684001583 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 414684001584 Dimer interface [polypeptide binding]; other site 414684001585 BRCT sequence motif; other site 414684001586 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 414684001587 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 414684001588 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 414684001589 Walker A/P-loop; other site 414684001590 ATP binding site [chemical binding]; other site 414684001591 Q-loop/lid; other site 414684001592 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 414684001593 ABC transporter signature motif; other site 414684001594 Walker B; other site 414684001595 D-loop; other site 414684001596 H-loop/switch region; other site 414684001597 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 414684001598 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 414684001599 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 414684001600 cell division protein FtsZ, pseudogene 414684001601 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 414684001602 Cell division protein FtsA; Region: FtsA; smart00842 414684001603 Cell division protein FtsA; Region: FtsA; pfam14450 414684001604 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 414684001605 Cell division protein FtsQ; Region: FtsQ; pfam03799 414684001606 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 414684001607 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 414684001608 ATP-grasp domain; Region: ATP-grasp_4; cl17255 414684001609 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 414684001610 FAD binding domain; Region: FAD_binding_4; pfam01565 414684001611 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 414684001612 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 414684001613 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 414684001614 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001615 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 414684001616 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 414684001617 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 414684001618 active site 414684001619 homodimer interface [polypeptide binding]; other site 414684001620 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 414684001621 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 414684001622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001623 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 414684001624 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 414684001625 Mg++ binding site [ion binding]; other site 414684001626 putative catalytic motif [active] 414684001627 putative substrate binding site [chemical binding]; other site 414684001628 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 414684001629 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 414684001630 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001631 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 414684001632 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 414684001633 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684001634 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 414684001635 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 414684001636 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 414684001637 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 414684001638 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 414684001639 MraW methylase family; Region: Methyltransf_5; cl17771 414684001640 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 414684001641 cell division protein MraZ; Reviewed; Region: PRK00326 414684001642 MraZ protein; Region: MraZ; pfam02381 414684001643 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 414684001644 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 414684001645 amidase catalytic site [active] 414684001646 Zn binding residues [ion binding]; other site 414684001647 substrate binding site [chemical binding]; other site 414684001648 EamA-like transporter family; Region: EamA; pfam00892 414684001649 ABC transporter ATPase component; Reviewed; Region: PRK11147 414684001650 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684001651 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684001652 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 414684001653 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 414684001654 putative metal binding site [ion binding]; other site 414684001655 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 414684001656 HSP70 interaction site [polypeptide binding]; other site 414684001657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684001658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684001659 Coenzyme A binding pocket [chemical binding]; other site 414684001660 5-oxoprolinase; Region: PLN02666 414684001661 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 414684001662 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 414684001663 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 414684001664 TMAO/DMSO reductase; Reviewed; Region: PRK05363 414684001665 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 414684001666 Moco binding site; other site 414684001667 metal coordination site [ion binding]; other site 414684001668 CHASE3 domain; Region: CHASE3; cl05000 414684001669 PAS fold; Region: PAS_7; pfam12860 414684001670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684001671 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684001672 dimer interface [polypeptide binding]; other site 414684001673 phosphorylation site [posttranslational modification] 414684001674 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001675 ATP binding site [chemical binding]; other site 414684001676 Mg2+ binding site [ion binding]; other site 414684001677 G-X-G motif; other site 414684001678 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684001679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001680 active site 414684001681 phosphorylation site [posttranslational modification] 414684001682 intermolecular recognition site; other site 414684001683 dimerization interface [polypeptide binding]; other site 414684001684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684001685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684001686 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 414684001687 putative effector binding pocket; other site 414684001688 dimerization interface [polypeptide binding]; other site 414684001689 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 414684001690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684001691 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 414684001692 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 414684001693 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 414684001694 DsbD alpha interface [polypeptide binding]; other site 414684001695 catalytic residues [active] 414684001696 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 414684001697 putative catalytic residue [active] 414684001698 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684001699 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684001700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684001701 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684001702 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684001703 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684001704 enoyl-CoA hydratase; Provisional; Region: PRK08260 414684001705 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 414684001706 substrate binding site [chemical binding]; other site 414684001707 oxyanion hole (OAH) forming residues; other site 414684001708 trimer interface [polypeptide binding]; other site 414684001709 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 414684001710 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 414684001711 ATP binding site [chemical binding]; other site 414684001712 putative Mg++ binding site [ion binding]; other site 414684001713 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 414684001714 nucleotide binding region [chemical binding]; other site 414684001715 ATP-binding site [chemical binding]; other site 414684001716 DEAD/H associated; Region: DEAD_assoc; pfam08494 414684001717 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 414684001718 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 414684001719 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 414684001720 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 414684001721 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 414684001722 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 414684001723 putative dimer interface [polypeptide binding]; other site 414684001724 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684001725 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 414684001726 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 414684001727 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 414684001728 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 414684001729 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 414684001730 active site 414684001731 DNA binding site [nucleotide binding] 414684001732 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 414684001733 DNA binding site [nucleotide binding] 414684001734 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 414684001735 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 414684001736 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 414684001737 NAD binding site [chemical binding]; other site 414684001738 homotetramer interface [polypeptide binding]; other site 414684001739 homodimer interface [polypeptide binding]; other site 414684001740 substrate binding site [chemical binding]; other site 414684001741 active site 414684001742 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 414684001743 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 414684001744 active site 414684001745 Zn binding site [ion binding]; other site 414684001746 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 414684001747 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 414684001748 putative metal binding site; other site 414684001749 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684001750 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 414684001751 sequence-specific DNA binding site [nucleotide binding]; other site 414684001752 salt bridge; other site 414684001753 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 414684001754 active site 414684001755 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 414684001756 SLBB domain; Region: SLBB; pfam10531 414684001757 SLBB domain; Region: SLBB; pfam10531 414684001758 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 414684001759 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 414684001760 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 414684001761 putative active site; other site 414684001762 catalytic triad [active] 414684001763 putative dimer interface [polypeptide binding]; other site 414684001764 Transcriptional regulators [Transcription]; Region: MarR; COG1846 414684001765 MarR family; Region: MarR_2; cl17246 414684001766 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 414684001767 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 414684001768 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 414684001769 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 414684001770 Walker A/P-loop; other site 414684001771 ATP binding site [chemical binding]; other site 414684001772 Q-loop/lid; other site 414684001773 ABC transporter signature motif; other site 414684001774 Walker B; other site 414684001775 D-loop; other site 414684001776 H-loop/switch region; other site 414684001777 FecCD transport family; Region: FecCD; pfam01032 414684001778 putative PBP binding regions; other site 414684001779 ABC-ATPase subunit interface; other site 414684001780 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 414684001781 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684001782 intersubunit interface [polypeptide binding]; other site 414684001783 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684001784 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 414684001785 N-terminal plug; other site 414684001786 ligand-binding site [chemical binding]; other site 414684001787 AAA domain; Region: AAA_28; pfam13521 414684001788 AAA domain; Region: AAA_17; pfam13207 414684001789 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684001790 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001791 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001792 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001793 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001794 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 414684001795 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684001796 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 414684001797 PhoU domain; Region: PhoU; pfam01895 414684001798 PhoU domain; Region: PhoU; pfam01895 414684001799 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 414684001800 MgtE intracellular N domain; Region: MgtE_N; cl15244 414684001801 FliG C-terminal domain; Region: FliG_C; pfam01706 414684001802 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684001803 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684001804 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684001805 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684001806 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 414684001807 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 414684001808 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684001809 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 414684001810 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 414684001811 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 414684001812 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 414684001813 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 414684001814 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684001815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684001816 active site 414684001817 phosphorylation site [posttranslational modification] 414684001818 intermolecular recognition site; other site 414684001819 dimerization interface [polypeptide binding]; other site 414684001820 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 414684001821 DNA binding site [nucleotide binding] 414684001822 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 414684001823 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684001824 dimerization interface [polypeptide binding]; other site 414684001825 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684001826 ATP binding site [chemical binding]; other site 414684001827 Mg2+ binding site [ion binding]; other site 414684001828 G-X-G motif; other site 414684001829 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 414684001830 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 414684001831 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 414684001832 elongation factor Tu; Reviewed; Region: PRK00049 414684001833 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 414684001834 G1 box; other site 414684001835 GEF interaction site [polypeptide binding]; other site 414684001836 GTP/Mg2+ binding site [chemical binding]; other site 414684001837 Switch I region; other site 414684001838 G2 box; other site 414684001839 G3 box; other site 414684001840 Switch II region; other site 414684001841 G4 box; other site 414684001842 G5 box; other site 414684001843 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 414684001844 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 414684001845 Antibiotic Binding Site [chemical binding]; other site 414684001846 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 414684001847 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 414684001848 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 414684001849 putative homodimer interface [polypeptide binding]; other site 414684001850 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 414684001851 heterodimer interface [polypeptide binding]; other site 414684001852 homodimer interface [polypeptide binding]; other site 414684001853 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 414684001854 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 414684001855 23S rRNA interface [nucleotide binding]; other site 414684001856 L7/L12 interface [polypeptide binding]; other site 414684001857 putative thiostrepton binding site; other site 414684001858 L25 interface [polypeptide binding]; other site 414684001859 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 414684001860 mRNA/rRNA interface [nucleotide binding]; other site 414684001861 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 414684001862 23S rRNA interface [nucleotide binding]; other site 414684001863 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 414684001864 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 414684001865 peripheral dimer interface [polypeptide binding]; other site 414684001866 core dimer interface [polypeptide binding]; other site 414684001867 L10 interface [polypeptide binding]; other site 414684001868 L11 interface [polypeptide binding]; other site 414684001869 putative EF-Tu interaction site [polypeptide binding]; other site 414684001870 putative EF-G interaction site [polypeptide binding]; other site 414684001871 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 414684001872 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 414684001873 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 414684001874 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 414684001875 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 414684001876 RPB12 interaction site [polypeptide binding]; other site 414684001877 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 414684001878 RPB1 interaction site [polypeptide binding]; other site 414684001879 RPB11 interaction site [polypeptide binding]; other site 414684001880 RPB10 interaction site [polypeptide binding]; other site 414684001881 RPB3 interaction site [polypeptide binding]; other site 414684001882 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 414684001883 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 414684001884 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 414684001885 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 414684001886 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 414684001887 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 414684001888 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 414684001889 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 414684001890 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 414684001891 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 414684001892 DNA binding site [nucleotide binding] 414684001893 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 414684001894 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 414684001895 non-specific DNA binding site [nucleotide binding]; other site 414684001896 salt bridge; other site 414684001897 sequence-specific DNA binding site [nucleotide binding]; other site 414684001898 HipA N-terminal domain; Region: Couple_hipA; cl11853 414684001899 HipA-like N-terminal domain; Region: HipA_N; pfam07805 414684001900 HipA-like C-terminal domain; Region: HipA_C; pfam07804 414684001901 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 414684001902 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 414684001903 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 414684001904 FeS/SAM binding site; other site 414684001905 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 414684001906 S17 interaction site [polypeptide binding]; other site 414684001907 S8 interaction site; other site 414684001908 16S rRNA interaction site [nucleotide binding]; other site 414684001909 streptomycin interaction site [chemical binding]; other site 414684001910 23S rRNA interaction site [nucleotide binding]; other site 414684001911 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 414684001912 30S ribosomal protein S7; Validated; Region: PRK05302 414684001913 elongation factor G; Reviewed; Region: PRK00007 414684001914 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 414684001915 G1 box; other site 414684001916 putative GEF interaction site [polypeptide binding]; other site 414684001917 GTP/Mg2+ binding site [chemical binding]; other site 414684001918 Switch I region; other site 414684001919 G2 box; other site 414684001920 G3 box; other site 414684001921 Switch II region; other site 414684001922 G4 box; other site 414684001923 G5 box; other site 414684001924 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 414684001925 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 414684001926 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 414684001927 elongation factor Tu; Reviewed; Region: PRK00049 414684001928 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 414684001929 G1 box; other site 414684001930 GEF interaction site [polypeptide binding]; other site 414684001931 GTP/Mg2+ binding site [chemical binding]; other site 414684001932 Switch I region; other site 414684001933 G2 box; other site 414684001934 G3 box; other site 414684001935 Switch II region; other site 414684001936 G4 box; other site 414684001937 G5 box; other site 414684001938 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 414684001939 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 414684001940 Antibiotic Binding Site [chemical binding]; other site 414684001941 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 414684001942 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 414684001943 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 414684001944 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 414684001945 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 414684001946 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 414684001947 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 414684001948 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 414684001949 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 414684001950 putative translocon binding site; other site 414684001951 protein-rRNA interface [nucleotide binding]; other site 414684001952 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 414684001953 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 414684001954 G-X-X-G motif; other site 414684001955 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 414684001956 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 414684001957 23S rRNA interface [nucleotide binding]; other site 414684001958 5S rRNA interface [nucleotide binding]; other site 414684001959 putative antibiotic binding site [chemical binding]; other site 414684001960 L25 interface [polypeptide binding]; other site 414684001961 L27 interface [polypeptide binding]; other site 414684001962 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 414684001963 23S rRNA interface [nucleotide binding]; other site 414684001964 putative translocon interaction site; other site 414684001965 signal recognition particle (SRP54) interaction site; other site 414684001966 L23 interface [polypeptide binding]; other site 414684001967 trigger factor interaction site; other site 414684001968 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 414684001969 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 414684001970 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 414684001971 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 414684001972 RNA binding site [nucleotide binding]; other site 414684001973 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 414684001974 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 414684001975 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 414684001976 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 414684001977 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 414684001978 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 414684001979 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 414684001980 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 414684001981 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 414684001982 23S rRNA interface [nucleotide binding]; other site 414684001983 L21e interface [polypeptide binding]; other site 414684001984 5S rRNA interface [nucleotide binding]; other site 414684001985 L27 interface [polypeptide binding]; other site 414684001986 L5 interface [polypeptide binding]; other site 414684001987 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 414684001988 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 414684001989 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 414684001990 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 414684001991 23S rRNA binding site [nucleotide binding]; other site 414684001992 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 414684001993 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 414684001994 SecY translocase; Region: SecY; pfam00344 414684001995 adenylate kinase; Reviewed; Region: adk; PRK00279 414684001996 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 414684001997 AMP-binding site [chemical binding]; other site 414684001998 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 414684001999 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 414684002000 30S ribosomal protein S13; Region: bact_S13; TIGR03631 414684002001 30S ribosomal protein S11; Validated; Region: PRK05309 414684002002 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 414684002003 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 414684002004 alphaNTD - beta interaction site [polypeptide binding]; other site 414684002005 alphaNTD homodimer interface [polypeptide binding]; other site 414684002006 alphaNTD - beta' interaction site [polypeptide binding]; other site 414684002007 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 414684002008 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 414684002009 PRC-barrel domain; Region: PRC; pfam05239 414684002010 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 414684002011 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 414684002012 VacJ like lipoprotein; Region: VacJ; cl01073 414684002013 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 414684002014 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 414684002015 acyl-CoA synthetase; Validated; Region: PRK09192 414684002016 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 414684002017 acyl-activating enzyme (AAE) consensus motif; other site 414684002018 active site 414684002019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684002020 NAD(P) binding site [chemical binding]; other site 414684002021 active site 414684002022 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 414684002023 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 414684002024 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 414684002025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684002026 catalytic residue [active] 414684002027 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 414684002028 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 414684002029 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 414684002030 putative active site [active] 414684002031 putative metal binding site [ion binding]; other site 414684002032 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 414684002033 Predicted permeases [General function prediction only]; Region: COG0795 414684002034 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684002035 Predicted permeases [General function prediction only]; Region: COG0795 414684002036 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684002037 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 414684002038 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 414684002039 active site 414684002040 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684002041 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 414684002042 AsnC family; Region: AsnC_trans_reg; pfam01037 414684002043 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 414684002044 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 414684002045 hexamer interface [polypeptide binding]; other site 414684002046 ligand binding site [chemical binding]; other site 414684002047 putative active site [active] 414684002048 NAD(P) binding site [chemical binding]; other site 414684002049 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684002050 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684002051 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 414684002052 Putative phosphatase (DUF442); Region: DUF442; cl17385 414684002053 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 414684002054 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 414684002055 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 414684002056 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 414684002057 catalytic core [active] 414684002058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684002059 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 414684002060 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 414684002061 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 414684002062 active site 414684002063 Substrate binding site; other site 414684002064 Mg++ binding site; other site 414684002065 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 414684002066 S-adenosylmethionine binding site [chemical binding]; other site 414684002067 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 414684002068 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 414684002069 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 414684002070 putative ADP-binding pocket [chemical binding]; other site 414684002071 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684002072 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 414684002073 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 414684002074 putative catalytic site [active] 414684002075 putative metal binding site [ion binding]; other site 414684002076 putative phosphate binding site [ion binding]; other site 414684002077 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 414684002078 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 414684002079 tetramer interface [polypeptide binding]; other site 414684002080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002081 catalytic residue [active] 414684002082 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 414684002083 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 414684002084 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 414684002085 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 414684002086 Subunit I/III interface [polypeptide binding]; other site 414684002087 D-pathway; other site 414684002088 Subunit I/VIIc interface [polypeptide binding]; other site 414684002089 Subunit I/IV interface [polypeptide binding]; other site 414684002090 Subunit I/II interface [polypeptide binding]; other site 414684002091 Low-spin heme (heme a) binding site [chemical binding]; other site 414684002092 Subunit I/VIIa interface [polypeptide binding]; other site 414684002093 Subunit I/VIa interface [polypeptide binding]; other site 414684002094 Dimer interface; other site 414684002095 Putative water exit pathway; other site 414684002096 Binuclear center (heme a3/CuB) [ion binding]; other site 414684002097 K-pathway; other site 414684002098 Subunit I/Vb interface [polypeptide binding]; other site 414684002099 Putative proton exit pathway; other site 414684002100 Subunit I/VIb interface; other site 414684002101 Subunit I/VIc interface [polypeptide binding]; other site 414684002102 Electron transfer pathway; other site 414684002103 Subunit I/VIIIb interface [polypeptide binding]; other site 414684002104 Subunit I/VIIb interface [polypeptide binding]; other site 414684002105 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684002106 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684002107 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684002108 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684002109 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 414684002110 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 414684002111 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 414684002112 dimer interface [polypeptide binding]; other site 414684002113 putative functional site; other site 414684002114 putative MPT binding site; other site 414684002115 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 414684002116 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 414684002117 P-loop; other site 414684002118 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 414684002119 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 414684002120 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 414684002121 FHIPEP family; Region: FHIPEP; pfam00771 414684002122 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 414684002123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 414684002124 active site 414684002125 phosphorylation site [posttranslational modification] 414684002126 intermolecular recognition site; other site 414684002127 dimerization interface [polypeptide binding]; other site 414684002128 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 414684002129 Walker A motif; other site 414684002130 ATP binding site [chemical binding]; other site 414684002131 Walker B motif; other site 414684002132 arginine finger; other site 414684002133 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 414684002134 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684002135 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 414684002136 Flagellar assembly protein FliH; Region: FliH; pfam02108 414684002137 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 414684002138 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 414684002139 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 414684002140 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 414684002141 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 414684002142 putative active site [active] 414684002143 catalytic site [active] 414684002144 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 414684002145 putative active site [active] 414684002146 catalytic site [active] 414684002147 CsbD-like; Region: CsbD; pfam05532 414684002148 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 414684002149 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 414684002150 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684002151 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 414684002152 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 414684002153 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 414684002154 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 414684002155 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 414684002156 binding surface 414684002157 TPR motif; other site 414684002158 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 414684002159 binding surface 414684002160 TPR motif; other site 414684002161 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 414684002162 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 414684002163 putative active site [active] 414684002164 putative dimer interface [polypeptide binding]; other site 414684002165 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684002166 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 414684002167 N-terminal plug; other site 414684002168 ligand-binding site [chemical binding]; other site 414684002169 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 414684002170 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 414684002171 methionine sulfoxide reductase A; Provisional; Region: PRK00058 414684002172 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 414684002173 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684002174 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 414684002175 Protein export membrane protein; Region: SecD_SecF; cl14618 414684002176 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 414684002177 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 414684002178 NAD binding site [chemical binding]; other site 414684002179 substrate binding site [chemical binding]; other site 414684002180 homodimer interface [polypeptide binding]; other site 414684002181 active site 414684002182 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 414684002183 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 414684002184 substrate binding site; other site 414684002185 tetramer interface; other site 414684002186 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 414684002187 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 414684002188 active site 414684002189 motif I; other site 414684002190 motif II; other site 414684002191 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 414684002192 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 414684002193 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 414684002194 Walker A/P-loop; other site 414684002195 ATP binding site [chemical binding]; other site 414684002196 Q-loop/lid; other site 414684002197 ABC transporter signature motif; other site 414684002198 Walker B; other site 414684002199 D-loop; other site 414684002200 H-loop/switch region; other site 414684002201 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 414684002202 putative carbohydrate binding site [chemical binding]; other site 414684002203 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 414684002204 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 414684002205 inhibitor-cofactor binding pocket; inhibition site 414684002206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002207 catalytic residue [active] 414684002208 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684002209 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 414684002210 active site 414684002211 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684002212 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 414684002213 active site 414684002214 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684002215 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 414684002216 Probable Catalytic site; other site 414684002217 metal-binding site 414684002218 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 414684002219 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 414684002220 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684002221 non-specific DNA binding site [nucleotide binding]; other site 414684002222 salt bridge; other site 414684002223 sequence-specific DNA binding site [nucleotide binding]; other site 414684002224 Methyltransferase domain; Region: Methyltransf_12; pfam08242 414684002225 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 414684002226 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 414684002227 active site 414684002228 dimer interface [polypeptide binding]; other site 414684002229 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 414684002230 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 414684002231 putative trimer interface [polypeptide binding]; other site 414684002232 putative CoA binding site [chemical binding]; other site 414684002233 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684002234 MarR family; Region: MarR; pfam01047 414684002235 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 414684002236 Domain of unknown function (DUF892); Region: DUF892; pfam05974 414684002237 transcription termination factor, pseudogene;identified by match to protein family HMM PF00353 414684002238 fructokinase; Reviewed; Region: PRK09557 414684002239 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 414684002240 nucleotide binding site [chemical binding]; other site 414684002241 AzlC protein; Region: AzlC; pfam03591 414684002242 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 414684002243 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 414684002244 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 414684002245 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 414684002246 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002247 ligand binding site [chemical binding]; other site 414684002248 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 414684002249 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 414684002250 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002251 ligand binding site [chemical binding]; other site 414684002252 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684002253 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 414684002254 DNA binding residues [nucleotide binding] 414684002255 dimerization interface [polypeptide binding]; other site 414684002256 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684002257 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 414684002258 DNA binding residues [nucleotide binding] 414684002259 dimerization interface [polypeptide binding]; other site 414684002260 Phasin protein; Region: Phasin_2; cl11491 414684002261 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 414684002262 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 414684002263 EamA-like transporter family; Region: EamA; pfam00892 414684002264 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 414684002265 N-acetyl-D-glucosamine binding site [chemical binding]; other site 414684002266 catalytic residue [active] 414684002267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 414684002268 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 414684002269 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 414684002270 S-adenosylmethionine binding site [chemical binding]; other site 414684002271 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 414684002272 LrgA family; Region: LrgA; pfam03788 414684002273 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684002274 putative active site [active] 414684002275 putative metal binding site [ion binding]; other site 414684002276 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 414684002277 short chain dehydrogenase; Provisional; Region: PRK06701 414684002278 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 414684002279 NAD binding site [chemical binding]; other site 414684002280 metal binding site [ion binding]; metal-binding site 414684002281 active site 414684002282 RNA polymerase sigma factor; Provisional; Region: PRK12547 414684002283 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684002284 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 414684002285 DNA binding residues [nucleotide binding] 414684002286 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 414684002287 homodimer interface [polypeptide binding]; other site 414684002288 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 414684002289 active site pocket [active] 414684002290 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 414684002291 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 414684002292 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 414684002293 active site 414684002294 SnoaL-like domain; Region: SnoaL_2; pfam12680 414684002295 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 414684002296 DEAD-like helicases superfamily; Region: DEXDc; smart00487 414684002297 ATP binding site [chemical binding]; other site 414684002298 Mg++ binding site [ion binding]; other site 414684002299 motif III; other site 414684002300 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 414684002301 nucleotide binding region [chemical binding]; other site 414684002302 ATP-binding site [chemical binding]; other site 414684002303 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 414684002304 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 414684002305 G1 box; other site 414684002306 putative GEF interaction site [polypeptide binding]; other site 414684002307 GTP/Mg2+ binding site [chemical binding]; other site 414684002308 Switch I region; other site 414684002309 G2 box; other site 414684002310 G3 box; other site 414684002311 Switch II region; other site 414684002312 G4 box; other site 414684002313 G5 box; other site 414684002314 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 414684002315 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002316 dimer interface [polypeptide binding]; other site 414684002317 putative CheW interface [polypeptide binding]; other site 414684002318 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 414684002319 putative active site pocket [active] 414684002320 dimerization interface [polypeptide binding]; other site 414684002321 putative catalytic residue [active] 414684002322 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 414684002323 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 414684002324 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 414684002325 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 414684002326 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 414684002327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 414684002328 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 414684002329 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 414684002330 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 414684002331 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 414684002332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 414684002333 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 414684002334 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 414684002335 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 414684002336 Uncharacterized conserved protein [Function unknown]; Region: COG3334 414684002337 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 414684002338 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684002339 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 414684002340 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002341 ligand binding site [chemical binding]; other site 414684002342 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 414684002343 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 414684002344 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 414684002345 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 414684002346 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 414684002347 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 414684002348 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684002349 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 414684002350 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 414684002351 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 414684002352 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 414684002353 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 414684002354 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684002355 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684002356 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 414684002357 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 414684002358 putative active site [active] 414684002359 heme pocket [chemical binding]; other site 414684002360 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684002361 dimer interface [polypeptide binding]; other site 414684002362 phosphorylation site [posttranslational modification] 414684002363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684002364 ATP binding site [chemical binding]; other site 414684002365 Mg2+ binding site [ion binding]; other site 414684002366 G-X-G motif; other site 414684002367 Response regulator receiver domain; Region: Response_reg; pfam00072 414684002368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002369 active site 414684002370 phosphorylation site [posttranslational modification] 414684002371 intermolecular recognition site; other site 414684002372 dimerization interface [polypeptide binding]; other site 414684002373 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 414684002374 HAMP domain; Region: HAMP; pfam00672 414684002375 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684002376 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002377 dimer interface [polypeptide binding]; other site 414684002378 putative CheW interface [polypeptide binding]; other site 414684002379 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 414684002380 HAMP domain; Region: HAMP; pfam00672 414684002381 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684002382 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002383 dimer interface [polypeptide binding]; other site 414684002384 putative CheW interface [polypeptide binding]; other site 414684002385 recombinase A; Provisional; Region: recA; PRK09354 414684002386 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 414684002387 hexamer interface [polypeptide binding]; other site 414684002388 Walker A motif; other site 414684002389 ATP binding site [chemical binding]; other site 414684002390 Walker B motif; other site 414684002391 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 414684002392 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 414684002393 motif 1; other site 414684002394 active site 414684002395 motif 2; other site 414684002396 motif 3; other site 414684002397 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 414684002398 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684002399 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 414684002400 Walker A motif; other site 414684002401 ATP binding site [chemical binding]; other site 414684002402 Walker B motif; other site 414684002403 arginine finger; other site 414684002404 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 414684002405 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 414684002406 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 414684002407 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 414684002408 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 414684002409 cyclase homology domain; Region: CHD; cd07302 414684002410 nucleotidyl binding site; other site 414684002411 metal binding site [ion binding]; metal-binding site 414684002412 dimer interface [polypeptide binding]; other site 414684002413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 414684002414 isocitrate dehydrogenase; Validated; Region: PRK09222 414684002415 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 414684002416 GcrA cell cycle regulator; Region: GcrA; cl11564 414684002417 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 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 PAS domain; Region: PAS; smart00091 414684002422 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684002423 putative active site [active] 414684002424 heme pocket [chemical binding]; other site 414684002425 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 414684002426 putative active site [active] 414684002427 heme pocket [chemical binding]; other site 414684002428 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684002429 HWE histidine kinase; Region: HWE_HK; smart00911 414684002430 RES domain; Region: RES; pfam08808 414684002431 isocitrate dehydrogenase, NADP-dependent, pseudogene;synonym identified by match to protein family HMM PF03781 414684002432 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 414684002433 Cytochrome C' Region: Cytochrom_C_2; pfam01322 414684002434 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 414684002435 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 414684002436 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 414684002437 active site 2 [active] 414684002438 active site 1 [active] 414684002439 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 414684002440 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 414684002441 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684002442 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 414684002443 active site 414684002444 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684002445 TSCPD domain; Region: TSCPD; pfam12637 414684002446 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 414684002447 Predicted integral membrane protein [Function unknown]; Region: COG0392 414684002448 NADH dehydrogenase; Validated; Region: PRK08183 414684002449 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 414684002450 mce related protein; Region: MCE; pfam02470 414684002451 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 414684002452 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 414684002453 S-adenosylmethionine binding site [chemical binding]; other site 414684002454 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684002455 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 414684002456 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 414684002457 dimerization interface [polypeptide binding]; other site 414684002458 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684002459 dimer interface [polypeptide binding]; other site 414684002460 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684002461 putative CheW interface [polypeptide binding]; other site 414684002462 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 414684002463 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684002464 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 414684002465 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 414684002466 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 414684002467 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 414684002468 carboxyltransferase (CT) interaction site; other site 414684002469 biotinylation site [posttranslational modification]; other site 414684002470 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 414684002471 Dehydroquinase class II; Region: DHquinase_II; pfam01220 414684002472 active site 414684002473 trimer interface [polypeptide binding]; other site 414684002474 dimer interface [polypeptide binding]; other site 414684002475 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 414684002476 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 414684002477 catalytic residues [active] 414684002478 Peptidase family M48; Region: Peptidase_M48; cl12018 414684002479 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 414684002480 binding surface 414684002481 Tetratricopeptide repeat; Region: TPR_16; pfam13432 414684002482 TPR motif; other site 414684002483 aspartate aminotransferase; Provisional; Region: PRK05764 414684002484 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 414684002485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002486 homodimer interface [polypeptide binding]; other site 414684002487 catalytic residue [active] 414684002488 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 414684002489 putative protease; Provisional; Region: PRK15447 414684002490 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 414684002491 Peptidase family U32; Region: Peptidase_U32; pfam01136 414684002492 SCP-2 sterol transfer family; Region: SCP2; cl01225 414684002493 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684002494 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 414684002495 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 414684002496 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 414684002497 Ligand Binding Site [chemical binding]; other site 414684002498 Winged helix-turn helix; Region: HTH_33; pfam13592 414684002499 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 414684002500 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 414684002501 Surface antigen; Region: Bac_surface_Ag; pfam01103 414684002502 haemagglutination activity domain; Region: Haemagg_act; pfam05860 414684002503 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 414684002504 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 414684002505 binding surface 414684002506 TPR motif; other site 414684002507 TPR repeat; Region: TPR_11; pfam13414 414684002508 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 414684002509 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684002510 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 414684002511 N-terminal plug; other site 414684002512 ligand-binding site [chemical binding]; other site 414684002513 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684002514 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 414684002515 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684002516 muropeptide transporter; Reviewed; Region: ampG; PRK11902 414684002517 muropeptide transporter; Validated; Region: ampG; cl17669 414684002518 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 414684002519 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 414684002520 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 414684002521 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 414684002522 active site 414684002523 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 414684002524 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 414684002525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002526 active site 414684002527 phosphorylation site [posttranslational modification] 414684002528 intermolecular recognition site; other site 414684002529 dimerization interface [polypeptide binding]; other site 414684002530 GAF domain; Region: GAF; cl17456 414684002531 PAS domain S-box; Region: sensory_box; TIGR00229 414684002532 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 414684002533 putative active site [active] 414684002534 heme pocket [chemical binding]; other site 414684002535 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684002536 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684002537 metal binding site [ion binding]; metal-binding site 414684002538 active site 414684002539 I-site; other site 414684002540 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 414684002541 NAD synthetase; Provisional; Region: PRK13981 414684002542 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 414684002543 multimer interface [polypeptide binding]; other site 414684002544 active site 414684002545 catalytic triad [active] 414684002546 protein interface 1 [polypeptide binding]; other site 414684002547 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 414684002548 homodimer interface [polypeptide binding]; other site 414684002549 NAD binding pocket [chemical binding]; other site 414684002550 ATP binding pocket [chemical binding]; other site 414684002551 Mg binding site [ion binding]; other site 414684002552 active-site loop [active] 414684002553 FAD dependent oxidoreductase, pseudogene;[contains] Rieske [2Fe-2S] domain 414684002554 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 414684002555 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 414684002556 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 414684002557 peptide binding site [polypeptide binding]; other site 414684002558 dimer interface [polypeptide binding]; other site 414684002559 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 414684002560 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 414684002561 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 414684002562 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 414684002563 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 414684002564 active site 414684002565 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 414684002566 dimerization interface [polypeptide binding]; other site 414684002567 metal binding site [ion binding]; metal-binding site 414684002568 Heavy-metal resistance; Region: Metal_resist; pfam13801 414684002569 RNA polymerase sigma factor; Reviewed; Region: PRK05602 414684002570 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684002571 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 414684002572 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 414684002573 EF-hand domain pair; Region: EF_hand_5; pfam13499 414684002574 pseudo EF-hand loop; other site 414684002575 peptide binding pocket; other site 414684002576 Ca2+ binding site [ion binding]; other site 414684002577 enoyl-CoA hydratase; Provisional; Region: PRK06127 414684002578 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 414684002579 substrate binding site [chemical binding]; other site 414684002580 oxyanion hole (OAH) forming residues; other site 414684002581 trimer interface [polypeptide binding]; other site 414684002582 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 414684002583 S-adenosylmethionine binding site [chemical binding]; other site 414684002584 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 414684002585 cyclase homology domain; Region: CHD; cd07302 414684002586 nucleotidyl binding site; other site 414684002587 metal binding site [ion binding]; metal-binding site 414684002588 dimer interface [polypeptide binding]; other site 414684002589 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 414684002590 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 414684002591 active site 414684002592 HIGH motif; other site 414684002593 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 414684002594 active site 414684002595 KMSKS motif; other site 414684002596 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 414684002597 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 414684002598 active site 414684002599 HIGH motif; other site 414684002600 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 414684002601 KMSKS motif; other site 414684002602 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 414684002603 tRNA binding surface [nucleotide binding]; other site 414684002604 anticodon binding site; other site 414684002605 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 414684002606 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 414684002607 active site 414684002608 catalytic residues [active] 414684002609 metal binding site [ion binding]; metal-binding site 414684002610 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 414684002611 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 414684002612 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 414684002613 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 414684002614 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 414684002615 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 414684002616 RNA binding surface [nucleotide binding]; other site 414684002617 Transposase domain (DUF772); Region: DUF772; pfam05598 414684002618 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 414684002619 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684002620 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 414684002621 Transposase domain (DUF772); Region: DUF772; pfam05598 414684002622 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 414684002623 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 414684002624 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 414684002625 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 414684002626 putative GSH binding site [chemical binding]; other site 414684002627 catalytic residues [active] 414684002628 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 414684002629 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 414684002630 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 414684002631 dimerization interface [polypeptide binding]; other site 414684002632 ATP binding site [chemical binding]; other site 414684002633 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 414684002634 dimerization interface [polypeptide binding]; other site 414684002635 ATP binding site [chemical binding]; other site 414684002636 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 414684002637 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 414684002638 putative active site [active] 414684002639 catalytic triad [active] 414684002640 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 414684002641 Na binding site [ion binding]; other site 414684002642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684002643 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684002644 dimer interface [polypeptide binding]; other site 414684002645 phosphorylation site [posttranslational modification] 414684002646 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684002647 ATP binding site [chemical binding]; other site 414684002648 Mg2+ binding site [ion binding]; other site 414684002649 G-X-G motif; other site 414684002650 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 414684002651 PAS domain; Region: PAS_9; pfam13426 414684002652 putative active site [active] 414684002653 heme pocket [chemical binding]; other site 414684002654 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 414684002655 active site 414684002656 catalytic site [active] 414684002657 substrate binding site [chemical binding]; other site 414684002658 Response regulator receiver domain; Region: Response_reg; pfam00072 414684002659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002660 active site 414684002661 phosphorylation site [posttranslational modification] 414684002662 intermolecular recognition site; other site 414684002663 dimerization interface [polypeptide binding]; other site 414684002664 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 414684002665 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 414684002666 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 414684002667 Protein export membrane protein; Region: SecD_SecF; pfam02355 414684002668 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 414684002669 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 414684002670 substrate-cofactor binding pocket; other site 414684002671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002672 catalytic residue [active] 414684002673 aminotransferase; Provisional; Region: PRK06105 414684002674 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 414684002675 inhibitor-cofactor binding pocket; inhibition site 414684002676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002677 catalytic residue [active] 414684002678 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684002679 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684002680 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 414684002681 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 414684002682 DNA-binding site [nucleotide binding]; DNA binding site 414684002683 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 414684002684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684002685 homodimer interface [polypeptide binding]; other site 414684002686 osmolarity response regulator; Provisional; Region: ompR; PRK09468 414684002687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684002688 active site 414684002689 phosphorylation site [posttranslational modification] 414684002690 intermolecular recognition site; other site 414684002691 dimerization interface [polypeptide binding]; other site 414684002692 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 414684002693 DNA binding site [nucleotide binding] 414684002694 HAMP domain; Region: HAMP; pfam00672 414684002695 dimerization interface [polypeptide binding]; other site 414684002696 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684002697 dimer interface [polypeptide binding]; other site 414684002698 phosphorylation site [posttranslational modification] 414684002699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684002700 ATP binding site [chemical binding]; other site 414684002701 Mg2+ binding site [ion binding]; other site 414684002702 G-X-G motif; other site 414684002703 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 414684002704 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 414684002705 metal binding site [ion binding]; metal-binding site 414684002706 putative dimer interface [polypeptide binding]; other site 414684002707 PrcB C-terminal; Region: PrcB_C; pfam14343 414684002708 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684002709 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 414684002710 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684002711 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684002712 ligand binding site [chemical binding]; other site 414684002713 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684002714 Predicted membrane protein [Function unknown]; Region: COG1238 414684002715 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 414684002716 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 414684002717 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 414684002718 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 414684002719 Protein export membrane protein; Region: SecD_SecF; pfam02355 414684002720 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684002721 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 414684002722 DNA binding residues [nucleotide binding] 414684002723 dimer interface [polypeptide binding]; other site 414684002724 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684002725 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 414684002726 active site 414684002727 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684002728 substrate binding site [chemical binding]; other site 414684002729 catalytic residues [active] 414684002730 dimer interface [polypeptide binding]; other site 414684002731 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 414684002732 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 414684002733 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684002734 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 414684002735 FAD binding site [chemical binding]; other site 414684002736 substrate binding site [chemical binding]; other site 414684002737 catalytic base [active] 414684002738 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 414684002739 putative catalytic site [active] 414684002740 putative metal binding site [ion binding]; other site 414684002741 putative phosphate binding site [ion binding]; other site 414684002742 Uncharacterized conserved protein [Function unknown]; Region: COG3791 414684002743 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 414684002744 putative catalytic site [active] 414684002745 putative phosphate binding site [ion binding]; other site 414684002746 active site 414684002747 metal binding site A [ion binding]; metal-binding site 414684002748 DNA binding site [nucleotide binding] 414684002749 putative AP binding site [nucleotide binding]; other site 414684002750 putative metal binding site B [ion binding]; other site 414684002751 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 414684002752 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 414684002753 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 414684002754 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 414684002755 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 414684002756 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 414684002757 active site 414684002758 HIGH motif; other site 414684002759 KMSK motif region; other site 414684002760 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 414684002761 tRNA binding surface [nucleotide binding]; other site 414684002762 anticodon binding site; other site 414684002763 Sporulation related domain; Region: SPOR; pfam05036 414684002764 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 414684002765 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 414684002766 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 414684002767 Peptidase family M50; Region: Peptidase_M50; pfam02163 414684002768 active site 414684002769 putative substrate binding region [chemical binding]; other site 414684002770 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 414684002771 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 414684002772 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 414684002773 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 414684002774 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 414684002775 seryl-tRNA synthetase; Provisional; Region: PRK05431 414684002776 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 414684002777 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 414684002778 dimer interface [polypeptide binding]; other site 414684002779 active site 414684002780 motif 1; other site 414684002781 motif 2; other site 414684002782 motif 3; other site 414684002783 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 414684002784 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 414684002785 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 414684002786 S-adenosylmethionine binding site [chemical binding]; other site 414684002787 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 414684002788 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 414684002789 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 414684002790 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 414684002791 Peptidase family M23; Region: Peptidase_M23; pfam01551 414684002792 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 414684002793 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 414684002794 Protein of unknown function (DUF815); Region: DUF815; pfam05673 414684002795 Preprotein translocase subunit; Region: YajC; pfam02699 414684002796 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 414684002797 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 414684002798 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 414684002799 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 414684002800 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 414684002801 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 414684002802 substrate binding pocket [chemical binding]; other site 414684002803 substrate-Mg2+ binding site; other site 414684002804 aspartate-rich region 1; other site 414684002805 aspartate-rich region 2; other site 414684002806 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 414684002807 active site lid residues [active] 414684002808 catalytic residues [active] 414684002809 substrate binding pocket [chemical binding]; other site 414684002810 substrate-Mg2+ binding site; other site 414684002811 aspartate-rich region 1; other site 414684002812 aspartate-rich region 2; other site 414684002813 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 414684002814 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 414684002815 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 414684002816 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 414684002817 substrate binding pocket [chemical binding]; other site 414684002818 substrate-Mg2+ binding site; other site 414684002819 aspartate-rich region 1; other site 414684002820 aspartate-rich region 2; other site 414684002821 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 414684002822 Glucose inhibited division protein A; Region: GIDA; pfam01134 414684002823 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 414684002824 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 414684002825 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 414684002826 dimerization interface [polypeptide binding]; other site 414684002827 ligand binding site [chemical binding]; other site 414684002828 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 414684002829 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 414684002830 dimerization interface [polypeptide binding]; other site 414684002831 ligand binding site [chemical binding]; other site 414684002832 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 414684002833 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684002834 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 414684002835 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 414684002836 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 414684002837 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 414684002838 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 414684002839 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 414684002840 dimer interface [polypeptide binding]; other site 414684002841 ssDNA binding site [nucleotide binding]; other site 414684002842 tetramer (dimer of dimers) interface [polypeptide binding]; other site 414684002843 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 414684002844 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 414684002845 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 414684002846 cation binding site [ion binding]; other site 414684002847 DNA gyrase subunit A; Validated; Region: PRK05560 414684002848 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 414684002849 CAP-like domain; other site 414684002850 active site 414684002851 primary dimer interface [polypeptide binding]; other site 414684002852 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002853 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002854 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002855 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002856 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002857 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 414684002858 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 414684002859 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 414684002860 active site 414684002861 (T/H)XGH motif; other site 414684002862 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 414684002863 Sel1-like repeats; Region: SEL1; smart00671 414684002864 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 414684002865 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 414684002866 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684002867 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 414684002868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 414684002869 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 414684002870 Walker A/P-loop; other site 414684002871 ATP binding site [chemical binding]; other site 414684002872 Q-loop/lid; other site 414684002873 ABC transporter signature motif; other site 414684002874 Walker B; other site 414684002875 D-loop; other site 414684002876 H-loop/switch region; other site 414684002877 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 414684002878 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 414684002879 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684002880 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 414684002881 putative MPT binding site; other site 414684002882 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 414684002883 Ligand binding site; other site 414684002884 metal-binding site 414684002885 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 414684002886 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 414684002887 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 414684002888 metal ion-dependent adhesion site (MIDAS); other site 414684002889 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684002890 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 414684002891 Walker A motif; other site 414684002892 ATP binding site [chemical binding]; other site 414684002893 Walker B motif; other site 414684002894 arginine finger; other site 414684002895 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 414684002896 FAD binding domain; Region: FAD_binding_4; pfam01565 414684002897 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 414684002898 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 414684002899 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 414684002900 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 414684002901 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 414684002902 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 414684002903 catalytic loop [active] 414684002904 iron binding site [ion binding]; other site 414684002905 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 414684002906 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 414684002907 putative hydrophobic ligand binding site [chemical binding]; other site 414684002908 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 414684002909 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 414684002910 transmembrane helices; other site 414684002911 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 414684002912 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 414684002913 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 414684002914 S-adenosylmethionine binding site [chemical binding]; other site 414684002915 EamA-like transporter family; Region: EamA; pfam00892 414684002916 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 414684002917 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 414684002918 Winged helix-turn helix; Region: HTH_29; pfam13551 414684002919 Integrase core domain; Region: rve; pfam00665 414684002920 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 414684002921 AAA domain; Region: AAA_22; pfam13401 414684002922 phage-related chromosomal replication initiator protein, pseudogene;part of the putative prophage RcenMu genome 414684002923 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 414684002924 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684002925 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 414684002926 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 414684002927 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 414684002928 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 414684002929 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 414684002930 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 414684002931 Protein of unknown function (DUF935); Region: DUF935; pfam06074 414684002932 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 414684002933 Glycerate kinase family; Region: Gly_kinase; cl00841 414684002934 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 414684002935 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 414684002936 Gp37 protein; Region: Gp37; pfam09646 414684002937 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 414684002938 Phage tail tube protein FII; Region: Phage_tube; pfam04985 414684002939 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 414684002940 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 414684002941 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 414684002942 Phage Tail Protein X; Region: Phage_tail_X; cl02088 414684002943 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 414684002944 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 414684002945 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 414684002946 Baseplate J-like protein; Region: Baseplate_J; cl01294 414684002947 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 414684002948 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 414684002949 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 414684002950 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 414684002951 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 414684002952 putative active site [active] 414684002953 putative NTP binding site [chemical binding]; other site 414684002954 putative nucleic acid binding site [nucleotide binding]; other site 414684002955 Predicted ATPase [General function prediction only]; Region: COG5293 414684002956 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 414684002957 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 414684002958 non-specific DNA binding site [nucleotide binding]; other site 414684002959 salt bridge; other site 414684002960 sequence-specific DNA binding site [nucleotide binding]; other site 414684002961 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 414684002962 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 414684002963 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 414684002964 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684002965 catalytic residue [active] 414684002966 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 414684002967 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 414684002968 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 414684002969 active site residue [active] 414684002970 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 414684002971 active site residue [active] 414684002972 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 414684002973 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 414684002974 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 414684002975 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 414684002976 dimer interface [polypeptide binding]; other site 414684002977 ADP-ribose binding site [chemical binding]; other site 414684002978 active site 414684002979 nudix motif; other site 414684002980 metal binding site [ion binding]; metal-binding site 414684002981 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 414684002982 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 414684002983 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 414684002984 dimer interface [polypeptide binding]; other site 414684002985 active site 414684002986 ADP-ribose binding site [chemical binding]; other site 414684002987 nudix motif; other site 414684002988 metal binding site [ion binding]; metal-binding site 414684002989 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 414684002990 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684002991 Methyltransferase domain; Region: Methyltransf_18; pfam12847 414684002992 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 414684002993 active site residue [active] 414684002994 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 414684002995 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 414684002996 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 414684002997 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 414684002998 HIGH motif; other site 414684002999 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 414684003000 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 414684003001 active site 414684003002 KMSKS motif; other site 414684003003 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 414684003004 tRNA binding surface [nucleotide binding]; other site 414684003005 anticodon binding site; other site 414684003006 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 414684003007 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 414684003008 Uncharacterized conserved protein [Function unknown]; Region: COG1434 414684003009 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 414684003010 putative active site [active] 414684003011 Transglycosylase SLT domain; Region: SLT_2; pfam13406 414684003012 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 414684003013 N-acetyl-D-glucosamine binding site [chemical binding]; other site 414684003014 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 414684003015 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 414684003016 Sporulation related domain; Region: SPOR; pfam05036 414684003017 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 414684003018 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 414684003019 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 414684003020 DNA polymerase III subunit delta'; Validated; Region: PRK07471 414684003021 DNA polymerase III subunit delta'; Validated; Region: PRK08485 414684003022 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 414684003023 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 414684003024 active site 414684003025 HIGH motif; other site 414684003026 KMSKS motif; other site 414684003027 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 414684003028 tRNA binding surface [nucleotide binding]; other site 414684003029 anticodon binding site; other site 414684003030 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 414684003031 active site 414684003032 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 414684003033 putative hydrolase; Provisional; Region: PRK02113 414684003034 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684003035 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684003036 dimer interface [polypeptide binding]; other site 414684003037 phosphorylation site [posttranslational modification] 414684003038 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684003039 ATP binding site [chemical binding]; other site 414684003040 Mg2+ binding site [ion binding]; other site 414684003041 G-X-G motif; other site 414684003042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003043 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684003044 active site 414684003045 phosphorylation site [posttranslational modification] 414684003046 intermolecular recognition site; other site 414684003047 dimerization interface [polypeptide binding]; other site 414684003048 circadian clock protein KaiC; Reviewed; Region: PRK09302 414684003049 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 414684003050 Walker A motif; other site 414684003051 ATP binding site [chemical binding]; other site 414684003052 Walker B motif; other site 414684003053 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 414684003054 Walker A motif; other site 414684003055 ATP binding site [chemical binding]; other site 414684003056 Walker B motif; other site 414684003057 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 414684003058 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 414684003059 N-terminal plug; other site 414684003060 ligand-binding site [chemical binding]; other site 414684003061 Predicted transcriptional regulators [Transcription]; Region: COG1733 414684003062 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 414684003063 Predicted transcriptional regulators [Transcription]; Region: COG1733 414684003064 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 414684003065 HAMP domain; Region: HAMP; pfam00672 414684003066 dimerization interface [polypeptide binding]; other site 414684003067 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684003068 dimer interface [polypeptide binding]; other site 414684003069 putative CheW interface [polypeptide binding]; other site 414684003070 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 414684003071 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 414684003072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684003073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684003074 metal binding site [ion binding]; metal-binding site 414684003075 active site 414684003076 I-site; other site 414684003077 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 414684003078 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684003079 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684003080 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684003081 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684003082 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684003083 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684003084 hypothetical protein; Provisional; Region: PRK09126 414684003085 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 414684003086 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 414684003087 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 414684003088 N-terminal plug; other site 414684003089 ligand-binding site [chemical binding]; other site 414684003090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684003091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684003092 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 414684003093 dimerization interface [polypeptide binding]; other site 414684003094 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 414684003095 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684003096 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 414684003097 LexA repressor; Validated; Region: PRK00215 414684003098 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 414684003099 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 414684003100 Catalytic site [active] 414684003101 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 414684003102 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 414684003103 Competence protein; Region: Competence; pfam03772 414684003104 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 414684003105 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684003106 active site 414684003107 HIGH motif; other site 414684003108 nucleotide binding site [chemical binding]; other site 414684003109 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 414684003110 active site 414684003111 KMSKS motif; other site 414684003112 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 414684003113 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 414684003114 dimer interface [polypeptide binding]; other site 414684003115 active site 414684003116 citrylCoA binding site [chemical binding]; other site 414684003117 NADH binding [chemical binding]; other site 414684003118 cationic pore residues; other site 414684003119 oxalacetate/citrate binding site [chemical binding]; other site 414684003120 coenzyme A binding site [chemical binding]; other site 414684003121 catalytic triad [active] 414684003122 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 414684003123 dimer interface [polypeptide binding]; other site 414684003124 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684003125 ligand binding site [chemical binding]; other site 414684003126 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 414684003127 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 414684003128 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 414684003129 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 414684003130 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 414684003131 active site 414684003132 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 414684003133 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 414684003134 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 414684003135 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 414684003136 trimer interface [polypeptide binding]; other site 414684003137 active site 414684003138 UDP-GlcNAc binding site [chemical binding]; other site 414684003139 lipid binding site [chemical binding]; lipid-binding site 414684003140 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 414684003141 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 414684003142 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 414684003143 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 414684003144 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 414684003145 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 414684003146 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 414684003147 Surface antigen; Region: Bac_surface_Ag; pfam01103 414684003148 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 414684003149 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 414684003150 active site 414684003151 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 414684003152 protein binding site [polypeptide binding]; other site 414684003153 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 414684003154 putative substrate binding region [chemical binding]; other site 414684003155 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 414684003156 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 414684003157 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 414684003158 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 414684003159 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 414684003160 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 414684003161 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 414684003162 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 414684003163 catalytic residue [active] 414684003164 putative FPP diphosphate binding site; other site 414684003165 putative FPP binding hydrophobic cleft; other site 414684003166 dimer interface [polypeptide binding]; other site 414684003167 putative IPP diphosphate binding site; other site 414684003168 ribosome recycling factor; Reviewed; Region: frr; PRK00083 414684003169 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 414684003170 hinge region; other site 414684003171 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 414684003172 putative nucleotide binding site [chemical binding]; other site 414684003173 uridine monophosphate binding site [chemical binding]; other site 414684003174 homohexameric interface [polypeptide binding]; other site 414684003175 elongation factor Ts; Provisional; Region: tsf; PRK09377 414684003176 UBA/TS-N domain; Region: UBA; pfam00627 414684003177 Elongation factor TS; Region: EF_TS; pfam00889 414684003178 Elongation factor TS; Region: EF_TS; pfam00889 414684003179 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 414684003180 rRNA interaction site [nucleotide binding]; other site 414684003181 S8 interaction site; other site 414684003182 putative laminin-1 binding site; other site 414684003183 Chorismate lyase; Region: Chor_lyase; cl01230 414684003184 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 414684003185 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 414684003186 putative active site [active] 414684003187 putative PHP Thumb interface [polypeptide binding]; other site 414684003188 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 414684003189 generic binding surface II; other site 414684003190 generic binding surface I; other site 414684003191 EamA-like transporter family; Region: EamA; pfam00892 414684003192 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 414684003193 EamA-like transporter family; Region: EamA; pfam00892 414684003194 DNA-3-methyladenine glycosylase, pseudogene;identified by match to protein family HMM PF03938 414684003195 DNA-3-methyladenine glycosidase II, pseudogene;identified by match to protein family HMM PF01103 match to protein family HMM PF07244 414684003196 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 414684003197 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 414684003198 Walker A/P-loop; other site 414684003199 ATP binding site [chemical binding]; other site 414684003200 Q-loop/lid; other site 414684003201 ABC transporter signature motif; other site 414684003202 Walker B; other site 414684003203 D-loop; other site 414684003204 H-loop/switch region; other site 414684003205 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 414684003206 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684003207 FtsX-like permease family; Region: FtsX; pfam02687 414684003208 prolyl-tRNA synthetase; Provisional; Region: PRK12325 414684003209 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 414684003210 dimer interface [polypeptide binding]; other site 414684003211 motif 1; other site 414684003212 active site 414684003213 motif 2; other site 414684003214 motif 3; other site 414684003215 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 414684003216 anticodon binding site; other site 414684003217 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 414684003218 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 414684003219 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 414684003220 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 414684003221 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684003222 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 414684003223 dimer interface [polypeptide binding]; other site 414684003224 substrate binding site [chemical binding]; other site 414684003225 metal binding site [ion binding]; metal-binding site 414684003226 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 414684003227 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 414684003228 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 414684003229 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 414684003230 nucleotide binding site [chemical binding]; other site 414684003231 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 414684003232 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 414684003233 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 414684003234 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 414684003235 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684003236 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 414684003237 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684003238 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 414684003239 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 414684003240 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684003241 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 414684003242 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 414684003243 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 414684003244 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 414684003245 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 414684003246 4Fe-4S binding domain; Region: Fer4; pfam00037 414684003247 4Fe-4S binding domain; Region: Fer4; pfam00037 414684003248 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 414684003249 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 414684003250 NADH dehydrogenase subunit G; Validated; Region: PRK09130 414684003251 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 414684003252 catalytic loop [active] 414684003253 iron binding site [ion binding]; other site 414684003254 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 414684003255 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 414684003256 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 414684003257 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 414684003258 SLBB domain; Region: SLBB; pfam10531 414684003259 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 414684003260 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 414684003261 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 414684003262 putative dimer interface [polypeptide binding]; other site 414684003263 [2Fe-2S] cluster binding site [ion binding]; other site 414684003264 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 414684003265 NADH dehydrogenase subunit D; Validated; Region: PRK06075 414684003266 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 414684003267 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 414684003268 NADH dehydrogenase subunit B; Validated; Region: PRK06411 414684003269 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 414684003270 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 414684003271 IHF dimer interface [polypeptide binding]; other site 414684003272 IHF - DNA interface [nucleotide binding]; other site 414684003273 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 414684003274 Found in ATP-dependent protease La (LON); Region: LON; smart00464 414684003275 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 414684003276 Walker A motif; other site 414684003277 ATP binding site [chemical binding]; other site 414684003278 Walker B motif; other site 414684003279 arginine finger; other site 414684003280 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 414684003281 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 414684003282 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 414684003283 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 414684003284 Walker A motif; other site 414684003285 ATP binding site [chemical binding]; other site 414684003286 Walker B motif; other site 414684003287 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 414684003288 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 414684003289 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 414684003290 oligomer interface [polypeptide binding]; other site 414684003291 active site residues [active] 414684003292 trigger factor; Provisional; Region: tig; PRK01490 414684003293 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 414684003294 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 414684003295 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 414684003296 TPP-binding site [chemical binding]; other site 414684003297 PYR/PP interface [polypeptide binding]; other site 414684003298 dimer interface [polypeptide binding]; other site 414684003299 TPP binding site [chemical binding]; other site 414684003300 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 414684003301 Uncharacterized conserved protein [Function unknown]; Region: COG0062 414684003302 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 414684003303 putative substrate binding site [chemical binding]; other site 414684003304 putative ATP binding site [chemical binding]; other site 414684003305 Domain of unknown function (DUF897); Region: DUF897; cl01312 414684003306 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 414684003307 Nitrogen regulatory protein P-II; Region: P-II; smart00938 414684003308 glutamine synthetase; Provisional; Region: glnA; PRK09469 414684003309 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 414684003310 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 414684003311 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 414684003312 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 414684003313 catalytic residues [active] 414684003314 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 414684003315 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 414684003316 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 414684003317 ATP binding site [chemical binding]; other site 414684003318 putative Mg++ binding site [ion binding]; other site 414684003319 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 414684003320 nucleotide binding region [chemical binding]; other site 414684003321 ATP-binding site [chemical binding]; other site 414684003322 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 414684003323 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 414684003324 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684003325 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684003326 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684003327 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684003328 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 414684003329 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 414684003330 generic binding surface II; other site 414684003331 ssDNA binding site; other site 414684003332 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 414684003333 ATP binding site [chemical binding]; other site 414684003334 putative Mg++ binding site [ion binding]; other site 414684003335 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 414684003336 nucleotide binding region [chemical binding]; other site 414684003337 ATP-binding site [chemical binding]; other site 414684003338 Uncharacterized conserved protein [Function unknown]; Region: COG2928 414684003339 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 414684003340 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 414684003341 malonyl-CoA binding site [chemical binding]; other site 414684003342 dimer interface [polypeptide binding]; other site 414684003343 active site 414684003344 product binding site; other site 414684003345 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; pfam04140 414684003346 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684003347 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 414684003348 ligand binding site [chemical binding]; other site 414684003349 flexible hinge region; other site 414684003350 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 414684003351 putative switch regulator; other site 414684003352 non-specific DNA interactions [nucleotide binding]; other site 414684003353 DNA binding site [nucleotide binding] 414684003354 sequence specific DNA binding site [nucleotide binding]; other site 414684003355 putative cAMP binding site [chemical binding]; other site 414684003356 Transcriptional regulator; Region: CitT; pfam12431 414684003357 flagellar motor switch protein FliN; Region: fliN; TIGR02480 414684003358 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 414684003359 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 414684003360 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 414684003361 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 414684003362 metal-binding site [ion binding] 414684003363 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684003364 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 414684003365 FixH; Region: FixH; pfam05751 414684003366 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 414684003367 4Fe-4S binding domain; Region: Fer4_5; pfam12801 414684003368 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 414684003369 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 414684003370 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 414684003371 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 414684003372 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 414684003373 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 414684003374 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 414684003375 Low-spin heme binding site [chemical binding]; other site 414684003376 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 414684003377 Putative water exit pathway; other site 414684003378 Binuclear center (active site) [active] 414684003379 Putative proton exit pathway; other site 414684003380 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 414684003381 Family description; Region: DsbD_2; pfam13386 414684003382 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 414684003383 Phage integrase family; Region: Phage_integrase; pfam00589 414684003384 active site 414684003385 DNA binding site [nucleotide binding] 414684003386 Int/Topo IB signature motif; other site 414684003387 phage-related conserved hypothetical protein, pseudogene;identified by match to protein family HMM PF03597 match to protein family HMM TIGR00847 414684003388 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 414684003389 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 414684003390 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 414684003391 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 414684003392 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 414684003393 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 414684003394 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 414684003395 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684003396 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 414684003397 non-specific DNA binding site [nucleotide binding]; other site 414684003398 salt bridge; other site 414684003399 sequence-specific DNA binding site [nucleotide binding]; other site 414684003400 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 414684003401 DHH family; Region: DHH; pfam01368 414684003402 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 414684003403 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 414684003404 putative active site [active] 414684003405 homoserine dehydrogenase; Provisional; Region: PRK06349 414684003406 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 414684003407 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 414684003408 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 414684003409 aminotransferase; Validated; Region: PRK09148 414684003410 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 414684003411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003412 homodimer interface [polypeptide binding]; other site 414684003413 catalytic residue [active] 414684003414 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 414684003415 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 414684003416 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 414684003417 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 414684003418 trimer interface [polypeptide binding]; other site 414684003419 putative metal binding site [ion binding]; other site 414684003420 Domain of unknown function DUF29; Region: DUF29; pfam01724 414684003421 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 414684003422 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 414684003423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 414684003424 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 414684003425 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 414684003426 23S rRNA interface [nucleotide binding]; other site 414684003427 L3 interface [polypeptide binding]; other site 414684003428 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 414684003429 CoenzymeA binding site [chemical binding]; other site 414684003430 subunit interaction site [polypeptide binding]; other site 414684003431 PHB binding site; other site 414684003432 enoyl-CoA hydratase; Validated; Region: PRK08139 414684003433 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 414684003434 substrate binding site [chemical binding]; other site 414684003435 oxyanion hole (OAH) forming residues; other site 414684003436 trimer interface [polypeptide binding]; other site 414684003437 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 414684003438 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 414684003439 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 414684003440 homodimer interface [polypeptide binding]; other site 414684003441 substrate-cofactor binding pocket; other site 414684003442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003443 catalytic residue [active] 414684003444 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 414684003445 putative substrate translocation pore; other site 414684003446 Major Facilitator Superfamily; Region: MFS_1; pfam07690 414684003447 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 414684003448 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 414684003449 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684003450 DNA binding residues [nucleotide binding] 414684003451 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 414684003452 IHF dimer interface [polypeptide binding]; other site 414684003453 IHF - DNA interface [nucleotide binding]; other site 414684003454 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 414684003455 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 414684003456 dimer interface [polypeptide binding]; other site 414684003457 active site 414684003458 CoA binding pocket [chemical binding]; other site 414684003459 putative phosphate acyltransferase; Provisional; Region: PRK05331 414684003460 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 414684003461 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 414684003462 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; pfam03981 414684003463 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 414684003464 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 414684003465 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 414684003466 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 414684003467 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 414684003468 thiamine monophosphate kinase; Provisional; Region: PRK05731 414684003469 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 414684003470 ATP binding site [chemical binding]; other site 414684003471 dimerization interface [polypeptide binding]; other site 414684003472 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 414684003473 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 414684003474 homopentamer interface [polypeptide binding]; other site 414684003475 active site 414684003476 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 414684003477 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 414684003478 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 414684003479 dimerization interface [polypeptide binding]; other site 414684003480 active site 414684003481 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 414684003482 Lumazine binding domain; Region: Lum_binding; pfam00677 414684003483 Lumazine binding domain; Region: Lum_binding; pfam00677 414684003484 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 414684003485 catalytic motif [active] 414684003486 Zn binding site [ion binding]; other site 414684003487 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 414684003488 RibD C-terminal domain; Region: RibD_C; cl17279 414684003489 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 414684003490 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 414684003491 ATP cone domain; Region: ATP-cone; pfam03477 414684003492 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 414684003493 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 414684003494 dimer interface [polypeptide binding]; other site 414684003495 active site 414684003496 glycine-pyridoxal phosphate binding site [chemical binding]; other site 414684003497 folate binding site [chemical binding]; other site 414684003498 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 414684003499 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 414684003500 Transcriptional regulators [Transcription]; Region: MarR; COG1846 414684003501 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 414684003502 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 414684003503 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 414684003504 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 414684003505 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 414684003506 substrate binding site [chemical binding]; other site 414684003507 oxyanion hole (OAH) forming residues; other site 414684003508 trimer interface [polypeptide binding]; other site 414684003509 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 414684003510 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684003511 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 414684003512 substrate binding pocket [chemical binding]; other site 414684003513 FAD binding site [chemical binding]; other site 414684003514 catalytic base [active] 414684003515 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 414684003516 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684003517 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 414684003518 putative active site [active] 414684003519 putative metal binding site [ion binding]; other site 414684003520 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 414684003521 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 414684003522 dimer interface [polypeptide binding]; other site 414684003523 allosteric magnesium binding site [ion binding]; other site 414684003524 active site 414684003525 aspartate-rich active site metal binding site; other site 414684003526 Schiff base residues; other site 414684003527 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 414684003528 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 414684003529 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684003530 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684003531 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 414684003532 dimer interface [polypeptide binding]; other site 414684003533 active site 414684003534 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684003535 catalytic residues [active] 414684003536 substrate binding site [chemical binding]; other site 414684003537 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 414684003538 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 414684003539 NAD(P) binding site [chemical binding]; other site 414684003540 catalytic residues [active] 414684003541 catalytic residues [active] 414684003542 Penicillin amidase; Region: Penicil_amidase; pfam01804 414684003543 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 414684003544 active site 414684003545 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 414684003546 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 414684003547 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 414684003548 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684003549 ligand binding site [chemical binding]; other site 414684003550 Uncharacterized conserved protein [Function unknown]; Region: COG2308 414684003551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 414684003552 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 414684003553 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 414684003554 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 414684003555 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 414684003556 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 414684003557 Cytochrome c; Region: Cytochrom_C; pfam00034 414684003558 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003559 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003560 active site 414684003561 phosphorylation site [posttranslational modification] 414684003562 intermolecular recognition site; other site 414684003563 dimerization interface [polypeptide binding]; other site 414684003564 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 414684003565 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 414684003566 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684003567 ATP binding site [chemical binding]; other site 414684003568 Mg2+ binding site [ion binding]; other site 414684003569 G-X-G motif; other site 414684003570 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 414684003571 anchoring element; other site 414684003572 dimer interface [polypeptide binding]; other site 414684003573 ATP binding site [chemical binding]; other site 414684003574 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 414684003575 active site 414684003576 putative metal-binding site [ion binding]; other site 414684003577 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 414684003578 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 414684003579 Isochorismatase family; Region: Isochorismatase; pfam00857 414684003580 catalytic triad [active] 414684003581 dimer interface [polypeptide binding]; other site 414684003582 conserved cis-peptide bond; other site 414684003583 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 414684003584 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 414684003585 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 414684003586 ATP binding site [chemical binding]; other site 414684003587 Mg++ binding site [ion binding]; other site 414684003588 motif III; other site 414684003589 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 414684003590 nucleotide binding region [chemical binding]; other site 414684003591 ATP-binding site [chemical binding]; other site 414684003592 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684003593 AsnC family; Region: AsnC_trans_reg; pfam01037 414684003594 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 414684003595 OstA-like protein; Region: OstA; cl00844 414684003596 Organic solvent tolerance protein; Region: OstA_C; pfam04453 414684003597 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 414684003598 catalytic residues [active] 414684003599 dimer interface [polypeptide binding]; other site 414684003600 Protein of unknown function (DUF904); Region: DUF904; cl11531 414684003601 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 414684003602 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 414684003603 putative active site [active] 414684003604 metal binding site [ion binding]; metal-binding site 414684003605 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 414684003606 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 414684003607 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 414684003608 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 414684003609 active site 414684003610 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 414684003611 active site 414684003612 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 414684003613 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 414684003614 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 414684003615 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 414684003616 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 414684003617 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684003618 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 414684003619 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 414684003620 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 414684003621 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 414684003622 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 414684003623 flagellar assembly regulator FliX; Reviewed; Region: fliX; PRK12787 414684003624 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 414684003625 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 414684003626 Rod binding protein; Region: Rod-binding; cl01626 414684003627 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 414684003628 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 414684003629 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 414684003630 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 414684003631 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 414684003632 GTP-binding protein Der; Reviewed; Region: PRK00093 414684003633 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 414684003634 G1 box; other site 414684003635 GTP/Mg2+ binding site [chemical binding]; other site 414684003636 Switch I region; other site 414684003637 G2 box; other site 414684003638 Switch II region; other site 414684003639 G3 box; other site 414684003640 G4 box; other site 414684003641 G5 box; other site 414684003642 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 414684003643 G1 box; other site 414684003644 GTP/Mg2+ binding site [chemical binding]; other site 414684003645 Switch I region; other site 414684003646 G2 box; other site 414684003647 G3 box; other site 414684003648 Switch II region; other site 414684003649 G4 box; other site 414684003650 G5 box; other site 414684003651 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 414684003652 Trp docking motif [polypeptide binding]; other site 414684003653 active site 414684003654 PQQ-like domain; Region: PQQ_2; pfam13360 414684003655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 414684003656 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 414684003657 putative catalytic residue [active] 414684003658 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684003659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 414684003660 active site 414684003661 phosphorylation site [posttranslational modification] 414684003662 intermolecular recognition site; other site 414684003663 dimerization interface [polypeptide binding]; other site 414684003664 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 414684003665 DNA binding residues [nucleotide binding] 414684003666 dimerization interface [polypeptide binding]; other site 414684003667 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684003668 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 414684003669 DNA binding residues [nucleotide binding] 414684003670 dimerization interface [polypeptide binding]; other site 414684003671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003672 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684003673 active site 414684003674 phosphorylation site [posttranslational modification] 414684003675 intermolecular recognition site; other site 414684003676 dimerization interface [polypeptide binding]; other site 414684003677 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 414684003678 DNA binding residues [nucleotide binding] 414684003679 dimerization interface [polypeptide binding]; other site 414684003680 AAA ATPase domain; Region: AAA_16; pfam13191 414684003681 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 414684003682 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 414684003683 SLBB domain; Region: SLBB; pfam10531 414684003684 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 414684003685 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 414684003686 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 414684003687 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 414684003688 active site 414684003689 AAA domain; Region: AAA_22; pfam13401 414684003690 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 414684003691 TPR motif; other site 414684003692 binding surface 414684003693 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 414684003694 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 414684003695 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 414684003696 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 414684003697 hydrogenase 4 subunit F; Validated; Region: PRK06458 414684003698 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684003699 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 414684003700 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 414684003701 NADH dehydrogenase; Region: NADHdh; cl00469 414684003702 hydrogenase 4 subunit B; Validated; Region: PRK06521 414684003703 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684003704 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 414684003705 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 414684003706 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 414684003707 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 414684003708 RNA binding site [nucleotide binding]; other site 414684003709 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 414684003710 catalytic nucleophile [active] 414684003711 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003713 active site 414684003714 phosphorylation site [posttranslational modification] 414684003715 intermolecular recognition site; other site 414684003716 dimerization interface [polypeptide binding]; other site 414684003717 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 414684003718 S-adenosylmethionine binding site [chemical binding]; other site 414684003719 Predicted transcriptional regulators [Transcription]; Region: COG1695 414684003720 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 414684003721 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684003722 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 414684003723 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684003724 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684003725 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 414684003726 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 414684003727 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 414684003728 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 414684003729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003730 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003731 active site 414684003732 phosphorylation site [posttranslational modification] 414684003733 intermolecular recognition site; other site 414684003734 dimerization interface [polypeptide binding]; other site 414684003735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 414684003736 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 414684003737 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 414684003738 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 414684003739 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 414684003740 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 414684003741 ATP binding site [chemical binding]; other site 414684003742 putative Mg++ binding site [ion binding]; other site 414684003743 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 414684003744 nucleotide binding region [chemical binding]; other site 414684003745 ATP-binding site [chemical binding]; other site 414684003746 Helicase associated domain (HA2); Region: HA2; pfam04408 414684003747 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 414684003748 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 414684003749 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 414684003750 Protein of unknown function (DUF330); Region: DUF330; cl01135 414684003751 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 414684003752 mce related protein; Region: MCE; pfam02470 414684003753 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 414684003754 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 414684003755 Walker A/P-loop; other site 414684003756 ATP binding site [chemical binding]; other site 414684003757 Q-loop/lid; other site 414684003758 ABC transporter signature motif; other site 414684003759 Walker B; other site 414684003760 D-loop; other site 414684003761 H-loop/switch region; other site 414684003762 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 414684003763 anti sigma factor interaction site; other site 414684003764 regulatory phosphorylation site [posttranslational modification]; other site 414684003765 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 414684003766 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 414684003767 Permease; Region: Permease; pfam02405 414684003768 putative active site [active] 414684003769 catalytic site [active] 414684003770 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684003771 active site 414684003772 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 414684003773 dimer interface [polypeptide binding]; other site 414684003774 conserved gate region; other site 414684003775 putative PBP binding loops; other site 414684003776 ABC-ATPase subunit interface; other site 414684003777 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 414684003778 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 414684003779 Walker A/P-loop; other site 414684003780 ATP binding site [chemical binding]; other site 414684003781 Q-loop/lid; other site 414684003782 ABC transporter signature motif; other site 414684003783 Walker B; other site 414684003784 D-loop; other site 414684003785 H-loop/switch region; other site 414684003786 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 414684003787 short chain dehydrogenase; Provisional; Region: PRK09134 414684003788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684003789 NAD(P) binding site [chemical binding]; other site 414684003790 active site 414684003791 Creatinine amidohydrolase; Region: Creatininase; pfam02633 414684003792 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 414684003793 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 414684003794 active site 414684003795 metal binding site [ion binding]; metal-binding site 414684003796 hexamer interface [polypeptide binding]; other site 414684003797 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 414684003798 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 414684003799 NAD(P) binding site [chemical binding]; other site 414684003800 catalytic residues [active] 414684003801 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 414684003802 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 414684003803 oligomer interface [polypeptide binding]; other site 414684003804 active site residues [active] 414684003805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 414684003806 MOSC domain; Region: MOSC; pfam03473 414684003807 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 414684003808 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684003809 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 414684003810 agmatine deiminase; Region: agmatine_aguA; TIGR03380 414684003811 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 414684003812 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 414684003813 dimer interface [polypeptide binding]; other site 414684003814 conserved gate region; other site 414684003815 putative PBP binding loops; other site 414684003816 ABC-ATPase subunit interface; other site 414684003817 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 414684003818 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 414684003819 dimer interface [polypeptide binding]; other site 414684003820 conserved gate region; other site 414684003821 putative PBP binding loops; other site 414684003822 ABC-ATPase subunit interface; other site 414684003823 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 414684003824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684003825 Walker A/P-loop; other site 414684003826 ATP binding site [chemical binding]; other site 414684003827 Q-loop/lid; other site 414684003828 ABC transporter signature motif; other site 414684003829 Walker B; other site 414684003830 D-loop; other site 414684003831 H-loop/switch region; other site 414684003832 TOBE domain; Region: TOBE_2; pfam08402 414684003833 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 414684003834 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 414684003835 putative aminotransferase; Validated; Region: PRK07480 414684003836 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 414684003837 inhibitor-cofactor binding pocket; inhibition site 414684003838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003839 catalytic residue [active] 414684003840 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 414684003841 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 414684003842 substrate binding site [chemical binding]; other site 414684003843 oxyanion hole (OAH) forming residues; other site 414684003844 trimer interface [polypeptide binding]; other site 414684003845 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684003846 dimer interface [polypeptide binding]; other site 414684003847 phosphorylation site [posttranslational modification] 414684003848 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684003849 ATP binding site [chemical binding]; other site 414684003850 Mg2+ binding site [ion binding]; other site 414684003851 G-X-G motif; other site 414684003852 Response regulator receiver domain; Region: Response_reg; pfam00072 414684003853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684003854 active site 414684003855 phosphorylation site [posttranslational modification] 414684003856 intermolecular recognition site; other site 414684003857 dimerization interface [polypeptide binding]; other site 414684003858 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 414684003859 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 414684003860 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 414684003861 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 414684003862 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 414684003863 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 414684003864 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 414684003865 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 414684003866 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 414684003867 inhibitor-cofactor binding pocket; inhibition site 414684003868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684003869 catalytic residue [active] 414684003870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 414684003871 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 414684003872 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684003873 Histidine kinase; Region: HisKA_2; pfam07568 414684003874 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 414684003875 ATP binding site [chemical binding]; other site 414684003876 Mg2+ binding site [ion binding]; other site 414684003877 G-X-G motif; other site 414684003878 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 414684003879 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 414684003880 NAD(P) binding site [chemical binding]; other site 414684003881 homodimer interface [polypeptide binding]; other site 414684003882 substrate binding site [chemical binding]; other site 414684003883 active site 414684003884 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 414684003885 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 414684003886 thiamine pyrophosphate protein; Validated; Region: PRK08199 414684003887 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684003888 PYR/PP interface [polypeptide binding]; other site 414684003889 dimer interface [polypeptide binding]; other site 414684003890 TPP binding site [chemical binding]; other site 414684003891 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 414684003892 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 414684003893 TPP-binding site [chemical binding]; other site 414684003894 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 414684003895 C-terminal domain interface [polypeptide binding]; other site 414684003896 GSH binding site (G-site) [chemical binding]; other site 414684003897 dimer interface [polypeptide binding]; other site 414684003898 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 414684003899 N-terminal domain interface [polypeptide binding]; other site 414684003900 dimer interface [polypeptide binding]; other site 414684003901 substrate binding pocket (H-site) [chemical binding]; other site 414684003902 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 414684003903 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 414684003904 CAP-like domain; other site 414684003905 active site 414684003906 primary dimer interface [polypeptide binding]; other site 414684003907 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 414684003908 Recombination protein O N terminal; Region: RecO_N; pfam11967 414684003909 Recombination protein O C terminal; Region: RecO_C; pfam02565 414684003910 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 414684003911 PAS fold; Region: PAS_3; pfam08447 414684003912 putative active site [active] 414684003913 heme pocket [chemical binding]; other site 414684003914 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 414684003915 PAS fold; Region: PAS_3; pfam08447 414684003916 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 414684003917 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684003918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684003919 metal binding site [ion binding]; metal-binding site 414684003920 active site 414684003921 I-site; other site 414684003922 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 414684003923 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 414684003924 GTPase Era; Reviewed; Region: era; PRK00089 414684003925 G1 box; other site 414684003926 GTP/Mg2+ binding site [chemical binding]; other site 414684003927 Switch I region; other site 414684003928 G2 box; other site 414684003929 Switch II region; other site 414684003930 G3 box; other site 414684003931 G4 box; other site 414684003932 G5 box; other site 414684003933 KH domain; Region: KH_2; pfam07650 414684003934 ribonuclease III; Reviewed; Region: rnc; PRK00102 414684003935 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 414684003936 dimerization interface [polypeptide binding]; other site 414684003937 active site 414684003938 metal binding site [ion binding]; metal-binding site 414684003939 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 414684003940 dsRNA binding site [nucleotide binding]; other site 414684003941 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 414684003942 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 414684003943 Catalytic site [active] 414684003944 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 414684003945 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 414684003946 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 414684003947 active site 414684003948 hydrophilic channel; other site 414684003949 dimerization interface [polypeptide binding]; other site 414684003950 catalytic residues [active] 414684003951 active site lid [active] 414684003952 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 414684003953 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 414684003954 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 414684003955 Zn2+ binding site [ion binding]; other site 414684003956 Mg2+ binding site [ion binding]; other site 414684003957 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 414684003958 synthetase active site [active] 414684003959 NTP binding site [chemical binding]; other site 414684003960 metal binding site [ion binding]; metal-binding site 414684003961 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 414684003962 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 414684003963 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 414684003964 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 414684003965 catalytic center binding site [active] 414684003966 ATP binding site [chemical binding]; other site 414684003967 Uncharacterized conserved protein [Function unknown]; Region: COG1432 414684003968 LabA_like proteins; Region: LabA; cd10911 414684003969 putative metal binding site [ion binding]; other site 414684003970 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 414684003971 Fe-S cluster binding site [ion binding]; other site 414684003972 DNA binding site [nucleotide binding] 414684003973 active site 414684003974 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 414684003975 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 414684003976 SmpB-tmRNA interface; other site 414684003977 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 414684003978 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 414684003979 dimer interface [polypeptide binding]; other site 414684003980 active site 414684003981 catalytic residue [active] 414684003982 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 414684003983 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 414684003984 N-acetyl-D-glucosamine binding site [chemical binding]; other site 414684003985 catalytic residue [active] 414684003986 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 414684003987 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 414684003988 EamA-like transporter family; Region: EamA; pfam00892 414684003989 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684003990 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 414684003991 non-specific DNA binding site [nucleotide binding]; other site 414684003992 salt bridge; other site 414684003993 sequence-specific DNA binding site [nucleotide binding]; other site 414684003994 L-type amino acid transporter; Region: 2A0308; TIGR00911 414684003995 Methyltransferase domain; Region: Methyltransf_31; pfam13847 414684003996 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 414684003997 S-adenosylmethionine binding site [chemical binding]; other site 414684003998 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 414684003999 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 414684004000 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 414684004001 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 414684004002 Membrane transport protein; Region: Mem_trans; cl09117 414684004003 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 414684004004 CoA-transferase family III; Region: CoA_transf_3; pfam02515 414684004005 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 414684004006 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 414684004007 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 414684004008 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 414684004009 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 414684004010 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 414684004011 dihydroorotase; Validated; Region: PRK09059 414684004012 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 414684004013 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 414684004014 active site 414684004015 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 414684004016 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 414684004017 DNA protecting protein DprA; Region: dprA; TIGR00732 414684004018 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 414684004019 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 414684004020 active site 414684004021 interdomain interaction site; other site 414684004022 putative metal-binding site [ion binding]; other site 414684004023 nucleotide binding site [chemical binding]; other site 414684004024 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 414684004025 domain I; other site 414684004026 DNA binding groove [nucleotide binding] 414684004027 phosphate binding site [ion binding]; other site 414684004028 domain II; other site 414684004029 domain III; other site 414684004030 nucleotide binding site [chemical binding]; other site 414684004031 catalytic site [active] 414684004032 domain IV; other site 414684004033 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 414684004034 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 414684004035 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 414684004036 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 414684004037 ribonuclease R; Region: RNase_R; TIGR02063 414684004038 RNB domain; Region: RNB; pfam00773 414684004039 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 414684004040 RNA binding site [nucleotide binding]; other site 414684004041 C-terminal peptidase (prc); Region: prc; TIGR00225 414684004042 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 414684004043 protein binding site [polypeptide binding]; other site 414684004044 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 414684004045 Catalytic dyad [active] 414684004046 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 414684004047 response regulator PleD; Reviewed; Region: pleD; PRK09581 414684004048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004049 active site 414684004050 phosphorylation site [posttranslational modification] 414684004051 intermolecular recognition site; other site 414684004052 dimerization interface [polypeptide binding]; other site 414684004053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004054 active site 414684004055 phosphorylation site [posttranslational modification] 414684004056 intermolecular recognition site; other site 414684004057 dimerization interface [polypeptide binding]; other site 414684004058 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684004059 metal binding site [ion binding]; metal-binding site 414684004060 active site 414684004061 I-site; other site 414684004062 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684004063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004064 active site 414684004065 phosphorylation site [posttranslational modification] 414684004066 intermolecular recognition site; other site 414684004067 dimerization interface [polypeptide binding]; other site 414684004068 DNA polymerase IV; Provisional; Region: PRK02794 414684004069 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 414684004070 active site 414684004071 DNA binding site [nucleotide binding] 414684004072 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 414684004073 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684004074 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 414684004075 dimerization interface [polypeptide binding]; other site 414684004076 putative DNA binding site [nucleotide binding]; other site 414684004077 putative Zn2+ binding site [ion binding]; other site 414684004078 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 414684004079 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684004080 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684004081 metal binding site [ion binding]; metal-binding site 414684004082 active site 414684004083 I-site; other site 414684004084 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 414684004085 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 414684004086 dimer interface [polypeptide binding]; other site 414684004087 anticodon binding site; other site 414684004088 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 414684004089 homodimer interface [polypeptide binding]; other site 414684004090 motif 1; other site 414684004091 active site 414684004092 motif 2; other site 414684004093 GAD domain; Region: GAD; pfam02938 414684004094 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 414684004095 active site 414684004096 motif 3; other site 414684004097 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 414684004098 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 414684004099 catalytic site [active] 414684004100 putative active site [active] 414684004101 putative substrate binding site [chemical binding]; other site 414684004102 HRDC domain; Region: HRDC; pfam00570 414684004103 exopolyphosphatase; Region: exo_poly_only; TIGR03706 414684004104 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 414684004105 polyphosphate kinase; Provisional; Region: PRK05443 414684004106 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 414684004107 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 414684004108 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 414684004109 putative domain interface [polypeptide binding]; other site 414684004110 putative active site [active] 414684004111 catalytic site [active] 414684004112 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 414684004113 putative domain interface [polypeptide binding]; other site 414684004114 putative active site [active] 414684004115 catalytic site [active] 414684004116 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 414684004117 catalytic core [active] 414684004118 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 414684004119 putative active site [active] 414684004120 putative metal binding residues [ion binding]; other site 414684004121 signature motif; other site 414684004122 putative triphosphate binding site [ion binding]; other site 414684004123 CHAD domain; Region: CHAD; pfam05235 414684004124 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 414684004125 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 414684004126 Walker A motif; other site 414684004127 ATP binding site [chemical binding]; other site 414684004128 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 414684004129 Domain of unknown function DUF20; Region: UPF0118; pfam01594 414684004130 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684004131 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 414684004132 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 414684004133 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 414684004134 dimerization interface [polypeptide binding]; other site 414684004135 putative ATP binding site [chemical binding]; other site 414684004136 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 414684004137 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 414684004138 active site 414684004139 substrate binding site [chemical binding]; other site 414684004140 cosubstrate binding site; other site 414684004141 catalytic site [active] 414684004142 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 414684004143 active site 414684004144 multimer interface [polypeptide binding]; other site 414684004145 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 414684004146 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684004147 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684004148 ABC transporter; Region: ABC_tran_2; pfam12848 414684004149 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684004150 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684004151 short chain dehydrogenase; Provisional; Region: PRK07024 414684004152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004153 NAD(P) binding site [chemical binding]; other site 414684004154 active site 414684004155 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684004156 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684004157 hypothetical protein; Provisional; Region: PRK11820 414684004158 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 414684004159 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 414684004160 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 414684004161 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 414684004162 catalytic site [active] 414684004163 G-X2-G-X-G-K; other site 414684004164 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 414684004165 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 414684004166 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 414684004167 SurA N-terminal domain; Region: SurA_N; pfam09312 414684004168 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 414684004169 Predicted permeases [General function prediction only]; Region: COG0795 414684004170 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684004171 Predicted permeases [General function prediction only]; Region: COG0795 414684004172 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 414684004173 multifunctional aminopeptidase A; Provisional; Region: PRK00913 414684004174 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 414684004175 interface (dimer of trimers) [polypeptide binding]; other site 414684004176 Substrate-binding/catalytic site; other site 414684004177 Zn-binding sites [ion binding]; other site 414684004178 DNA polymerase III subunit chi; Validated; Region: PRK05728 414684004179 YceG-like family; Region: YceG; pfam02618 414684004180 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 414684004181 dimerization interface [polypeptide binding]; other site 414684004182 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 414684004183 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 414684004184 dimer interface [polypeptide binding]; other site 414684004185 active site 414684004186 acyl carrier protein; Provisional; Region: acpP; PRK00982 414684004187 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 414684004188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004189 NAD(P) binding site [chemical binding]; other site 414684004190 active site 414684004191 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 414684004192 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 414684004193 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 414684004194 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 414684004195 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 414684004196 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 414684004197 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 414684004198 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 414684004199 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 414684004200 S-adenosylmethionine binding site [chemical binding]; other site 414684004201 replicative DNA helicase; Provisional; Region: PRK09165 414684004202 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 414684004203 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 414684004204 Walker A motif; other site 414684004205 ATP binding site [chemical binding]; other site 414684004206 Walker B motif; other site 414684004207 DNA binding loops [nucleotide binding] 414684004208 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 414684004209 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 414684004210 active site 414684004211 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684004212 dimer interface [polypeptide binding]; other site 414684004213 substrate binding site [chemical binding]; other site 414684004214 catalytic residues [active] 414684004215 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 414684004216 Permease; Region: Permease; pfam02405 414684004217 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 414684004218 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 414684004219 Walker A/P-loop; other site 414684004220 ATP binding site [chemical binding]; other site 414684004221 Q-loop/lid; other site 414684004222 ABC transporter signature motif; other site 414684004223 Walker B; other site 414684004224 D-loop; other site 414684004225 H-loop/switch region; other site 414684004226 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 414684004227 KaiC; Region: KaiC; pfam06745 414684004228 Walker A motif; other site 414684004229 ATP binding site [chemical binding]; other site 414684004230 Walker B motif; other site 414684004231 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 414684004232 Colicin V production protein; Region: Colicin_V; pfam02674 414684004233 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 414684004234 amidophosphoribosyltransferase; Provisional; Region: PRK09123 414684004235 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 414684004236 active site 414684004237 tetramer interface [polypeptide binding]; other site 414684004238 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684004239 active site 414684004240 classical (c) SDRs; Region: SDR_c; cd05233 414684004241 NAD(P) binding site [chemical binding]; other site 414684004242 active site 414684004243 choline dehydrogenase; Validated; Region: PRK02106 414684004244 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 414684004245 glutathione reductase; Validated; Region: PRK06116 414684004246 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684004247 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684004248 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684004249 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684004250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 414684004251 response regulator; Provisional; Region: PRK13435 414684004252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004253 active site 414684004254 phosphorylation site [posttranslational modification] 414684004255 intermolecular recognition site; other site 414684004256 dimerization interface [polypeptide binding]; other site 414684004257 succinic semialdehyde dehydrogenase; Region: PLN02278 414684004258 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 414684004259 tetramerization interface [polypeptide binding]; other site 414684004260 NAD(P) binding site [chemical binding]; other site 414684004261 catalytic residues [active] 414684004262 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 414684004263 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 414684004264 Substrate binding site; other site 414684004265 Mg++ binding site; other site 414684004266 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 414684004267 active site 414684004268 substrate binding site [chemical binding]; other site 414684004269 CoA binding site [chemical binding]; other site 414684004270 phosphoglycolate phosphatase; Provisional; Region: PRK13222 414684004271 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 414684004272 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 414684004273 motif II; other site 414684004274 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 414684004275 Dynamin family; Region: Dynamin_N; pfam00350 414684004276 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 414684004277 G1 box; other site 414684004278 GTP/Mg2+ binding site [chemical binding]; other site 414684004279 G2 box; other site 414684004280 Switch I region; other site 414684004281 G3 box; other site 414684004282 Switch II region; other site 414684004283 G4 box; other site 414684004284 Predicted membrane protein [Function unknown]; Region: COG2261 414684004285 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 414684004286 Staphylococcal nuclease homologues; Region: SNc; smart00318 414684004287 Catalytic site; other site 414684004288 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 414684004289 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 414684004290 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 414684004291 active site 414684004292 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 414684004293 dinuclear metal binding motif [ion binding]; other site 414684004294 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684004295 peptide chain release factor 2; Provisional; Region: PRK07342 414684004296 This domain is found in peptide chain release factors; Region: PCRF; smart00937 414684004297 RF-1 domain; Region: RF-1; pfam00472 414684004298 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 414684004299 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 414684004300 Transglycosylase; Region: Transgly; pfam00912 414684004301 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 414684004302 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 414684004303 AMIN domain; Region: AMIN; pfam11741 414684004304 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 414684004305 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 414684004306 active site 414684004307 metal binding site [ion binding]; metal-binding site 414684004308 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 414684004309 homodimer interface [polypeptide binding]; other site 414684004310 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 414684004311 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 414684004312 Transposase domain (DUF772); Region: DUF772; pfam05598 414684004313 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 414684004314 Putative transcription activator [Transcription]; Region: TenA; COG0819 414684004315 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 414684004316 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 414684004317 catalytic loop [active] 414684004318 iron binding site [ion binding]; other site 414684004319 Double zinc ribbon; Region: DZR; pfam12773 414684004320 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 414684004321 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 414684004322 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684004323 catalytic residue [active] 414684004324 Predicted transcriptional regulator [Transcription]; Region: COG1959 414684004325 Transcriptional regulator; Region: Rrf2; cl17282 414684004326 serine O-acetyltransferase; Region: cysE; TIGR01172 414684004327 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 414684004328 trimer interface [polypeptide binding]; other site 414684004329 active site 414684004330 substrate binding site [chemical binding]; other site 414684004331 CoA binding site [chemical binding]; other site 414684004332 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 414684004333 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684004334 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 414684004335 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 414684004336 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 414684004337 active site 414684004338 HIGH motif; other site 414684004339 dimer interface [polypeptide binding]; other site 414684004340 KMSKS motif; other site 414684004341 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 414684004342 RNA binding surface [nucleotide binding]; other site 414684004343 Protein of unknown function; Region: DUF3971; pfam13116 414684004344 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 414684004345 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 414684004346 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684004347 metal binding triad; other site 414684004348 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 414684004349 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684004350 metal binding triad; other site 414684004351 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 414684004352 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 414684004353 catalytic triad [active] 414684004354 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 414684004355 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 414684004356 P-loop; other site 414684004357 Magnesium ion binding site [ion binding]; other site 414684004358 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 414684004359 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 414684004360 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 414684004361 FAD binding domain; Region: FAD_binding_4; pfam01565 414684004362 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 414684004363 catalytic residue [active] 414684004364 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 414684004365 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 414684004366 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684004367 active site 414684004368 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 414684004369 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 414684004370 Peptidase propeptide and YPEB domain; Region: PepSY_2; cl17877 414684004371 RNA polymerase sigma factor; Provisional; Region: PRK11924 414684004372 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684004373 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 414684004374 DNA binding residues [nucleotide binding] 414684004375 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 414684004376 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 414684004377 N-acetyl-D-glucosamine binding site [chemical binding]; other site 414684004378 catalytic residue [active] 414684004379 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684004380 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 414684004381 FtsX-like permease family; Region: FtsX; pfam02687 414684004382 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 414684004383 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 414684004384 Walker A/P-loop; other site 414684004385 ATP binding site [chemical binding]; other site 414684004386 Q-loop/lid; other site 414684004387 ABC transporter signature motif; other site 414684004388 Walker B; other site 414684004389 D-loop; other site 414684004390 H-loop/switch region; other site 414684004391 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684004392 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684004393 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684004394 Domain of unknown function (DUF329); Region: DUF329; pfam03884 414684004395 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 414684004396 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 414684004397 RNA binding site [nucleotide binding]; other site 414684004398 Maf-like protein; Region: Maf; pfam02545 414684004399 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 414684004400 active site 414684004401 dimer interface [polypeptide binding]; other site 414684004402 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 414684004403 rRNA binding site [nucleotide binding]; other site 414684004404 predicted 30S ribosome binding site; other site 414684004405 Low molecular weight phosphatase family; Region: LMWPc; cd00115 414684004406 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 414684004407 active site 414684004408 hypothetical protein; Provisional; Region: PRK02853 414684004409 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 414684004410 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 414684004411 NAD binding site [chemical binding]; other site 414684004412 dimerization interface [polypeptide binding]; other site 414684004413 product binding site; other site 414684004414 substrate binding site [chemical binding]; other site 414684004415 zinc binding site [ion binding]; other site 414684004416 catalytic residues [active] 414684004417 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 414684004418 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 414684004419 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 414684004420 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 414684004421 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 414684004422 hinge; other site 414684004423 active site 414684004424 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 414684004425 trimer interface [polypeptide binding]; other site 414684004426 active site 414684004427 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 414684004428 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684004429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684004430 NAD(P) binding site [chemical binding]; other site 414684004431 active site 414684004432 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 414684004433 Sel1-like repeats; Region: SEL1; smart00671 414684004434 Sel1-like repeats; Region: SEL1; smart00671 414684004435 O-Antigen ligase; Region: Wzy_C; pfam04932 414684004436 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 414684004437 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 414684004438 putative active site [active] 414684004439 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 414684004440 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 414684004441 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 414684004442 PRC-barrel domain; Region: PRC; pfam05239 414684004443 pyruvate phosphate dikinase; Provisional; Region: PRK09279 414684004444 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 414684004445 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 414684004446 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 414684004447 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 414684004448 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 414684004449 dimer interface [polypeptide binding]; other site 414684004450 motif 1; other site 414684004451 active site 414684004452 motif 2; other site 414684004453 motif 3; other site 414684004454 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684004455 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 414684004456 PA/protease or protease-like domain interface [polypeptide binding]; other site 414684004457 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 414684004458 Peptidase family M28; Region: Peptidase_M28; pfam04389 414684004459 metal binding site [ion binding]; metal-binding site 414684004460 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 414684004461 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 414684004462 oligomer interface [polypeptide binding]; other site 414684004463 tandem repeat interface [polypeptide binding]; other site 414684004464 active site residues [active] 414684004465 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 414684004466 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 414684004467 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 414684004468 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 414684004469 substrate binding pocket [chemical binding]; other site 414684004470 chain length determination region; other site 414684004471 substrate-Mg2+ binding site; other site 414684004472 catalytic residues [active] 414684004473 aspartate-rich region 1; other site 414684004474 active site lid residues [active] 414684004475 aspartate-rich region 2; other site 414684004476 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684004477 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 414684004478 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684004479 active site 414684004480 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 414684004481 catalytic triad [active] 414684004482 metal binding site [ion binding]; metal-binding site 414684004483 conserved cis-peptide bond; other site 414684004484 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 414684004485 nucleoside/Zn binding site; other site 414684004486 dimer interface [polypeptide binding]; other site 414684004487 catalytic motif [active] 414684004488 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684004489 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 414684004490 Walker A/P-loop; other site 414684004491 ATP binding site [chemical binding]; other site 414684004492 Q-loop/lid; other site 414684004493 ABC transporter signature motif; other site 414684004494 Walker B; other site 414684004495 D-loop; other site 414684004496 H-loop/switch region; other site 414684004497 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 414684004498 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 414684004499 Zn binding site [ion binding]; other site 414684004500 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 414684004501 Major Facilitator Superfamily; Region: MFS_1; pfam07690 414684004502 Winged helix-turn helix; Region: HTH_29; pfam13551 414684004503 Helix-turn-helix domain; Region: HTH_28; pfam13518 414684004504 Winged helix-turn helix; Region: HTH_33; pfam13592 414684004505 DDE superfamily endonuclease; Region: DDE_3; pfam13358 414684004506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 414684004507 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 414684004508 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 414684004509 Walker A motif; other site 414684004510 ATP binding site [chemical binding]; other site 414684004511 Walker B motif; other site 414684004512 arginine finger; other site 414684004513 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 414684004514 Walker A motif; other site 414684004515 ATP binding site [chemical binding]; other site 414684004516 Walker B motif; other site 414684004517 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 414684004518 Uncharacterized conserved protein [Function unknown]; Region: COG2127 414684004519 Phasin protein; Region: Phasin_2; pfam09361 414684004520 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 414684004521 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 414684004522 active site 414684004523 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 414684004524 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 414684004525 Sporulation related domain; Region: SPOR; pfam05036 414684004526 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 414684004527 active site 414684004528 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 414684004529 substrate binding site [chemical binding]; other site 414684004530 metal binding site [ion binding]; metal-binding site 414684004531 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 414684004532 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 414684004533 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 414684004534 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 414684004535 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 414684004536 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 414684004537 active site 414684004538 tetramer interface; other site 414684004539 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 414684004540 HSP70 interaction site [polypeptide binding]; other site 414684004541 von Willebrand factor type A domain; Region: VWA_2; pfam13519 414684004542 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 414684004543 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 414684004544 active site 414684004545 catalytic site [active] 414684004546 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684004547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004548 active site 414684004549 phosphorylation site [posttranslational modification] 414684004550 intermolecular recognition site; other site 414684004551 dimerization interface [polypeptide binding]; other site 414684004552 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 414684004553 DNA binding residues [nucleotide binding] 414684004554 dimerization interface [polypeptide binding]; other site 414684004555 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 414684004556 S-adenosylmethionine binding site [chemical binding]; other site 414684004557 hypothetical protein; Provisional; Region: PRK10279 414684004558 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 414684004559 active site 414684004560 nucleophile elbow; other site 414684004561 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 414684004562 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 414684004563 HI0933-like protein; Region: HI0933_like; pfam03486 414684004564 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684004565 Predicted transcriptional regulator [Transcription]; Region: COG2944 414684004566 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 414684004567 Protein of unknown function (DUF497); Region: DUF497; cl01108 414684004568 hypothetical protein; Provisional; Region: PRK09256 414684004569 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 414684004570 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684004571 Coenzyme A binding pocket [chemical binding]; other site 414684004572 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 414684004573 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 414684004574 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 414684004575 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 414684004576 Mg++ binding site [ion binding]; other site 414684004577 putative catalytic motif [active] 414684004578 putative substrate binding site [chemical binding]; other site 414684004579 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684004580 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 414684004581 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684004582 catalytic residue [active] 414684004583 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 414684004584 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 414684004585 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 414684004586 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 414684004587 motif 1; other site 414684004588 dimer interface [polypeptide binding]; other site 414684004589 active site 414684004590 motif 2; other site 414684004591 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 414684004592 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 414684004593 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 414684004594 GDP-binding site [chemical binding]; other site 414684004595 ACT binding site; other site 414684004596 IMP binding site; other site 414684004597 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 414684004598 active site 414684004599 ATP binding site [chemical binding]; other site 414684004600 substrate binding site [chemical binding]; other site 414684004601 activation loop (A-loop); other site 414684004602 short chain dehydrogenase; Provisional; Region: PRK06180 414684004603 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 414684004604 NADP binding site [chemical binding]; other site 414684004605 active site 414684004606 steroid binding site; other site 414684004607 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 414684004608 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 414684004609 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684004610 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 414684004611 DNA binding residues [nucleotide binding] 414684004612 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 414684004613 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 414684004614 RNA binding surface [nucleotide binding]; other site 414684004615 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 414684004616 active site 414684004617 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 414684004618 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 414684004619 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 414684004620 tetramer interface [polypeptide binding]; other site 414684004621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684004622 catalytic residue [active] 414684004623 DDE superfamily endonuclease; Region: DDE_3; pfam13358 414684004624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 414684004625 Winged helix-turn helix; Region: HTH_29; pfam13551 414684004626 Helix-turn-helix domain; Region: HTH_28; pfam13518 414684004627 Winged helix-turn helix; Region: HTH_33; pfam13592 414684004628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684004629 Walker A/P-loop; other site 414684004630 ATP binding site [chemical binding]; other site 414684004631 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 414684004632 AAA domain; Region: AAA_12; pfam13087 414684004633 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 414684004634 Fatty acid desaturase; Region: FA_desaturase; pfam00487 414684004635 Di-iron ligands [ion binding]; other site 414684004636 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 414684004637 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 414684004638 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 414684004639 DctM-like transporters; Region: DctM; pfam06808 414684004640 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 414684004641 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 414684004642 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 414684004643 substrate binding site [chemical binding]; other site 414684004644 oxyanion hole (OAH) forming residues; other site 414684004645 trimer interface [polypeptide binding]; other site 414684004646 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 414684004647 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684004648 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684004649 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 414684004650 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 414684004651 dimer interface [polypeptide binding]; other site 414684004652 active site 414684004653 Protein of unknown function (DUF454); Region: DUF454; cl01063 414684004654 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 414684004655 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 414684004656 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 414684004657 putative active site [active] 414684004658 glycogen branching enzyme; Provisional; Region: PRK05402 414684004659 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 414684004660 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 414684004661 active site 414684004662 catalytic site [active] 414684004663 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 414684004664 4-alpha-glucanotransferase; Provisional; Region: PRK14508 414684004665 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 414684004666 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 414684004667 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 414684004668 Walker A motif/ATP binding site; other site 414684004669 Walker B motif; other site 414684004670 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684004671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004672 active site 414684004673 phosphorylation site [posttranslational modification] 414684004674 intermolecular recognition site; other site 414684004675 dimerization interface [polypeptide binding]; other site 414684004676 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 414684004677 DNA binding site [nucleotide binding] 414684004678 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 414684004679 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684004680 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 414684004681 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684004682 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 414684004683 S-adenosylmethionine binding site [chemical binding]; other site 414684004684 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 414684004685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004686 active site 414684004687 phosphorylation site [posttranslational modification] 414684004688 intermolecular recognition site; other site 414684004689 dimerization interface [polypeptide binding]; other site 414684004690 CheB methylesterase; Region: CheB_methylest; pfam01339 414684004691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004692 Response regulator receiver domain; Region: Response_reg; pfam00072 414684004693 active site 414684004694 phosphorylation site [posttranslational modification] 414684004695 intermolecular recognition site; other site 414684004696 dimerization interface [polypeptide binding]; other site 414684004697 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 414684004698 putative CheA interaction surface; other site 414684004699 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 414684004700 putative binding surface; other site 414684004701 active site 414684004702 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 414684004703 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 414684004704 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684004705 ATP binding site [chemical binding]; other site 414684004706 Mg2+ binding site [ion binding]; other site 414684004707 G-X-G motif; other site 414684004708 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 414684004709 CheW-like domain; Region: CheW; pfam01584 414684004710 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684004711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004712 active site 414684004713 phosphorylation site [posttranslational modification] 414684004714 intermolecular recognition site; other site 414684004715 dimerization interface [polypeptide binding]; other site 414684004716 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 414684004717 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 414684004718 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 414684004719 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 414684004720 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 414684004721 FeS/SAM binding site; other site 414684004722 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 414684004723 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 414684004724 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 414684004725 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 414684004726 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 414684004727 putative active site [active] 414684004728 Zn binding site [ion binding]; other site 414684004729 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 414684004730 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 414684004731 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 414684004732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 414684004733 CreA protein; Region: CreA; pfam05981 414684004734 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 414684004735 Domain of unknown function DUF20; Region: UPF0118; pfam01594 414684004736 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 414684004737 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 414684004738 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 414684004739 HRDC domain; Region: HRDC; pfam00570 414684004740 SapC; Region: SapC; pfam07277 414684004741 hypothetical protein; Validated; Region: PRK07586 414684004742 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684004743 PYR/PP interface [polypeptide binding]; other site 414684004744 dimer interface [polypeptide binding]; other site 414684004745 TPP binding site [chemical binding]; other site 414684004746 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 414684004747 TPP-binding site [chemical binding]; other site 414684004748 dimer interface [polypeptide binding]; other site 414684004749 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 414684004750 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 414684004751 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 414684004752 NAD binding site [chemical binding]; other site 414684004753 Phe binding site; other site 414684004754 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 414684004755 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 414684004756 Response regulator receiver domain; Region: Response_reg; pfam00072 414684004757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004758 active site 414684004759 phosphorylation site [posttranslational modification] 414684004760 intermolecular recognition site; other site 414684004761 dimerization interface [polypeptide binding]; other site 414684004762 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 414684004763 putative binding surface; other site 414684004764 active site 414684004765 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684004766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684004767 active site 414684004768 phosphorylation site [posttranslational modification] 414684004769 intermolecular recognition site; other site 414684004770 dimerization interface [polypeptide binding]; other site 414684004771 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 414684004772 DNA binding site [nucleotide binding] 414684004773 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 414684004774 Proline dehydrogenase; Region: Pro_dh; pfam01619 414684004775 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 414684004776 Glutamate binding site [chemical binding]; other site 414684004777 NAD binding site [chemical binding]; other site 414684004778 catalytic residues [active] 414684004779 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 414684004780 putative DNA binding site [nucleotide binding]; other site 414684004781 putative Zn2+ binding site [ion binding]; other site 414684004782 AsnC family; Region: AsnC_trans_reg; pfam01037 414684004783 hypothetical protein; Provisional; Region: PRK13687 414684004784 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684004785 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 414684004786 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684004787 putative CheW interface [polypeptide binding]; other site 414684004788 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 414684004789 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 414684004790 ligand binding site [chemical binding]; other site 414684004791 NAD binding site [chemical binding]; other site 414684004792 dimerization interface [polypeptide binding]; other site 414684004793 catalytic site [active] 414684004794 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 414684004795 putative L-serine binding site [chemical binding]; other site 414684004796 Protein of unknown function, DUF486; Region: DUF486; cl01236 414684004797 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 414684004798 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684004799 catalytic residue [active] 414684004800 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 414684004801 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 414684004802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684004803 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 414684004804 Coenzyme A binding pocket [chemical binding]; other site 414684004805 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 414684004806 dimer interface [polypeptide binding]; other site 414684004807 substrate binding site [chemical binding]; other site 414684004808 ATP binding site [chemical binding]; other site 414684004809 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 414684004810 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 414684004811 active site 414684004812 substrate binding site [chemical binding]; other site 414684004813 metal binding site [ion binding]; metal-binding site 414684004814 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 414684004815 dihydropteroate synthase; Region: DHPS; TIGR01496 414684004816 substrate binding pocket [chemical binding]; other site 414684004817 dimer interface [polypeptide binding]; other site 414684004818 inhibitor binding site; inhibition site 414684004819 FtsH Extracellular; Region: FtsH_ext; pfam06480 414684004820 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 414684004821 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 414684004822 Walker A motif; other site 414684004823 ATP binding site [chemical binding]; other site 414684004824 Walker B motif; other site 414684004825 arginine finger; other site 414684004826 Peptidase family M41; Region: Peptidase_M41; pfam01434 414684004827 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 414684004828 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 414684004829 Ligand Binding Site [chemical binding]; other site 414684004830 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 414684004831 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 414684004832 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684004833 ligand binding site [chemical binding]; other site 414684004834 translocation protein TolB; Provisional; Region: tolB; PRK05137 414684004835 TolB amino-terminal domain; Region: TolB_N; pfam04052 414684004836 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004837 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004838 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004839 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 414684004840 TolR protein; Region: tolR; TIGR02801 414684004841 TolQ protein; Region: tolQ; TIGR02796 414684004842 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 414684004843 active site 414684004844 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 414684004845 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 414684004846 Walker A motif; other site 414684004847 ATP binding site [chemical binding]; other site 414684004848 Walker B motif; other site 414684004849 arginine finger; other site 414684004850 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 414684004851 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 414684004852 RuvA N terminal domain; Region: RuvA_N; pfam01330 414684004853 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 414684004854 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...; Region: RuvC_resolvase; cd00529 414684004855 active site 414684004856 putative DNA-binding cleft [nucleotide binding]; other site 414684004857 dimer interface [polypeptide binding]; other site 414684004858 hypothetical protein; Validated; Region: PRK00110 414684004859 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 414684004860 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684004861 putative active site [active] 414684004862 metal binding site [ion binding]; metal-binding site 414684004863 homodimer binding site [polypeptide binding]; other site 414684004864 5-formyltetrahydrofolate cyclo-ligase, pseudogene;identified by match to protein family HMM TIGR00097 414684004865 Cell division protein ZapA; Region: ZapA; pfam05164 414684004866 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 414684004867 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684004868 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684004869 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 414684004870 Walker A/P-loop; other site 414684004871 ATP binding site [chemical binding]; other site 414684004872 Q-loop/lid; other site 414684004873 ABC transporter signature motif; other site 414684004874 Walker B; other site 414684004875 D-loop; other site 414684004876 H-loop/switch region; other site 414684004877 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 414684004878 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 414684004879 TPP-binding site [chemical binding]; other site 414684004880 dimer interface [polypeptide binding]; other site 414684004881 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 414684004882 PYR/PP interface [polypeptide binding]; other site 414684004883 dimer interface [polypeptide binding]; other site 414684004884 TPP binding site [chemical binding]; other site 414684004885 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684004886 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 414684004887 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 414684004888 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 414684004889 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 414684004890 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 414684004891 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684004892 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684004893 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 414684004894 Class I aldolases; Region: Aldolase_Class_I; cl17187 414684004895 catalytic residue [active] 414684004896 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 414684004897 thiamine phosphate binding site [chemical binding]; other site 414684004898 active site 414684004899 pyrophosphate binding site [ion binding]; other site 414684004900 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 414684004901 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 414684004902 motif 1; other site 414684004903 dimer interface [polypeptide binding]; other site 414684004904 active site 414684004905 motif 2; other site 414684004906 motif 3; other site 414684004907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 414684004908 hypothetical protein; Validated; Region: PRK09039 414684004909 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684004910 ligand binding site [chemical binding]; other site 414684004911 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 414684004912 ligand binding site [chemical binding]; other site 414684004913 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 414684004914 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 414684004915 active site 414684004916 dimerization interface [polypeptide binding]; other site 414684004917 elongation factor P; Validated; Region: PRK00529 414684004918 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 414684004919 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 414684004920 RNA binding site [nucleotide binding]; other site 414684004921 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 414684004922 RNA binding site [nucleotide binding]; other site 414684004923 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 414684004924 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 414684004925 TM-ABC transporter signature motif; other site 414684004926 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 414684004927 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 414684004928 TM-ABC transporter signature motif; other site 414684004929 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 414684004930 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 414684004931 Walker A/P-loop; other site 414684004932 ATP binding site [chemical binding]; other site 414684004933 Q-loop/lid; other site 414684004934 ABC transporter signature motif; other site 414684004935 Walker B; other site 414684004936 D-loop; other site 414684004937 H-loop/switch region; other site 414684004938 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 414684004939 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 414684004940 Walker A/P-loop; other site 414684004941 ATP binding site [chemical binding]; other site 414684004942 Q-loop/lid; other site 414684004943 ABC transporter signature motif; other site 414684004944 Walker B; other site 414684004945 D-loop; other site 414684004946 H-loop/switch region; other site 414684004947 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 414684004948 Cache domain; Region: Cache_1; pfam02743 414684004949 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 414684004950 dimerization interface [polypeptide binding]; other site 414684004951 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684004952 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684004953 dimer interface [polypeptide binding]; other site 414684004954 putative CheW interface [polypeptide binding]; other site 414684004955 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 414684004956 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 414684004957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684004958 Walker A/P-loop; other site 414684004959 ATP binding site [chemical binding]; other site 414684004960 Q-loop/lid; other site 414684004961 ABC transporter signature motif; other site 414684004962 Walker B; other site 414684004963 D-loop; other site 414684004964 H-loop/switch region; other site 414684004965 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 414684004966 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 414684004967 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 414684004968 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 414684004969 putative dimer interface [polypeptide binding]; other site 414684004970 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 414684004971 RNA polymerase factor sigma-70; Validated; Region: PRK09047 414684004972 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684004973 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 414684004974 DNA binding residues [nucleotide binding] 414684004975 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 414684004976 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 414684004977 acyl-activating enzyme (AAE) consensus motif; other site 414684004978 putative AMP binding site [chemical binding]; other site 414684004979 putative active site [active] 414684004980 putative CoA binding site [chemical binding]; other site 414684004981 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 414684004982 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 414684004983 active site 414684004984 nucleophile elbow; other site 414684004985 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 414684004986 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 414684004987 NAD binding site [chemical binding]; other site 414684004988 homotetramer interface [polypeptide binding]; other site 414684004989 homodimer interface [polypeptide binding]; other site 414684004990 substrate binding site [chemical binding]; other site 414684004991 active site 414684004992 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 414684004993 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 414684004994 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 414684004995 ATP-grasp domain; Region: ATP-grasp; pfam02222 414684004996 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 414684004997 6-phosphofructokinase; Provisional; Region: PRK14071 414684004998 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 414684004999 active site 414684005000 ADP/pyrophosphate binding site [chemical binding]; other site 414684005001 dimerization interface [polypeptide binding]; other site 414684005002 allosteric effector site; other site 414684005003 fructose-1,6-bisphosphate binding site; other site 414684005004 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 414684005005 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 414684005006 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 414684005007 active site 414684005008 Zn binding site [ion binding]; other site 414684005009 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 414684005010 Flavoprotein; Region: Flavoprotein; pfam02441 414684005011 Protein of unknown function (DUF465); Region: DUF465; pfam04325 414684005012 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 414684005013 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 414684005014 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 414684005015 NAD(P) binding site [chemical binding]; other site 414684005016 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 414684005017 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 414684005018 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 414684005019 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684005020 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 414684005021 N-terminal plug; other site 414684005022 ligand-binding site [chemical binding]; other site 414684005023 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 414684005024 fumarate hydratase; Reviewed; Region: fumC; PRK00485 414684005025 Class II fumarases; Region: Fumarase_classII; cd01362 414684005026 active site 414684005027 tetramer interface [polypeptide binding]; other site 414684005028 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 414684005029 Uncharacterized conserved protein [Function unknown]; Region: COG2013 414684005030 Protein of unknown function (DUF533); Region: DUF533; pfam04391 414684005031 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 414684005032 putative metal binding site [ion binding]; other site 414684005033 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 414684005034 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 414684005035 elongation factor G; Reviewed; Region: PRK12740 414684005036 G1 box; other site 414684005037 putative GEF interaction site [polypeptide binding]; other site 414684005038 GTP/Mg2+ binding site [chemical binding]; other site 414684005039 Switch I region; other site 414684005040 G2 box; other site 414684005041 G3 box; other site 414684005042 Switch II region; other site 414684005043 G4 box; other site 414684005044 G5 box; other site 414684005045 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 414684005046 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 414684005047 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 414684005048 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 414684005049 active site 414684005050 metal-binding site 414684005051 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 414684005052 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 414684005053 dimerization interface [polypeptide binding]; other site 414684005054 DPS ferroxidase diiron center [ion binding]; other site 414684005055 ion pore; other site 414684005056 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 414684005057 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 414684005058 dimerization interface [polypeptide binding]; other site 414684005059 DPS ferroxidase diiron center [ion binding]; other site 414684005060 ion pore; other site 414684005061 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684005062 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 414684005063 putative C-terminal domain interface [polypeptide binding]; other site 414684005064 putative GSH binding site (G-site) [chemical binding]; other site 414684005065 putative dimer interface [polypeptide binding]; other site 414684005066 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 414684005067 dimer interface [polypeptide binding]; other site 414684005068 N-terminal domain interface [polypeptide binding]; other site 414684005069 putative substrate binding pocket (H-site) [chemical binding]; other site 414684005070 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 414684005071 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 414684005072 Ligand Binding Site [chemical binding]; other site 414684005073 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684005074 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684005075 aspartate aminotransferase; Provisional; Region: PRK05764 414684005076 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 414684005077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684005078 homodimer interface [polypeptide binding]; other site 414684005079 catalytic residue [active] 414684005080 excinuclease ABC subunit B; Provisional; Region: PRK05298 414684005081 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 414684005082 ATP binding site [chemical binding]; other site 414684005083 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 414684005084 nucleotide binding region [chemical binding]; other site 414684005085 ATP-binding site [chemical binding]; other site 414684005086 Ultra-violet resistance protein B; Region: UvrB; pfam12344 414684005087 UvrB/uvrC motif; Region: UVR; pfam02151 414684005088 short chain dehydrogenase; Provisional; Region: PRK09134 414684005089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684005090 NAD(P) binding site [chemical binding]; other site 414684005091 active site 414684005092 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 414684005093 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 414684005094 GIY-YIG motif/motif A; other site 414684005095 active site 414684005096 catalytic site [active] 414684005097 putative DNA binding site [nucleotide binding]; other site 414684005098 metal binding site [ion binding]; metal-binding site 414684005099 UvrB/uvrC motif; Region: UVR; pfam02151 414684005100 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 414684005101 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 414684005102 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 414684005103 MoaE interaction surface [polypeptide binding]; other site 414684005104 MoeB interaction surface [polypeptide binding]; other site 414684005105 thiocarboxylated glycine; other site 414684005106 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 414684005107 MoaE homodimer interface [polypeptide binding]; other site 414684005108 MoaD interaction [polypeptide binding]; other site 414684005109 active site residues [active] 414684005110 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684005111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005112 active site 414684005113 phosphorylation site [posttranslational modification] 414684005114 intermolecular recognition site; other site 414684005115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684005116 dimerization interface [polypeptide binding]; other site 414684005117 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684005118 dimer interface [polypeptide binding]; other site 414684005119 phosphorylation site [posttranslational modification] 414684005120 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684005121 ATP binding site [chemical binding]; other site 414684005122 Mg2+ binding site [ion binding]; other site 414684005123 G-X-G motif; other site 414684005124 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 414684005125 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 414684005126 homodimer interface [polypeptide binding]; other site 414684005127 substrate-cofactor binding pocket; other site 414684005128 catalytic residue [active] 414684005129 MarR family; Region: MarR_2; pfam12802 414684005130 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684005131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005132 active site 414684005133 phosphorylation site [posttranslational modification] 414684005134 intermolecular recognition site; other site 414684005135 dimerization interface [polypeptide binding]; other site 414684005136 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 414684005137 DNA binding site [nucleotide binding] 414684005138 HAMP domain; Region: HAMP; pfam00672 414684005139 dimerization interface [polypeptide binding]; other site 414684005140 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684005141 dimer interface [polypeptide binding]; other site 414684005142 phosphorylation site [posttranslational modification] 414684005143 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684005144 ATP binding site [chemical binding]; other site 414684005145 Mg2+ binding site [ion binding]; other site 414684005146 G-X-G motif; other site 414684005147 Phasin protein; Region: Phasin_2; pfam09361 414684005148 COQ9; Region: COQ9; pfam08511 414684005149 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 414684005150 putative deacylase active site [active] 414684005151 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 414684005152 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 414684005153 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 414684005154 Membrane fusogenic activity; Region: BMFP; pfam04380 414684005155 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 414684005156 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 414684005157 NADP binding site [chemical binding]; other site 414684005158 homopentamer interface [polypeptide binding]; other site 414684005159 substrate binding site [chemical binding]; other site 414684005160 active site 414684005161 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 414684005162 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 414684005163 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 414684005164 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 414684005165 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 414684005166 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 414684005167 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684005168 active site 414684005169 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 414684005170 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 414684005171 5S rRNA interface [nucleotide binding]; other site 414684005172 CTC domain interface [polypeptide binding]; other site 414684005173 L16 interface [polypeptide binding]; other site 414684005174 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 414684005175 putative active site [active] 414684005176 catalytic residue [active] 414684005177 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 414684005178 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 414684005179 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 414684005180 putative catalytic cysteine [active] 414684005181 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 414684005182 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 414684005183 active site 414684005184 (T/H)XGH motif; other site 414684005185 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 414684005186 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 414684005187 TPR repeat; Region: TPR_11; pfam13414 414684005188 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 414684005189 TPR motif; other site 414684005190 TPR repeat; Region: TPR_11; pfam13414 414684005191 binding surface 414684005192 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684005193 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 414684005194 Ligand binding site; other site 414684005195 Putative Catalytic site; other site 414684005196 DXD motif; other site 414684005197 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 414684005198 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 414684005199 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 414684005200 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 414684005201 homotrimer interaction site [polypeptide binding]; other site 414684005202 putative active site [active] 414684005203 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 414684005204 Protein of unknown function, DUF482; Region: DUF482; pfam04339 414684005205 WYL domain; Region: WYL; pfam13280 414684005206 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 414684005207 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 414684005208 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 414684005209 CRISPR/Cas system-associated protein Csx14; Region: Csx14_I-U; cd09765 414684005210 CRISPR/Cas system-associated protein Csb1; Region: Csb1_I-U; cl09834 414684005211 CRISPR-associated protein GSU0054/csb2, Dpsyc system; Region: cas_GSU0054; TIGR02165 414684005212 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 414684005213 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 414684005214 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 414684005215 Secretin and TonB N terminus short domain; Region: STN; smart00965 414684005216 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684005217 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 414684005218 N-terminal plug; other site 414684005219 ligand-binding site [chemical binding]; other site 414684005220 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684005221 FecR protein; Region: FecR; pfam04773 414684005222 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 414684005223 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 414684005224 DNA binding residues [nucleotide binding] 414684005225 Pirin-related protein [General function prediction only]; Region: COG1741 414684005226 Pirin; Region: Pirin; pfam02678 414684005227 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 414684005228 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 414684005229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684005230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684005231 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 414684005232 putative effector binding pocket; other site 414684005233 dimerization interface [polypeptide binding]; other site 414684005234 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 414684005235 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 414684005236 C-terminal domain interface [polypeptide binding]; other site 414684005237 GSH binding site (G-site) [chemical binding]; other site 414684005238 dimer interface [polypeptide binding]; other site 414684005239 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 414684005240 putative dimer interface [polypeptide binding]; other site 414684005241 N-terminal domain interface [polypeptide binding]; other site 414684005242 active site 414684005243 short chain dehydrogenase; Provisional; Region: PRK07576 414684005244 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 414684005245 NAD(P) binding site [chemical binding]; other site 414684005246 substrate binding site [chemical binding]; other site 414684005247 homotetramer interface [polypeptide binding]; other site 414684005248 active site 414684005249 homodimer interface [polypeptide binding]; other site 414684005250 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 414684005251 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 414684005252 active site 414684005253 thymidine kinase; Provisional; Region: PRK04296 414684005254 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 414684005255 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 414684005256 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684005257 active site 414684005258 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 414684005259 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 414684005260 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 414684005261 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684005262 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684005263 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 414684005264 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 414684005265 substrate binding site [chemical binding]; other site 414684005266 oxyanion hole (OAH) forming residues; other site 414684005267 trimer interface [polypeptide binding]; other site 414684005268 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 414684005269 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 414684005270 dimer interface [polypeptide binding]; other site 414684005271 active site 414684005272 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 414684005273 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 414684005274 DNA binding residues [nucleotide binding] 414684005275 putative dimer interface [polypeptide binding]; other site 414684005276 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 414684005277 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684005278 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 414684005279 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 414684005280 putative substrate translocation pore; other site 414684005281 POT family; Region: PTR2; cl17359 414684005282 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 414684005283 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 414684005284 substrate binding site [chemical binding]; other site 414684005285 dimer interface [polypeptide binding]; other site 414684005286 ATP binding site [chemical binding]; other site 414684005287 aminopeptidase N; Provisional; Region: pepN; PRK14015 414684005288 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 414684005289 active site 414684005290 Zn binding site [ion binding]; other site 414684005291 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 414684005292 putative ADP-ribose binding site [chemical binding]; other site 414684005293 putative active site [active] 414684005294 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 414684005295 Ligand Binding Site [chemical binding]; other site 414684005296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 414684005297 Predicted kinase [General function prediction only]; Region: COG0645 414684005298 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 414684005299 active site 414684005300 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 414684005301 BioY family; Region: BioY; pfam02632 414684005302 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 414684005303 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 414684005304 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 414684005305 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 414684005306 rod shape-determining protein MreC; Provisional; Region: PRK13922 414684005307 rod shape-determining protein MreC; Region: MreC; pfam04085 414684005308 rod shape-determining protein MreB; Provisional; Region: PRK13927 414684005309 MreB and similar proteins; Region: MreB_like; cd10225 414684005310 nucleotide binding site [chemical binding]; other site 414684005311 Mg binding site [ion binding]; other site 414684005312 putative protofilament interaction site [polypeptide binding]; other site 414684005313 RodZ interaction site [polypeptide binding]; other site 414684005314 2-isopropylmalate synthase; Validated; Region: PRK00915 414684005315 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 414684005316 active site 414684005317 catalytic residues [active] 414684005318 metal binding site [ion binding]; metal-binding site 414684005319 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 414684005320 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684005321 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684005322 ketol-acid reductoisomerase; Provisional; Region: PRK05479 414684005323 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 414684005324 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 414684005325 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 414684005326 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 414684005327 putative valine binding site [chemical binding]; other site 414684005328 dimer interface [polypeptide binding]; other site 414684005329 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 414684005330 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 414684005331 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 414684005332 PYR/PP interface [polypeptide binding]; other site 414684005333 dimer interface [polypeptide binding]; other site 414684005334 TPP binding site [chemical binding]; other site 414684005335 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 414684005336 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 414684005337 TPP-binding site [chemical binding]; other site 414684005338 dimer interface [polypeptide binding]; other site 414684005339 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 414684005340 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 414684005341 OpgC protein; Region: OpgC_C; pfam10129 414684005342 phosphoserine phosphatase SerB; Region: serB; TIGR00338 414684005343 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 414684005344 motif II; other site 414684005345 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 414684005346 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 414684005347 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 414684005348 protein binding site [polypeptide binding]; other site 414684005349 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 414684005350 protein binding site [polypeptide binding]; other site 414684005351 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 414684005352 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 414684005353 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 414684005354 HflK protein; Region: hflK; TIGR01933 414684005355 Domain of unknown function DUF59; Region: DUF59; pfam01883 414684005356 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 414684005357 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 414684005358 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 414684005359 homodimer interface [polypeptide binding]; other site 414684005360 substrate-cofactor binding pocket; other site 414684005361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684005362 catalytic residue [active] 414684005363 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 414684005364 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 414684005365 dimer interface [polypeptide binding]; other site 414684005366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684005367 catalytic residue [active] 414684005368 FOG: CBS domain [General function prediction only]; Region: COG0517 414684005369 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 414684005370 Protein of unknown function, DUF462; Region: DUF462; cl01190 414684005371 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 414684005372 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 414684005373 folate binding site [chemical binding]; other site 414684005374 NADP+ binding site [chemical binding]; other site 414684005375 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 414684005376 Transposase; Region: HTH_Tnp_1; cl17663 414684005377 Killing trait; Region: RebB; pfam11747 414684005378 Killing trait; Region: RebB; pfam11747 414684005379 Killing trait; Region: RebB; pfam11747 414684005380 Killing trait; Region: RebB; pfam11747 414684005381 Killing trait; Region: RebB; pfam11747 414684005382 Killing trait; Region: RebB; pfam11747 414684005383 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 414684005384 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 414684005385 DNA binding residues [nucleotide binding] 414684005386 thymidylate synthase; Reviewed; Region: thyA; PRK01827 414684005387 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 414684005388 dimerization interface [polypeptide binding]; other site 414684005389 active site 414684005390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 414684005391 TfoX N-terminal domain; Region: TfoX_N; pfam04993 414684005392 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 414684005393 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 414684005394 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 414684005395 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 414684005396 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684005397 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 414684005398 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 414684005399 DNA binding residues [nucleotide binding] 414684005400 DNA primase, catalytic core; Region: dnaG; TIGR01391 414684005401 CHC2 zinc finger; Region: zf-CHC2; cl17510 414684005402 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 414684005403 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 414684005404 active site 414684005405 metal binding site [ion binding]; metal-binding site 414684005406 interdomain interaction site; other site 414684005407 Uncharacterized conserved protein [Function unknown]; Region: COG1610 414684005408 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 414684005409 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 414684005410 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 414684005411 catalytic site [active] 414684005412 subunit interface [polypeptide binding]; other site 414684005413 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 414684005414 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684005415 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 414684005416 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 414684005417 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684005418 ATP-grasp domain; Region: ATP-grasp_4; cl17255 414684005419 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 414684005420 IMP binding site; other site 414684005421 dimer interface [polypeptide binding]; other site 414684005422 interdomain contacts; other site 414684005423 partial ornithine binding site; other site 414684005424 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 414684005425 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 414684005426 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 414684005427 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 414684005428 Chromate transporter; Region: Chromate_transp; pfam02417 414684005429 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684005430 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 414684005431 putative DNA binding site [nucleotide binding]; other site 414684005432 putative Zn2+ binding site [ion binding]; other site 414684005433 AsnC family; Region: AsnC_trans_reg; pfam01037 414684005434 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 414684005435 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 414684005436 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 414684005437 Predicted membrane protein [Function unknown]; Region: COG3766 414684005438 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 414684005439 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 414684005440 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 414684005441 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 414684005442 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 414684005443 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 414684005444 DNA binding residues [nucleotide binding] 414684005445 dimer interface [polypeptide binding]; other site 414684005446 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 414684005447 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 414684005448 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684005449 putative active site [active] 414684005450 putative metal binding site [ion binding]; other site 414684005451 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 414684005452 DNA photolyase; Region: DNA_photolyase; pfam00875 414684005453 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 414684005454 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 414684005455 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 414684005456 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 414684005457 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 414684005458 S-adenosylmethionine binding site [chemical binding]; other site 414684005459 MFS/sugar transport protein; Region: MFS_2; pfam13347 414684005460 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 414684005461 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 414684005462 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 414684005463 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 414684005464 S-adenosylmethionine binding site [chemical binding]; other site 414684005465 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 414684005466 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 414684005467 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 414684005468 active site 414684005469 oligoendopeptidase F; Region: pepF; TIGR00181 414684005470 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 414684005471 active site 414684005472 Zn binding site [ion binding]; other site 414684005473 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684005474 putative CheW interface [polypeptide binding]; other site 414684005475 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 414684005476 Part of AAA domain; Region: AAA_19; pfam13245 414684005477 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 414684005478 protein-splicing catalytic site; other site 414684005479 thioester formation/cholesterol transfer; other site 414684005480 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 414684005481 protein-splicing catalytic site; other site 414684005482 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 414684005483 Family description; Region: UvrD_C_2; pfam13538 414684005484 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684005485 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684005486 metal binding site [ion binding]; metal-binding site 414684005487 active site 414684005488 I-site; other site 414684005489 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005490 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 414684005491 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005492 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005493 methionine synt Hase fragment pseudogene 414684005494 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 414684005495 oligomeric interface; other site 414684005496 putative active site [active] 414684005497 homodimer interface [polypeptide binding]; other site 414684005498 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 414684005499 methionine synt Hase fragment pseudogene;identified by match to protein family HMM PF03738 414684005500 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 414684005501 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684005502 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 414684005503 putative active site [active] 414684005504 heme pocket [chemical binding]; other site 414684005505 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684005506 Histidine kinase; Region: HisKA_2; pfam07568 414684005507 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684005508 ATP binding site [chemical binding]; other site 414684005509 Mg2+ binding site [ion binding]; other site 414684005510 G-X-G motif; other site 414684005511 Beta/Gamma crystallin; Region: Crystall; cl02528 414684005512 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 414684005513 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 414684005514 FAD binding site [chemical binding]; other site 414684005515 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 414684005516 dimerization interface [polypeptide binding]; other site 414684005517 putative DNA binding site [nucleotide binding]; other site 414684005518 putative Zn2+ binding site [ion binding]; other site 414684005519 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 414684005520 Methyltransferase domain; Region: Methyltransf_31; pfam13847 414684005521 S-adenosylmethionine binding site [chemical binding]; other site 414684005522 VacJ like lipoprotein; Region: VacJ; cl01073 414684005523 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 414684005524 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684005525 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684005526 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684005527 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684005528 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684005529 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 414684005530 Walker A/P-loop; other site 414684005531 ATP binding site [chemical binding]; other site 414684005532 Q-loop/lid; other site 414684005533 ABC transporter signature motif; other site 414684005534 Walker B; other site 414684005535 D-loop; other site 414684005536 H-loop/switch region; other site 414684005537 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 414684005538 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684005539 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 414684005540 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 414684005541 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 414684005542 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684005543 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684005544 ABC transporter; Region: ABC_tran_2; pfam12848 414684005545 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684005546 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 414684005547 Predicted membrane protein [Function unknown]; Region: COG3671 414684005548 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 414684005549 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684005550 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 414684005551 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 414684005552 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 414684005553 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 414684005554 COQ9; Region: COQ9; pfam08511 414684005555 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 414684005556 active site 414684005557 catalytic residues [active] 414684005558 metal binding site [ion binding]; metal-binding site 414684005559 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 414684005560 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 414684005561 active site 414684005562 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 414684005563 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 414684005564 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 414684005565 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 414684005566 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 414684005567 ligand binding site [chemical binding]; other site 414684005568 homodimer interface [polypeptide binding]; other site 414684005569 NAD(P) binding site [chemical binding]; other site 414684005570 trimer interface B [polypeptide binding]; other site 414684005571 trimer interface A [polypeptide binding]; other site 414684005572 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 414684005573 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 414684005574 active site 414684005575 metal binding site [ion binding]; metal-binding site 414684005576 nudix motif; other site 414684005577 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 414684005578 UbiA prenyltransferase family; Region: UbiA; pfam01040 414684005579 PUCC protein; Region: PUCC; pfam03209 414684005580 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 414684005581 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 414684005582 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 414684005583 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 414684005584 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 414684005585 metal ion-dependent adhesion site (MIDAS); other site 414684005586 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 414684005587 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684005588 phytoene desaturase; Region: crtI_fam; TIGR02734 414684005589 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 414684005590 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 414684005591 active site lid residues [active] 414684005592 substrate binding pocket [chemical binding]; other site 414684005593 catalytic residues [active] 414684005594 substrate-Mg2+ binding site; other site 414684005595 aspartate-rich region 1; other site 414684005596 aspartate-rich region 2; other site 414684005597 hydroxyneurosporene synt Hase (CrtC), pseudogene;[synonys] Hydroxyneurosporene synt Hase identified by match to protein family HMM PF01327 match to protein family HMM TIGR00079 414684005598 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684005599 phytoene desaturase; Region: crtI_fam; TIGR02734 414684005600 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 414684005601 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 414684005602 substrate binding pocket [chemical binding]; other site 414684005603 chain length determination region; other site 414684005604 substrate-Mg2+ binding site; other site 414684005605 catalytic residues [active] 414684005606 aspartate-rich region 1; other site 414684005607 active site lid residues [active] 414684005608 aspartate-rich region 2; other site 414684005609 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 414684005610 S-adenosylmethionine binding site [chemical binding]; other site 414684005611 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 414684005612 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 414684005613 putative NAD(P) binding site [chemical binding]; other site 414684005614 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 414684005615 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 414684005616 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 414684005617 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 414684005618 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 414684005619 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 414684005620 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 414684005621 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 414684005622 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 414684005623 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 414684005624 subunit M interface; other site 414684005625 subunit H interface; other site 414684005626 quinone binding site; other site 414684005627 bacteriopheophytin binding site; other site 414684005628 bacteriochlorophyll binding site; other site 414684005629 cytochrome C subunit interface; other site 414684005630 Fe binding site [ion binding]; other site 414684005631 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 414684005632 subunit H interface; other site 414684005633 subunit L interface; other site 414684005634 bacteriopheophytin binding site; other site 414684005635 carotenoid binding site; other site 414684005636 bacteriochlorophyll binding site; other site 414684005637 cytochrome C interface; other site 414684005638 quinone binding site; other site 414684005639 Fe binding site [ion binding]; other site 414684005640 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 414684005641 subunit interface [polypeptide binding]; other site 414684005642 Heme binding sites [chemical binding]; other site 414684005643 Cytochrome c; Region: Cytochrom_C; cl11414 414684005644 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 414684005645 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 414684005646 substrate-cofactor binding pocket; other site 414684005647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684005648 catalytic residue [active] 414684005649 Protein of unknown function (DUF3623); Region: DUF3623; pfam12291 414684005650 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 414684005651 diiron binding motif [ion binding]; other site 414684005652 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 414684005653 Bacterial PH domain; Region: DUF304; cl01348 414684005654 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 414684005655 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; cl17581 414684005656 subunit C interaction residues; other site 414684005657 subunit M interaction residues [polypeptide binding]; other site 414684005658 subunit L interaction residues [polypeptide binding]; other site 414684005659 putative proton transfer pathway, P1; other site 414684005660 putative proton transfer pathway, P2; other site 414684005661 PUCC protein; Region: PUCC; pfam03209 414684005662 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 414684005663 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 414684005664 S-adenosylmethionine binding site [chemical binding]; other site 414684005665 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 414684005666 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 414684005667 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 414684005668 P-loop; other site 414684005669 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 414684005670 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 414684005671 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 414684005672 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 414684005673 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 414684005674 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 414684005675 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 414684005676 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 414684005677 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 414684005678 B12 binding domain; Region: B12-binding_2; pfam02607 414684005679 B12 binding domain; Region: B12-binding; pfam02310 414684005680 B12 binding site [chemical binding]; other site 414684005681 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 414684005682 PAS domain; Region: PAS_8; pfam13188 414684005683 putative active site [active] 414684005684 heme pocket [chemical binding]; other site 414684005685 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 414684005686 putative active site [active] 414684005687 heme pocket [chemical binding]; other site 414684005688 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 414684005689 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 414684005690 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 414684005691 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 414684005692 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 414684005693 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 414684005694 catalytic site [active] 414684005695 active site 414684005696 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 414684005697 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 414684005698 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 414684005699 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 414684005700 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 414684005701 diiron binding motif [ion binding]; other site 414684005702 DEAD-like helicases superfamily; Region: DEXDc; smart00487 414684005703 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 414684005704 nucleotide binding region [chemical binding]; other site 414684005705 ATP-binding site [chemical binding]; other site 414684005706 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 414684005707 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684005708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005709 active site 414684005710 phosphorylation site [posttranslational modification] 414684005711 intermolecular recognition site; other site 414684005712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005713 phosphorylation site [posttranslational modification] 414684005714 intermolecular recognition site; other site 414684005715 PAS domain S-box; Region: sensory_box; TIGR00229 414684005716 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684005717 HWE histidine kinase; Region: HWE_HK; pfam07536 414684005718 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 414684005719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005720 active site 414684005721 phosphorylation site [posttranslational modification] 414684005722 intermolecular recognition site; other site 414684005723 dimerization interface [polypeptide binding]; other site 414684005724 CheB methylesterase; Region: CheB_methylest; pfam01339 414684005725 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 414684005726 putative binding surface; other site 414684005727 active site 414684005728 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684005729 ATP binding site [chemical binding]; other site 414684005730 Mg2+ binding site [ion binding]; other site 414684005731 G-X-G motif; other site 414684005732 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 414684005733 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684005734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005735 active site 414684005736 phosphorylation site [posttranslational modification] 414684005737 intermolecular recognition site; other site 414684005738 dimerization interface [polypeptide binding]; other site 414684005739 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 414684005740 dimerization interface [polypeptide binding]; other site 414684005741 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684005742 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684005743 dimer interface [polypeptide binding]; other site 414684005744 putative CheW interface [polypeptide binding]; other site 414684005745 CheW-like domain; Region: CheW; pfam01584 414684005746 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684005747 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 414684005748 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 414684005749 CheW-like domain; Region: CheW; pfam01584 414684005750 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684005751 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 414684005752 ABC1 family; Region: ABC1; pfam03109 414684005753 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 414684005754 active site 414684005755 ATP binding site [chemical binding]; other site 414684005756 pyruvate kinase; Provisional; Region: PRK06247 414684005757 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 414684005758 domain interfaces; other site 414684005759 active site 414684005760 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 414684005761 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 414684005762 MOFRL family; Region: MOFRL; pfam05161 414684005763 N-formylglutamate amidohydrolase; Region: FGase; cl01522 414684005764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 414684005765 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 414684005766 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 414684005767 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684005768 active site 414684005769 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 414684005770 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 414684005771 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 414684005772 [2Fe-2S] cluster binding site [ion binding]; other site 414684005773 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 414684005774 hydrophobic ligand binding site; other site 414684005775 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 414684005776 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 414684005777 active site 414684005778 Zn binding site [ion binding]; other site 414684005779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005780 active site 414684005781 phosphorylation site [posttranslational modification] 414684005782 intermolecular recognition site; other site 414684005783 dimerization interface [polypeptide binding]; other site 414684005784 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 414684005785 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684005786 ligand binding site [chemical binding]; other site 414684005787 flexible hinge region; other site 414684005788 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 414684005789 non-specific DNA interactions [nucleotide binding]; other site 414684005790 DNA binding site [nucleotide binding] 414684005791 sequence specific DNA binding site [nucleotide binding]; other site 414684005792 putative cAMP binding site [chemical binding]; other site 414684005793 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 414684005794 Cysteine-rich domain; Region: CCG; pfam02754 414684005795 Cysteine-rich domain; Region: CCG; pfam02754 414684005796 Protein of unknown function, DUF393; Region: DUF393; pfam04134 414684005797 FAD binding domain; Region: FAD_binding_4; pfam01565 414684005798 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 414684005799 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 414684005800 FAD binding domain; Region: FAD_binding_4; pfam01565 414684005801 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 414684005802 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 414684005803 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 414684005804 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 414684005805 protein binding site [polypeptide binding]; other site 414684005806 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 414684005807 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684005808 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 414684005809 S-adenosylmethionine binding site [chemical binding]; other site 414684005810 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 414684005811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684005812 active site 414684005813 phosphorylation site [posttranslational modification] 414684005814 intermolecular recognition site; other site 414684005815 dimerization interface [polypeptide binding]; other site 414684005816 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 414684005817 Walker A motif; other site 414684005818 ATP binding site [chemical binding]; other site 414684005819 Walker B motif; other site 414684005820 arginine finger; other site 414684005821 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 414684005822 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 414684005823 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684005824 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 414684005825 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 414684005826 DNA-binding site [nucleotide binding]; DNA binding site 414684005827 RNA-binding motif; other site 414684005828 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 414684005829 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 414684005830 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 414684005831 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684005832 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005833 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005834 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005835 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 414684005836 catalytic triad [active] 414684005837 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 414684005838 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 414684005839 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 414684005840 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 414684005841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684005842 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 414684005843 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 414684005844 DNA binding residues [nucleotide binding] 414684005845 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 414684005846 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 414684005847 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 414684005848 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 414684005849 tetramer interface [polypeptide binding]; other site 414684005850 heme binding pocket [chemical binding]; other site 414684005851 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684005852 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684005853 dimer interface [polypeptide binding]; other site 414684005854 putative CheW interface [polypeptide binding]; other site 414684005855 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 414684005856 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 414684005857 FAD binding pocket [chemical binding]; other site 414684005858 FAD binding motif [chemical binding]; other site 414684005859 phosphate binding motif [ion binding]; other site 414684005860 beta-alpha-beta structure motif; other site 414684005861 NAD binding pocket [chemical binding]; other site 414684005862 siroheme synthase; Provisional; Region: cysG; PRK10637 414684005863 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 414684005864 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 414684005865 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 414684005866 active site 414684005867 SAM binding site [chemical binding]; other site 414684005868 homodimer interface [polypeptide binding]; other site 414684005869 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 414684005870 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 414684005871 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 414684005872 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 414684005873 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 414684005874 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 414684005875 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 414684005876 Active Sites [active] 414684005877 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 414684005878 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 414684005879 Active Sites [active] 414684005880 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 414684005881 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 414684005882 CysD dimerization site [polypeptide binding]; other site 414684005883 G1 box; other site 414684005884 putative GEF interaction site [polypeptide binding]; other site 414684005885 GTP/Mg2+ binding site [chemical binding]; other site 414684005886 Switch I region; other site 414684005887 G2 box; other site 414684005888 G3 box; other site 414684005889 Switch II region; other site 414684005890 G4 box; other site 414684005891 G5 box; other site 414684005892 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 414684005893 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 414684005894 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 414684005895 ligand-binding site [chemical binding]; other site 414684005896 PAS domain; Region: PAS_5; pfam07310 414684005897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 414684005898 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 414684005899 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 414684005900 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 414684005901 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 414684005902 active site 414684005903 Zn binding site [ion binding]; other site 414684005904 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 414684005905 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 414684005906 CoA-ligase; Region: Ligase_CoA; pfam00549 414684005907 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 414684005908 CoA binding domain; Region: CoA_binding; pfam02629 414684005909 CoA-ligase; Region: Ligase_CoA; pfam00549 414684005910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 414684005911 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 414684005912 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 414684005913 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 414684005914 ApbE family; Region: ApbE; pfam02424 414684005915 Sensors of blue-light using FAD; Region: BLUF; pfam04940 414684005916 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 414684005917 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 414684005918 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 414684005919 P loop; other site 414684005920 GTP binding site [chemical binding]; other site 414684005921 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 414684005922 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 414684005923 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 414684005924 FeS/SAM binding site; other site 414684005925 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 414684005926 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 414684005927 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 414684005928 serine acetyltransferase; Provisional; Region: cysE; PRK11132 414684005929 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 414684005930 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 414684005931 trimer interface [polypeptide binding]; other site 414684005932 active site 414684005933 substrate binding site [chemical binding]; other site 414684005934 CoA binding site [chemical binding]; other site 414684005935 GtrA-like protein; Region: GtrA; pfam04138 414684005936 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 414684005937 Ligand binding site; other site 414684005938 Putative Catalytic site; other site 414684005939 DXD motif; other site 414684005940 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684005941 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005942 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005943 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005944 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684005945 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005946 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005947 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684005948 signal recognition particle protein; Provisional; Region: PRK10867 414684005949 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 414684005950 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 414684005951 P loop; other site 414684005952 GTP binding site [chemical binding]; other site 414684005953 Signal peptide binding domain; Region: SRP_SPB; pfam02978 414684005954 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684005955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 414684005956 Coenzyme A binding pocket [chemical binding]; other site 414684005957 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 414684005958 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 414684005959 RimM N-terminal domain; Region: RimM; pfam01782 414684005960 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 414684005961 PRC-barrel domain; Region: PRC; pfam05239 414684005962 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 414684005963 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 414684005964 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 414684005965 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005966 peptide binding site [polypeptide binding]; other site 414684005967 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 414684005968 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005969 peptide binding site [polypeptide binding]; other site 414684005970 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 414684005971 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005972 peptide binding site [polypeptide binding]; other site 414684005973 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 414684005974 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005975 peptide binding site [polypeptide binding]; other site 414684005976 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684005977 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 414684005978 peptide binding site [polypeptide binding]; other site 414684005979 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 414684005980 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 414684005981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684005982 Walker A/P-loop; other site 414684005983 ATP binding site [chemical binding]; other site 414684005984 Q-loop/lid; other site 414684005985 ABC transporter signature motif; other site 414684005986 Walker B; other site 414684005987 D-loop; other site 414684005988 H-loop/switch region; other site 414684005989 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 414684005990 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 414684005991 dimer interface [polypeptide binding]; other site 414684005992 conserved gate region; other site 414684005993 putative PBP binding loops; other site 414684005994 ABC-ATPase subunit interface; other site 414684005995 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 414684005996 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 414684005997 Protein of unknown function (DUF938); Region: DUF938; pfam06080 414684005998 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 414684005999 putative metal binding site [ion binding]; other site 414684006000 Ferredoxin [Energy production and conversion]; Region: COG1146 414684006001 4Fe-4S binding domain; Region: Fer4; cl02805 414684006002 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 414684006003 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 414684006004 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 414684006005 active site 414684006006 metal binding site [ion binding]; metal-binding site 414684006007 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 414684006008 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684006009 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 414684006010 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 414684006011 DNA binding residues [nucleotide binding] 414684006012 Cache domain; Region: Cache_1; pfam02743 414684006013 HAMP domain; Region: HAMP; pfam00672 414684006014 dimerization interface [polypeptide binding]; other site 414684006015 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 414684006016 cyclase homology domain; Region: CHD; cd07302 414684006017 nucleotidyl binding site; other site 414684006018 metal binding site [ion binding]; metal-binding site 414684006019 dimer interface [polypeptide binding]; other site 414684006020 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 414684006021 Peptidase family M48; Region: Peptidase_M48; pfam01435 414684006022 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 414684006023 heme-binding site [chemical binding]; other site 414684006024 NnrU protein; Region: NnrU; cl17713 414684006025 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 414684006026 TAP-like protein; Region: Abhydrolase_4; pfam08386 414684006027 potassium/proton antiporter; Reviewed; Region: PRK05326 414684006028 TrkA-C domain; Region: TrkA_C; pfam02080 414684006029 Transporter associated domain; Region: CorC_HlyC; smart01091 414684006030 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 414684006031 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 414684006032 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 414684006033 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 414684006034 putative NADH binding site [chemical binding]; other site 414684006035 putative active site [active] 414684006036 nudix motif; other site 414684006037 putative metal binding site [ion binding]; other site 414684006038 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 414684006039 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 414684006040 dinuclear metal binding motif [ion binding]; other site 414684006041 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 414684006042 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 414684006043 gamma subunit interface [polypeptide binding]; other site 414684006044 epsilon subunit interface [polypeptide binding]; other site 414684006045 LBP interface [polypeptide binding]; other site 414684006046 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 414684006047 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 414684006048 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 414684006049 alpha subunit interaction interface [polypeptide binding]; other site 414684006050 Walker A motif; other site 414684006051 ATP binding site [chemical binding]; other site 414684006052 Walker B motif; other site 414684006053 inhibitor binding site; inhibition site 414684006054 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684006055 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 414684006056 core domain interface [polypeptide binding]; other site 414684006057 delta subunit interface [polypeptide binding]; other site 414684006058 epsilon subunit interface [polypeptide binding]; other site 414684006059 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 414684006060 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 414684006061 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 414684006062 beta subunit interaction interface [polypeptide binding]; other site 414684006063 Walker A motif; other site 414684006064 ATP binding site [chemical binding]; other site 414684006065 Walker B motif; other site 414684006066 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 414684006067 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 414684006068 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 414684006069 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 414684006070 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 414684006071 active site 414684006072 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 414684006073 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 414684006074 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 414684006075 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684006076 putative active site [active] 414684006077 putative metal binding site [ion binding]; other site 414684006078 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684006079 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 414684006080 DinB family; Region: DinB; cl17821 414684006081 primosome assembly protein PriA; Validated; Region: PRK05580 414684006082 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 414684006083 ATP binding site [chemical binding]; other site 414684006084 putative Mg++ binding site [ion binding]; other site 414684006085 helicase superfamily c-terminal domain; Region: HELICc; smart00490 414684006086 nucleotide binding region [chemical binding]; other site 414684006087 ATP-binding site [chemical binding]; other site 414684006088 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 414684006089 non-specific DNA binding site [nucleotide binding]; other site 414684006090 salt bridge; other site 414684006091 sequence-specific DNA binding site [nucleotide binding]; other site 414684006092 Protein of unknown function (DUF497); Region: DUF497; pfam04365 414684006093 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 414684006094 active site 414684006095 intersubunit interactions; other site 414684006096 catalytic residue [active] 414684006097 Protein of unknown function, DUF484; Region: DUF484; cl17449 414684006098 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 414684006099 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 414684006100 active site 414684006101 DNA binding site [nucleotide binding] 414684006102 Int/Topo IB signature motif; other site 414684006103 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 414684006104 sequence-specific DNA binding site [nucleotide binding]; other site 414684006105 salt bridge; other site 414684006106 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 414684006107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 414684006108 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684006109 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684006110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684006111 dimer interface [polypeptide binding]; other site 414684006112 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684006113 putative CheW interface [polypeptide binding]; other site 414684006114 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684006115 dimer interface [polypeptide binding]; other site 414684006116 phosphorylation site [posttranslational modification] 414684006117 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006118 ATP binding site [chemical binding]; other site 414684006119 Mg2+ binding site [ion binding]; other site 414684006120 G-X-G motif; other site 414684006121 Response regulator receiver domain; Region: Response_reg; pfam00072 414684006122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006123 active site 414684006124 phosphorylation site [posttranslational modification] 414684006125 intermolecular recognition site; other site 414684006126 dimerization interface [polypeptide binding]; other site 414684006127 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 414684006128 E3 interaction surface; other site 414684006129 lipoyl attachment site [posttranslational modification]; other site 414684006130 e3 binding domain; Region: E3_binding; pfam02817 414684006131 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 414684006132 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 414684006133 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 414684006134 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 414684006135 TPP-binding site [chemical binding]; other site 414684006136 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 414684006137 dimer interface [polypeptide binding]; other site 414684006138 PYR/PP interface [polypeptide binding]; other site 414684006139 TPP binding site [chemical binding]; other site 414684006140 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 414684006141 active site 414684006142 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 414684006143 active site 414684006144 catalytic motif [active] 414684006145 Zn binding site [ion binding]; other site 414684006146 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 414684006147 intersubunit interface [polypeptide binding]; other site 414684006148 active site 414684006149 catalytic residue [active] 414684006150 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 414684006151 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 414684006152 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 414684006153 active site 414684006154 catalytic site [active] 414684006155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006156 Response regulator receiver domain; Region: Response_reg; pfam00072 414684006157 active site 414684006158 phosphorylation site [posttranslational modification] 414684006159 intermolecular recognition site; other site 414684006160 dimerization interface [polypeptide binding]; other site 414684006161 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 414684006162 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 414684006163 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 414684006164 active site 414684006165 catalytic site [active] 414684006166 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 414684006167 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 414684006168 EamA-like transporter family; Region: EamA; cl17759 414684006169 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 414684006170 tetramerization interface [polypeptide binding]; other site 414684006171 active site 414684006172 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 414684006173 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 414684006174 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 414684006175 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 414684006176 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 414684006177 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 414684006178 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 414684006179 S-adenosylmethionine binding site [chemical binding]; other site 414684006180 mercuric reductase; Validated; Region: PRK06370 414684006181 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684006182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684006183 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 414684006184 Uncharacterized conserved protein [Function unknown]; Region: COG0398 414684006185 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 414684006186 Ribonuclease P; Region: Ribonuclease_P; pfam00825 414684006187 membrane protein insertase; Provisional; Region: PRK01318 414684006188 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 414684006189 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 414684006190 G1 box; other site 414684006191 GTP/Mg2+ binding site [chemical binding]; other site 414684006192 Switch I region; other site 414684006193 G2 box; other site 414684006194 G3 box; other site 414684006195 Switch II region; other site 414684006196 G4 box; other site 414684006197 G5 box; other site 414684006198 TAP-like protein; Region: Abhydrolase_4; pfam08386 414684006199 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 414684006200 feedback inhibition sensing region; other site 414684006201 homohexameric interface [polypeptide binding]; other site 414684006202 nucleotide binding site [chemical binding]; other site 414684006203 N-acetyl-L-glutamate binding site [chemical binding]; other site 414684006204 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 414684006205 PAS domain S-box; Region: sensory_box; TIGR00229 414684006206 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 414684006207 putative active site [active] 414684006208 heme pocket [chemical binding]; other site 414684006209 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684006210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684006211 metal binding site [ion binding]; metal-binding site 414684006212 active site 414684006213 I-site; other site 414684006214 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 414684006215 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 414684006216 motif II; other site 414684006217 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 414684006218 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 414684006219 trimer interface [polypeptide binding]; other site 414684006220 active site 414684006221 substrate binding site [chemical binding]; other site 414684006222 CoA binding site [chemical binding]; other site 414684006223 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 414684006224 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 414684006225 metal binding site [ion binding]; metal-binding site 414684006226 dimer interface [polypeptide binding]; other site 414684006227 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 414684006228 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 414684006229 dimerization interface 3.5A [polypeptide binding]; other site 414684006230 active site 414684006231 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 414684006232 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 414684006233 putative active site [active] 414684006234 substrate binding site [chemical binding]; other site 414684006235 putative cosubstrate binding site; other site 414684006236 catalytic site [active] 414684006237 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 414684006238 substrate binding site [chemical binding]; other site 414684006239 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 414684006240 active site 414684006241 catalytic residues [active] 414684006242 metal binding site [ion binding]; metal-binding site 414684006243 RmuC family; Region: RmuC; pfam02646 414684006244 HEPN domain; Region: HEPN; pfam05168 414684006245 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 414684006246 active site 414684006247 NTP binding site [chemical binding]; other site 414684006248 metal binding triad [ion binding]; metal-binding site 414684006249 antibiotic binding site [chemical binding]; other site 414684006250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006251 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684006252 NAD(P) binding site [chemical binding]; other site 414684006253 active site 414684006254 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684006255 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 414684006256 recombination protein RecR; Reviewed; Region: recR; PRK00076 414684006257 RecR protein; Region: RecR; pfam02132 414684006258 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 414684006259 putative active site [active] 414684006260 putative metal-binding site [ion binding]; other site 414684006261 tetramer interface [polypeptide binding]; other site 414684006262 hypothetical protein; Validated; Region: PRK00153 414684006263 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 414684006264 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 414684006265 Walker A motif; other site 414684006266 ATP binding site [chemical binding]; other site 414684006267 Walker B motif; other site 414684006268 arginine finger; other site 414684006269 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 414684006270 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 414684006271 Protein of unknown function, DUF488; Region: DUF488; pfam04343 414684006272 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684006273 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 414684006274 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 414684006275 PA/protease or protease-like domain interface [polypeptide binding]; other site 414684006276 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 414684006277 metal binding site [ion binding]; metal-binding site 414684006278 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684006279 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 414684006280 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 414684006281 PA/protease or protease-like domain interface [polypeptide binding]; other site 414684006282 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 414684006283 metal binding site [ion binding]; metal-binding site 414684006284 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 414684006285 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 414684006286 23S rRNA binding site [nucleotide binding]; other site 414684006287 L21 binding site [polypeptide binding]; other site 414684006288 L13 binding site [polypeptide binding]; other site 414684006289 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 414684006290 putative active site [active] 414684006291 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 414684006292 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 414684006293 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 414684006294 dimer interface [polypeptide binding]; other site 414684006295 motif 1; other site 414684006296 active site 414684006297 motif 2; other site 414684006298 motif 3; other site 414684006299 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 414684006300 PemK-like protein; Region: PemK; pfam02452 414684006301 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 414684006302 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 414684006303 putative tRNA-binding site [nucleotide binding]; other site 414684006304 B3/4 domain; Region: B3_4; pfam03483 414684006305 tRNA synthetase B5 domain; Region: B5; smart00874 414684006306 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 414684006307 dimer interface [polypeptide binding]; other site 414684006308 motif 3; other site 414684006309 motif 2; other site 414684006310 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 414684006311 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 414684006312 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 414684006313 dimerization interface [polypeptide binding]; other site 414684006314 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684006315 dimer interface [polypeptide binding]; other site 414684006316 putative CheW interface [polypeptide binding]; other site 414684006317 Acyltransferase family; Region: Acyl_transf_3; pfam01757 414684006318 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 414684006319 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 414684006320 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 414684006321 Peptidase S46; Region: Peptidase_S46; pfam10459 414684006322 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 414684006323 maleylacetoacetate isomerase; Region: maiA; TIGR01262 414684006324 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 414684006325 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 414684006326 N-terminal domain interface [polypeptide binding]; other site 414684006327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 414684006328 malonyl-CoA synthase; Validated; Region: PRK07514 414684006329 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 414684006330 acyl-activating enzyme (AAE) consensus motif; other site 414684006331 active site 414684006332 AMP binding site [chemical binding]; other site 414684006333 CoA binding site [chemical binding]; other site 414684006334 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 414684006335 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 414684006336 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 414684006337 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684006338 putative C-terminal domain interface [polypeptide binding]; other site 414684006339 putative GSH binding site (G-site) [chemical binding]; other site 414684006340 putative dimer interface [polypeptide binding]; other site 414684006341 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 414684006342 putative substrate binding pocket (H-site) [chemical binding]; other site 414684006343 putative N-terminal domain interface [polypeptide binding]; other site 414684006344 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 414684006345 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 414684006346 interface (dimer of trimers) [polypeptide binding]; other site 414684006347 Substrate-binding/catalytic site; other site 414684006348 Zn-binding sites [ion binding]; other site 414684006349 Transcriptional regulators [Transcription]; Region: MarR; COG1846 414684006350 MarR family; Region: MarR; pfam01047 414684006351 Src Homology 3 domain superfamily; Region: SH3; cl17036 414684006352 peptide ligand binding site [polypeptide binding]; other site 414684006353 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 414684006354 NlpC/P60 family; Region: NLPC_P60; cl17555 414684006355 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 414684006356 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 414684006357 substrate binding site [chemical binding]; other site 414684006358 ligand binding site [chemical binding]; other site 414684006359 methyl-accepting chemotaxis protein, pseudogene;identified by match to protein family HMM PF05685 414684006360 acetyl-CoA synthetase; Provisional; Region: PRK00174 414684006361 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 414684006362 active site 414684006363 CoA binding site [chemical binding]; other site 414684006364 acyl-activating enzyme (AAE) consensus motif; other site 414684006365 AMP binding site [chemical binding]; other site 414684006366 acetate binding site [chemical binding]; other site 414684006367 Transposase domain (DUF772); Region: DUF772; pfam05598 414684006368 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 414684006369 TIGR02680 family protein; Region: TIGR02680 414684006370 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 414684006371 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684006372 ligand binding site [chemical binding]; other site 414684006373 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 414684006374 Catalytic site; other site 414684006375 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 414684006376 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 414684006377 heat shock protein HtpX; Provisional; Region: PRK01345 414684006378 16S rRNA methyltransferase B; Provisional; Region: PRK10901 414684006379 NusB family; Region: NusB; pfam01029 414684006380 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 414684006381 S-adenosylmethionine binding site [chemical binding]; other site 414684006382 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 414684006383 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 414684006384 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 414684006385 substrate binding site [chemical binding]; other site 414684006386 hexamer interface [polypeptide binding]; other site 414684006387 metal binding site [ion binding]; metal-binding site 414684006388 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 414684006389 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 414684006390 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 414684006391 purine monophosphate binding site [chemical binding]; other site 414684006392 dimer interface [polypeptide binding]; other site 414684006393 putative catalytic residues [active] 414684006394 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 414684006395 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 414684006396 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 414684006397 nudix motif; other site 414684006398 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 414684006399 iron-sulfur cluster [ion binding]; other site 414684006400 [2Fe-2S] cluster binding site [ion binding]; other site 414684006401 EVE domain; Region: EVE; pfam01878 414684006402 YciI-like protein; Reviewed; Region: PRK12863 414684006403 BON domain; Region: BON; pfam04972 414684006404 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 414684006405 active site 414684006406 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 414684006407 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 414684006408 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 414684006409 UGMP family protein; Validated; Region: PRK09604 414684006410 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 414684006411 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 414684006412 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 414684006413 domain interfaces; other site 414684006414 active site 414684006415 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 414684006416 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 414684006417 active site 414684006418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 414684006419 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 414684006420 HemY protein N-terminus; Region: HemY_N; pfam07219 414684006421 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 414684006422 CobD/Cbib protein; Region: CobD_Cbib; cl00561 414684006423 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 414684006424 putative amphipathic alpha helix; other site 414684006425 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 414684006426 cobalamin synthase; Reviewed; Region: cobS; PRK00235 414684006427 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 414684006428 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 414684006429 putative dimer interface [polypeptide binding]; other site 414684006430 active site pocket [active] 414684006431 putative cataytic base [active] 414684006432 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 414684006433 Disaggregatase related; Region: Disaggr_assoc; pfam08480 414684006434 Right handed beta helix region; Region: Beta_helix; pfam13229 414684006435 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 414684006436 dimer interface [polypeptide binding]; other site 414684006437 putative tRNA-binding site [nucleotide binding]; other site 414684006438 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 414684006439 GTP cyclohydrolase I; Provisional; Region: PLN03044 414684006440 active site 414684006441 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 414684006442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684006443 Coenzyme A binding pocket [chemical binding]; other site 414684006444 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 414684006445 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684006446 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684006447 ABC transporter; Region: ABC_tran_2; pfam12848 414684006448 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 414684006449 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 414684006450 HipA N-terminal domain; Region: Couple_hipA; cl11853 414684006451 HipA-like N-terminal domain; Region: HipA_N; pfam07805 414684006452 HipA-like C-terminal domain; Region: HipA_C; pfam07804 414684006453 Transposase domain (DUF772); Region: DUF772; pfam05598 414684006454 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 414684006455 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 414684006456 Putative phosphatase (DUF442); Region: DUF442; cl17385 414684006457 Fic family protein [Function unknown]; Region: COG3177 414684006458 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 414684006459 Fic/DOC family; Region: Fic; pfam02661 414684006460 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 414684006461 putative DNA binding site [nucleotide binding]; other site 414684006462 Transposase; Region: DDE_Tnp_ISL3; pfam01610 414684006463 Transposase; Region: DDE_Tnp_ISL3; pfam01610 414684006464 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 414684006465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684006466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684006467 PhoD-like phosphatase; Region: PhoD; pfam09423 414684006468 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684006469 putative active site [active] 414684006470 putative metal binding site [ion binding]; other site 414684006471 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 414684006472 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684006473 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684006474 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 414684006475 IHF dimer interface [polypeptide binding]; other site 414684006476 IHF - DNA interface [nucleotide binding]; other site 414684006477 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 414684006478 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 414684006479 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 414684006480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 414684006481 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684006482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006483 active site 414684006484 phosphorylation site [posttranslational modification] 414684006485 intermolecular recognition site; other site 414684006486 dimerization interface [polypeptide binding]; other site 414684006487 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 414684006488 PAS fold; Region: PAS_3; pfam08447 414684006489 putative active site [active] 414684006490 heme pocket [chemical binding]; other site 414684006491 PAS domain; Region: PAS_9; pfam13426 414684006492 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 414684006493 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684006494 HWE histidine kinase; Region: HWE_HK; pfam07536 414684006495 pyruvate kinase; Validated; Region: PRK08187 414684006496 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 414684006497 domain interfaces; other site 414684006498 active site 414684006499 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 414684006500 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 414684006501 GTP-binding protein LepA; Provisional; Region: PRK05433 414684006502 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 414684006503 G1 box; other site 414684006504 putative GEF interaction site [polypeptide binding]; other site 414684006505 GTP/Mg2+ binding site [chemical binding]; other site 414684006506 Switch I region; other site 414684006507 G2 box; other site 414684006508 G3 box; other site 414684006509 Switch II region; other site 414684006510 G4 box; other site 414684006511 G5 box; other site 414684006512 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 414684006513 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 414684006514 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 414684006515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684006516 NAD(P) binding site [chemical binding]; other site 414684006517 active site 414684006518 Uncharacterized conserved protein [Function unknown]; Region: COG3339 414684006519 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 414684006520 EamA-like transporter family; Region: EamA; pfam00892 414684006521 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 414684006522 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 414684006523 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 414684006524 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 414684006525 P-loop; other site 414684006526 Magnesium ion binding site [ion binding]; other site 414684006527 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 414684006528 Uncharacterized conserved protein [Function unknown]; Region: COG3025 414684006529 putative active site [active] 414684006530 putative triphosphate binding site [ion binding]; other site 414684006531 putative metal binding residues [ion binding]; other site 414684006532 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 414684006533 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684006534 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684006535 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684006536 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 414684006537 S-adenosylmethionine binding site [chemical binding]; other site 414684006538 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684006539 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684006540 Bacterial transcriptional repressor; Region: TetR; pfam13972 414684006541 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 414684006542 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 414684006543 RNA binding surface [nucleotide binding]; other site 414684006544 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 414684006545 ATP binding site [chemical binding]; other site 414684006546 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 414684006547 putative Mg++ binding site [ion binding]; other site 414684006548 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 414684006549 nucleotide binding region [chemical binding]; other site 414684006550 ATP-binding site [chemical binding]; other site 414684006551 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 414684006552 non-specific DNA binding site [nucleotide binding]; other site 414684006553 salt bridge; other site 414684006554 sequence-specific DNA binding site [nucleotide binding]; other site 414684006555 phage-related protein, pseudogene;identified by match to protein family HMM PF00224 match to protein family HMM PF03328 414684006556 heat shock protein 90; Provisional; Region: PRK05218 414684006557 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006558 ATP binding site [chemical binding]; other site 414684006559 Mg2+ binding site [ion binding]; other site 414684006560 G-X-G motif; other site 414684006561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 414684006562 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 414684006563 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 414684006564 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 414684006565 Peptidase M15; Region: Peptidase_M15_3; cl01194 414684006566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 414684006567 NRDE protein; Region: NRDE; cl01315 414684006568 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 414684006569 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 414684006570 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 414684006571 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 414684006572 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 414684006573 ATP binding site [chemical binding]; other site 414684006574 putative Mg++ binding site [ion binding]; other site 414684006575 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 414684006576 nucleotide binding region [chemical binding]; other site 414684006577 ATP-binding site [chemical binding]; other site 414684006578 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 414684006579 HRDC domain; Region: HRDC; pfam00570 414684006580 Helix-turn-helix domain; Region: HTH_37; pfam13744 414684006581 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 414684006582 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 414684006583 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684006584 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684006585 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684006586 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 414684006587 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 414684006588 Walker A/P-loop; other site 414684006589 ATP binding site [chemical binding]; other site 414684006590 Q-loop/lid; other site 414684006591 ABC transporter signature motif; other site 414684006592 Walker B; other site 414684006593 D-loop; other site 414684006594 H-loop/switch region; other site 414684006595 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684006596 FtsX-like permease family; Region: FtsX; pfam02687 414684006597 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 414684006598 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 414684006599 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 414684006600 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 414684006601 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 414684006602 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 414684006603 motif II; other site 414684006604 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 414684006605 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 414684006606 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684006607 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 414684006608 ligand binding site [chemical binding]; other site 414684006609 flexible hinge region; other site 414684006610 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 414684006611 Ligand Binding Site [chemical binding]; other site 414684006612 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 414684006613 Ligand Binding Site [chemical binding]; other site 414684006614 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 414684006615 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 414684006616 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 414684006617 [2Fe-2S] cluster binding site [ion binding]; other site 414684006618 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 414684006619 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 414684006620 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 414684006621 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 414684006622 G1 box; other site 414684006623 GTP/Mg2+ binding site [chemical binding]; other site 414684006624 Switch I region; other site 414684006625 G2 box; other site 414684006626 G3 box; other site 414684006627 Switch II region; other site 414684006628 G4 box; other site 414684006629 G5 box; other site 414684006630 Nucleoside recognition; Region: Gate; pfam07670 414684006631 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 414684006632 Nucleoside recognition; Region: Gate; pfam07670 414684006633 FeoA domain; Region: FeoA; pfam04023 414684006634 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 414684006635 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684006636 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684006637 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 414684006638 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 414684006639 active site 414684006640 tetramer interface [polypeptide binding]; other site 414684006641 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 414684006642 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 414684006643 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 414684006644 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 414684006645 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 414684006646 intersubunit interface [polypeptide binding]; other site 414684006647 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 414684006648 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 414684006649 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 414684006650 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 414684006651 dimer interface [polypeptide binding]; other site 414684006652 putative PBP binding regions; other site 414684006653 ABC-ATPase subunit interface; other site 414684006654 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 414684006655 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 414684006656 ABC-ATPase subunit interface; other site 414684006657 dimer interface [polypeptide binding]; other site 414684006658 putative PBP binding regions; other site 414684006659 D-mannonate oxidoreductase; Provisional; Region: PRK08277 414684006660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684006661 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 414684006662 Coenzyme A binding pocket [chemical binding]; other site 414684006663 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 414684006664 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 414684006665 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 414684006666 Predicted integral membrane protein [Function unknown]; Region: COG5637 414684006667 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 414684006668 putative hydrophobic ligand binding site [chemical binding]; other site 414684006669 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 414684006670 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 414684006671 dimerization interface [polypeptide binding]; other site 414684006672 domain crossover interface; other site 414684006673 redox-dependent activation switch; other site 414684006674 ornithine carbamoyltransferase; Provisional; Region: PRK00779 414684006675 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 414684006676 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 414684006677 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 414684006678 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 414684006679 inhibitor-cofactor binding pocket; inhibition site 414684006680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684006681 catalytic residue [active] 414684006682 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 414684006683 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 414684006684 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 414684006685 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 414684006686 PAS fold; Region: PAS_3; pfam08447 414684006687 putative active site [active] 414684006688 heme pocket [chemical binding]; other site 414684006689 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684006690 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 414684006691 putative active site [active] 414684006692 heme pocket [chemical binding]; other site 414684006693 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684006694 dimer interface [polypeptide binding]; other site 414684006695 phosphorylation site [posttranslational modification] 414684006696 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006697 ATP binding site [chemical binding]; other site 414684006698 Mg2+ binding site [ion binding]; other site 414684006699 G-X-G motif; other site 414684006700 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 414684006701 DNA polymerase I; Provisional; Region: PRK05755 414684006702 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 414684006703 active site 414684006704 metal binding site 1 [ion binding]; metal-binding site 414684006705 putative 5' ssDNA interaction site; other site 414684006706 metal binding site 3; metal-binding site 414684006707 metal binding site 2 [ion binding]; metal-binding site 414684006708 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 414684006709 putative DNA binding site [nucleotide binding]; other site 414684006710 putative metal binding site [ion binding]; other site 414684006711 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 414684006712 active site 414684006713 catalytic site [active] 414684006714 substrate binding site [chemical binding]; other site 414684006715 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 414684006716 active site 414684006717 DNA binding site [nucleotide binding] 414684006718 catalytic site [active] 414684006719 DTW domain; Region: DTW; cl01221 414684006720 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 414684006721 IHF dimer interface [polypeptide binding]; other site 414684006722 IHF - DNA interface [nucleotide binding]; other site 414684006723 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 414684006724 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 414684006725 RNA binding site [nucleotide binding]; other site 414684006726 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 414684006727 RNA binding site [nucleotide binding]; other site 414684006728 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 414684006729 RNA binding site [nucleotide binding]; other site 414684006730 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...; Region: S1_RPS1_repeat_ec4; cd05689 414684006731 RNA binding site [nucleotide binding]; other site 414684006732 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 414684006733 RNA binding site [nucleotide binding]; other site 414684006734 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 414684006735 RNA binding site [nucleotide binding]; other site 414684006736 cytidylate kinase; Provisional; Region: cmk; PRK00023 414684006737 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 414684006738 CMP-binding site; other site 414684006739 The sites determining sugar specificity; other site 414684006740 PemK-like protein; Region: PemK; pfam02452 414684006741 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 414684006742 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 414684006743 putative active site [active] 414684006744 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 414684006745 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 414684006746 hinge; other site 414684006747 active site 414684006748 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 414684006749 TIGR02300 family protein; Region: FYDLN_acid 414684006750 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684006751 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 414684006752 active site 414684006753 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 414684006754 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 414684006755 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 414684006756 binding surface 414684006757 TPR motif; other site 414684006758 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 414684006759 Uncharacterized conserved protein [Function unknown]; Region: COG2835 414684006760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 414684006761 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 414684006762 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684006763 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 414684006764 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 414684006765 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 414684006766 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 414684006767 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 414684006768 FeS/SAM binding site; other site 414684006769 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 414684006770 Protein of unknown function, DUF599; Region: DUF599; cl01575 414684006771 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 414684006772 maleylacetoacetate isomerase; Region: maiA; TIGR01262 414684006773 C-terminal domain interface [polypeptide binding]; other site 414684006774 GSH binding site (G-site) [chemical binding]; other site 414684006775 putative dimer interface [polypeptide binding]; other site 414684006776 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 414684006777 dimer interface [polypeptide binding]; other site 414684006778 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 414684006779 N-terminal domain interface [polypeptide binding]; other site 414684006780 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 414684006781 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 414684006782 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 414684006783 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684006784 MarR family; Region: MarR_2; pfam12802 414684006785 Protein of unknown function (DUF433); Region: DUF433; pfam04255 414684006786 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 414684006787 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 414684006788 Walker A motif; other site 414684006789 ATP binding site [chemical binding]; other site 414684006790 Walker B motif; other site 414684006791 arginine finger; other site 414684006792 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 414684006793 phage shock protein A; Region: phageshock_pspA; TIGR02977 414684006794 Phage shock protein B; Region: PspB; pfam06667 414684006795 phage shock protein C; Region: phageshock_pspC; TIGR02978 414684006796 PspC domain; Region: PspC; pfam04024 414684006797 phage shock protein C; Region: phageshock_pspC; TIGR02978 414684006798 Phage shock protein B; Region: PspB; cl05946 414684006799 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 414684006800 putative dimer interface [polypeptide binding]; other site 414684006801 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684006802 acyl-CoA synthetase; Provisional; Region: PRK12582 414684006803 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 414684006804 acyl-activating enzyme (AAE) consensus motif; other site 414684006805 putative AMP binding site [chemical binding]; other site 414684006806 putative active site [active] 414684006807 putative CoA binding site [chemical binding]; other site 414684006808 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 414684006809 Domain of unknown function DUF21; Region: DUF21; pfam01595 414684006810 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 414684006811 Transporter associated domain; Region: CorC_HlyC; smart01091 414684006812 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 414684006813 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 414684006814 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 414684006815 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 414684006816 substrate binding site [chemical binding]; other site 414684006817 ATP binding site [chemical binding]; other site 414684006818 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 414684006819 active site 414684006820 nucleotide binding site [chemical binding]; other site 414684006821 HIGH motif; other site 414684006822 KMSKS motif; other site 414684006823 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684006824 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 414684006825 active site 414684006826 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 414684006827 Uncharacterized conserved protein [Function unknown]; Region: COG3379 414684006828 Uncharacterized conserved protein [Function unknown]; Region: COG3379 414684006829 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684006830 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 414684006831 C-terminal domain interface [polypeptide binding]; other site 414684006832 GSH binding site (G-site) [chemical binding]; other site 414684006833 dimer interface [polypeptide binding]; other site 414684006834 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 414684006835 dimer interface [polypeptide binding]; other site 414684006836 N-terminal domain interface [polypeptide binding]; other site 414684006837 substrate binding pocket (H-site) [chemical binding]; other site 414684006838 Chain length determinant protein; Region: Wzz; pfam02706 414684006839 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 414684006840 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 414684006841 Magnesium ion binding site [ion binding]; other site 414684006842 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 414684006843 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 414684006844 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684006845 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684006846 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 414684006847 putative ADP-binding pocket [chemical binding]; other site 414684006848 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 414684006849 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684006850 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 414684006851 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 414684006852 Walker A/P-loop; other site 414684006853 ATP binding site [chemical binding]; other site 414684006854 Q-loop/lid; other site 414684006855 ABC transporter signature motif; other site 414684006856 Walker B; other site 414684006857 D-loop; other site 414684006858 H-loop/switch region; other site 414684006859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684006860 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 414684006861 phosphorylation site [posttranslational modification] 414684006862 dimer interface [polypeptide binding]; other site 414684006863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006864 ATP binding site [chemical binding]; other site 414684006865 Mg2+ binding site [ion binding]; other site 414684006866 G-X-G motif; other site 414684006867 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 414684006868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006869 active site 414684006870 phosphorylation site [posttranslational modification] 414684006871 intermolecular recognition site; other site 414684006872 dimerization interface [polypeptide binding]; other site 414684006873 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 414684006874 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 414684006875 Bacterial sugar transferase; Region: Bac_transf; pfam02397 414684006876 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 414684006877 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 414684006878 NAD binding site [chemical binding]; other site 414684006879 homodimer interface [polypeptide binding]; other site 414684006880 active site 414684006881 substrate binding site [chemical binding]; other site 414684006882 Right handed beta helix region; Region: Beta_helix; pfam13229 414684006883 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 414684006884 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 414684006885 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684006886 catalytic residue [active] 414684006887 Gram-negative porin; Region: Porin_4; pfam13609 414684006888 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 414684006889 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 414684006890 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 414684006891 HIGH motif; other site 414684006892 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 414684006893 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684006894 active site 414684006895 KMSKS motif; other site 414684006896 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 414684006897 tRNA binding surface [nucleotide binding]; other site 414684006898 Lipopolysaccharide-assembly; Region: LptE; cl01125 414684006899 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 414684006900 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 414684006901 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 414684006902 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 414684006903 nucleotide binding site [chemical binding]; other site 414684006904 putative NEF/HSP70 interaction site [polypeptide binding]; other site 414684006905 SBD interface [polypeptide binding]; other site 414684006906 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684006907 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 414684006908 non-specific DNA binding site [nucleotide binding]; other site 414684006909 salt bridge; other site 414684006910 sequence-specific DNA binding site [nucleotide binding]; other site 414684006911 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 414684006912 metal binding site 2 [ion binding]; metal-binding site 414684006913 putative DNA binding helix; other site 414684006914 metal binding site 1 [ion binding]; metal-binding site 414684006915 dimer interface [polypeptide binding]; other site 414684006916 structural Zn2+ binding site [ion binding]; other site 414684006917 diguanylate cyclase; Provisional; Region: PRK09894 414684006918 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 414684006919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684006920 metal binding site [ion binding]; metal-binding site 414684006921 active site 414684006922 I-site; other site 414684006923 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 414684006924 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 414684006925 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 414684006926 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 414684006927 FeS/SAM binding site; other site 414684006928 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 414684006929 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684006930 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684006931 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684006932 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 414684006933 dimerization interface [polypeptide binding]; other site 414684006934 putative DNA binding site [nucleotide binding]; other site 414684006935 putative Zn2+ binding site [ion binding]; other site 414684006936 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 414684006937 Protein of unknown function (DUF465); Region: DUF465; pfam04325 414684006938 Uncharacterized conserved protein [Function unknown]; Region: COG4095 414684006939 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684006940 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 414684006941 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 414684006942 Right handed beta helix region; Region: Beta_helix; pfam13229 414684006943 OpgC protein; Region: OpgC_C; cl17858 414684006944 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 414684006945 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684006946 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684006947 Fusaric acid resistance protein family; Region: FUSC; pfam04632 414684006948 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 414684006949 Cupin domain; Region: Cupin_2; pfam07883 414684006950 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 414684006951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 414684006952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684006953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684006954 Cation efflux family; Region: Cation_efflux; cl00316 414684006955 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 414684006956 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 414684006957 active site 414684006958 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 414684006959 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 414684006960 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 414684006961 ligand binding site [chemical binding]; other site 414684006962 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 414684006963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006964 active site 414684006965 phosphorylation site [posttranslational modification] 414684006966 intermolecular recognition site; other site 414684006967 dimerization interface [polypeptide binding]; other site 414684006968 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 414684006969 DNA binding residues [nucleotide binding] 414684006970 dimerization interface [polypeptide binding]; other site 414684006971 PAS fold; Region: PAS_7; pfam12860 414684006972 PAS domain S-box; Region: sensory_box; TIGR00229 414684006973 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 414684006974 putative active site [active] 414684006975 heme pocket [chemical binding]; other site 414684006976 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684006977 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 414684006978 putative active site [active] 414684006979 heme pocket [chemical binding]; other site 414684006980 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 414684006981 putative active site [active] 414684006982 heme pocket [chemical binding]; other site 414684006983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684006984 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684006985 dimer interface [polypeptide binding]; other site 414684006986 phosphorylation site [posttranslational modification] 414684006987 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684006988 ATP binding site [chemical binding]; other site 414684006989 Mg2+ binding site [ion binding]; other site 414684006990 G-X-G motif; other site 414684006991 Response regulator receiver domain; Region: Response_reg; pfam00072 414684006992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684006993 active site 414684006994 phosphorylation site [posttranslational modification] 414684006995 intermolecular recognition site; other site 414684006996 dimerization interface [polypeptide binding]; other site 414684006997 preprotein translocase subunit SecB; Validated; Region: PRK05751 414684006998 SecA binding site; other site 414684006999 Preprotein binding site; other site 414684007000 O-succinylhomoserine sulfhydrylase; Provisional; Region: PRK07810 414684007001 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 414684007002 homodimer interface [polypeptide binding]; other site 414684007003 substrate-cofactor binding pocket; other site 414684007004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684007005 catalytic residue [active] 414684007006 PII uridylyl-transferase; Provisional; Region: PRK05092 414684007007 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684007008 metal binding triad; other site 414684007009 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 414684007010 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 414684007011 Zn2+ binding site [ion binding]; other site 414684007012 Mg2+ binding site [ion binding]; other site 414684007013 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 414684007014 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 414684007015 Usg-like family; Region: Usg; pfam06233 414684007016 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 414684007017 oligomerisation interface [polypeptide binding]; other site 414684007018 mobile loop; other site 414684007019 roof hairpin; other site 414684007020 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 414684007021 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 414684007022 ring oligomerisation interface [polypeptide binding]; other site 414684007023 ATP/Mg binding site [chemical binding]; other site 414684007024 stacking interactions; other site 414684007025 hinge regions; other site 414684007026 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 414684007027 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 414684007028 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 414684007029 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 414684007030 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 414684007031 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 414684007032 Part of AAA domain; Region: AAA_19; pfam13245 414684007033 Family description; Region: UvrD_C_2; pfam13538 414684007034 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 414684007035 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 414684007036 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 414684007037 putative acyl-acceptor binding pocket; other site 414684007038 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 414684007039 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 414684007040 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 414684007041 CPxP motif; other site 414684007042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684007043 Coenzyme A binding pocket [chemical binding]; other site 414684007044 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 414684007045 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 414684007046 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 414684007047 putative FMN binding site [chemical binding]; other site 414684007048 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 414684007049 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 414684007050 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 414684007051 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 414684007052 cyclase homology domain; Region: CHD; cd07302 414684007053 nucleotidyl binding site; other site 414684007054 metal binding site [ion binding]; metal-binding site 414684007055 dimer interface [polypeptide binding]; other site 414684007056 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 414684007057 Ligand Binding Site [chemical binding]; other site 414684007058 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 414684007059 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 414684007060 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 414684007061 putative substrate binding pocket [chemical binding]; other site 414684007062 AC domain interface; other site 414684007063 catalytic triad [active] 414684007064 AB domain interface; other site 414684007065 interchain disulfide; other site 414684007066 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 414684007067 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 414684007068 active site 414684007069 HIGH motif; other site 414684007070 dimer interface [polypeptide binding]; other site 414684007071 KMSKS motif; other site 414684007072 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 414684007073 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 414684007074 putative peptidase; Provisional; Region: PRK11649 414684007075 Peptidase family M23; Region: Peptidase_M23; pfam01551 414684007076 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 414684007077 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 414684007078 Clp amino terminal domain; Region: Clp_N; pfam02861 414684007079 Clp amino terminal domain; Region: Clp_N; pfam02861 414684007080 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 414684007081 Walker A motif; other site 414684007082 ATP binding site [chemical binding]; other site 414684007083 Walker B motif; other site 414684007084 arginine finger; other site 414684007085 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 414684007086 Walker A motif; other site 414684007087 ATP binding site [chemical binding]; other site 414684007088 Walker B motif; other site 414684007089 arginine finger; other site 414684007090 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 414684007091 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 414684007092 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 414684007093 MOSC domain; Region: MOSC; pfam03473 414684007094 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 414684007095 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 414684007096 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 414684007097 S-adenosylmethionine binding site [chemical binding]; other site 414684007098 peptide chain release factor 1; Validated; Region: prfA; PRK00591 414684007099 This domain is found in peptide chain release factors; Region: PCRF; smart00937 414684007100 RF-1 domain; Region: RF-1; pfam00472 414684007101 Protein of unknown function (DUF497); Region: DUF497; cl01108 414684007102 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 414684007103 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 414684007104 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 414684007105 Helix-turn-helix domain; Region: HTH_25; pfam13413 414684007106 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 414684007107 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 414684007108 GAF domain; Region: GAF; pfam01590 414684007109 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 414684007110 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 414684007111 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 414684007112 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 414684007113 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 414684007114 FMN binding site [chemical binding]; other site 414684007115 substrate binding site [chemical binding]; other site 414684007116 putative catalytic residue [active] 414684007117 aspartate kinase; Reviewed; Region: PRK06635 414684007118 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 414684007119 putative nucleotide binding site [chemical binding]; other site 414684007120 putative catalytic residues [active] 414684007121 putative Mg ion binding site [ion binding]; other site 414684007122 putative aspartate binding site [chemical binding]; other site 414684007123 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 414684007124 putative allosteric regulatory site; other site 414684007125 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 414684007126 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 414684007127 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 414684007128 S-adenosylmethionine binding site [chemical binding]; other site 414684007129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684007130 Histidine kinase; Region: HisKA_2; pfam07568 414684007131 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007132 ATP binding site [chemical binding]; other site 414684007133 Mg2+ binding site [ion binding]; other site 414684007134 G-X-G motif; other site 414684007135 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 414684007136 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 414684007137 NAD binding site [chemical binding]; other site 414684007138 catalytic Zn binding site [ion binding]; other site 414684007139 structural Zn binding site [ion binding]; other site 414684007140 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684007141 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684007142 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684007143 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684007144 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684007145 metal binding triad; other site 414684007146 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 414684007147 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 414684007148 Na binding site [ion binding]; other site 414684007149 Protein of unknown function, DUF485; Region: DUF485; pfam04341 414684007150 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 414684007151 PAS domain S-box; Region: sensory_box; TIGR00229 414684007152 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 414684007153 putative active site [active] 414684007154 heme pocket [chemical binding]; other site 414684007155 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007156 dimer interface [polypeptide binding]; other site 414684007157 phosphorylation site [posttranslational modification] 414684007158 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007159 ATP binding site [chemical binding]; other site 414684007160 Mg2+ binding site [ion binding]; other site 414684007161 G-X-G motif; other site 414684007162 Response regulator receiver domain; Region: Response_reg; pfam00072 414684007163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007164 active site 414684007165 phosphorylation site [posttranslational modification] 414684007166 intermolecular recognition site; other site 414684007167 dimerization interface [polypeptide binding]; other site 414684007168 nitrilase; Region: PLN02798 414684007169 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 414684007170 putative active site [active] 414684007171 catalytic triad [active] 414684007172 dimer interface [polypeptide binding]; other site 414684007173 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 414684007174 GSH binding site [chemical binding]; other site 414684007175 catalytic residues [active] 414684007176 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 414684007177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684007178 active site 414684007179 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 414684007180 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 414684007181 S-adenosylmethionine binding site [chemical binding]; other site 414684007182 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 414684007183 active site 414684007184 8-oxo-dGMP binding site [chemical binding]; other site 414684007185 nudix motif; other site 414684007186 metal binding site [ion binding]; metal-binding site 414684007187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684007188 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684007189 Coenzyme A binding pocket [chemical binding]; other site 414684007190 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 414684007191 heterotetramer interface [polypeptide binding]; other site 414684007192 active site pocket [active] 414684007193 cleavage site 414684007194 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 414684007195 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 414684007196 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 414684007197 SEC-C motif; Region: SEC-C; pfam02810 414684007198 Protein of unknown function DUF86; Region: DUF86; cl01031 414684007199 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 414684007200 active site 414684007201 NTP binding site [chemical binding]; other site 414684007202 metal binding triad [ion binding]; metal-binding site 414684007203 antibiotic binding site [chemical binding]; other site 414684007204 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 414684007205 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 414684007206 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 414684007207 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 414684007208 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 414684007209 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 414684007210 Domain of unknown function DUF21; Region: DUF21; pfam01595 414684007211 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 414684007212 Transporter associated domain; Region: CorC_HlyC; smart01091 414684007213 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 414684007214 active site 414684007215 dimer interface [polypeptide binding]; other site 414684007216 metal binding site [ion binding]; metal-binding site 414684007217 shikimate kinase; Reviewed; Region: aroK; PRK00131 414684007218 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 414684007219 ADP binding site [chemical binding]; other site 414684007220 magnesium binding site [ion binding]; other site 414684007221 putative shikimate binding site; other site 414684007222 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 414684007223 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 414684007224 active site 414684007225 DNA binding site [nucleotide binding] 414684007226 Int/Topo IB signature motif; other site 414684007227 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 414684007228 MT-A70; Region: MT-A70; cl01947 414684007229 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 414684007230 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 414684007231 TMP-binding site; other site 414684007232 ATP-binding site [chemical binding]; other site 414684007233 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 414684007234 putative active site [active] 414684007235 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684007236 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 414684007237 non-specific DNA binding site [nucleotide binding]; other site 414684007238 salt bridge; other site 414684007239 sequence-specific DNA binding site [nucleotide binding]; other site 414684007240 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 414684007241 Domain of unknown function (DUF955); Region: DUF955; pfam06114 414684007242 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 414684007243 isocitrate lyase; Provisional; Region: PRK15063 414684007244 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 414684007245 tetramer interface [polypeptide binding]; other site 414684007246 active site 414684007247 Mg2+/Mn2+ binding site [ion binding]; other site 414684007248 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 414684007249 malate synthase A; Region: malate_syn_A; TIGR01344 414684007250 active site 414684007251 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 414684007252 dimanganese center [ion binding]; other site 414684007253 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684007254 active site 414684007255 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 414684007256 enoyl-CoA hydratase; Provisional; Region: PRK06210 414684007257 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 414684007258 substrate binding site [chemical binding]; other site 414684007259 oxyanion hole (OAH) forming residues; other site 414684007260 trimer interface [polypeptide binding]; other site 414684007261 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 414684007262 flagellar motor protein MotA; Validated; Region: PRK09110 414684007263 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 414684007264 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 414684007265 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684007266 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684007267 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 414684007268 acyl-activating enzyme (AAE) consensus motif; other site 414684007269 acyl-activating enzyme (AAE) consensus motif; other site 414684007270 putative AMP binding site [chemical binding]; other site 414684007271 putative active site [active] 414684007272 putative CoA binding site [chemical binding]; other site 414684007273 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 414684007274 dimerization interface [polypeptide binding]; other site 414684007275 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684007276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684007277 dimer interface [polypeptide binding]; other site 414684007278 putative CheW interface [polypeptide binding]; other site 414684007279 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 414684007280 Active_site [active] 414684007281 Transglycosylase; Region: Transgly; pfam00912 414684007282 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 414684007283 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 414684007284 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 414684007285 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 414684007286 FMN binding site [chemical binding]; other site 414684007287 active site 414684007288 substrate binding site [chemical binding]; other site 414684007289 catalytic residue [active] 414684007290 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 414684007291 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 414684007292 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 414684007293 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 414684007294 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 414684007295 trimer interface; other site 414684007296 sugar binding site [chemical binding]; other site 414684007297 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 414684007298 Na binding site [ion binding]; other site 414684007299 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684007300 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 414684007301 substrate binding pocket [chemical binding]; other site 414684007302 membrane-bound complex binding site; other site 414684007303 hinge residues; other site 414684007304 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684007305 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 414684007306 substrate binding pocket [chemical binding]; other site 414684007307 membrane-bound complex binding site; other site 414684007308 hinge residues; other site 414684007309 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 414684007310 ABC-ATPase subunit interface; other site 414684007311 putative PBP binding loops; other site 414684007312 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 414684007313 dimer interface [polypeptide binding]; other site 414684007314 conserved gate region; other site 414684007315 putative PBP binding loops; other site 414684007316 ABC-ATPase subunit interface; other site 414684007317 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 414684007318 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 414684007319 homotetramer interface [polypeptide binding]; other site 414684007320 ligand binding site [chemical binding]; other site 414684007321 catalytic site [active] 414684007322 NAD binding site [chemical binding]; other site 414684007323 PAS fold; Region: PAS; pfam00989 414684007324 PAS fold; Region: PAS_7; pfam12860 414684007325 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684007326 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007327 dimer interface [polypeptide binding]; other site 414684007328 phosphorylation site [posttranslational modification] 414684007329 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007330 ATP binding site [chemical binding]; other site 414684007331 Mg2+ binding site [ion binding]; other site 414684007332 G-X-G motif; other site 414684007333 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 414684007334 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 414684007335 PAS domain S-box; Region: sensory_box; TIGR00229 414684007336 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 414684007337 putative active site [active] 414684007338 heme pocket [chemical binding]; other site 414684007339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684007340 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007341 dimer interface [polypeptide binding]; other site 414684007342 phosphorylation site [posttranslational modification] 414684007343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007344 ATP binding site [chemical binding]; other site 414684007345 Mg2+ binding site [ion binding]; other site 414684007346 G-X-G motif; other site 414684007347 HemK family putative methylases; Region: hemK_fam; TIGR00536 414684007348 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 414684007349 S-adenosylmethionine binding site [chemical binding]; other site 414684007350 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 414684007351 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 414684007352 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 414684007353 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...; Region: Peptidase_C39C; cd02419 414684007354 putative active site [active] 414684007355 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 414684007356 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 414684007357 Walker A/P-loop; other site 414684007358 ATP binding site [chemical binding]; other site 414684007359 Q-loop/lid; other site 414684007360 ABC transporter signature motif; other site 414684007361 Walker B; other site 414684007362 D-loop; other site 414684007363 H-loop/switch region; other site 414684007364 DDE superfamily endonuclease; Region: DDE_3; pfam13358 414684007365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 414684007366 Winged helix-turn helix; Region: HTH_29; pfam13551 414684007367 Helix-turn-helix domain; Region: HTH_28; pfam13518 414684007368 Winged helix-turn helix; Region: HTH_33; pfam13592 414684007369 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 414684007370 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 414684007371 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684007372 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684007373 active site 414684007374 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 414684007375 putative active site pocket [active] 414684007376 cleavage site 414684007377 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 414684007378 cleavage site 414684007379 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 414684007380 L-asparaginase II; Region: Asparaginase_II; pfam06089 414684007381 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 414684007382 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 414684007383 NAD(P) binding site [chemical binding]; other site 414684007384 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 414684007385 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 414684007386 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 414684007387 ligand binding site; other site 414684007388 oligomer interface; other site 414684007389 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 414684007390 dimer interface [polypeptide binding]; other site 414684007391 N-terminal domain interface [polypeptide binding]; other site 414684007392 sulfate 1 binding site; other site 414684007393 glycogen synthase; Provisional; Region: glgA; PRK00654 414684007394 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 414684007395 ADP-binding pocket [chemical binding]; other site 414684007396 homodimer interface [polypeptide binding]; other site 414684007397 PAS domain S-box; Region: sensory_box; TIGR00229 414684007398 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007399 dimer interface [polypeptide binding]; other site 414684007400 phosphorylation site [posttranslational modification] 414684007401 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007402 ATP binding site [chemical binding]; other site 414684007403 G-X-G motif; other site 414684007404 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684007405 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007406 active site 414684007407 phosphorylation site [posttranslational modification] 414684007408 intermolecular recognition site; other site 414684007409 dimerization interface [polypeptide binding]; other site 414684007410 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 414684007411 active site 414684007412 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 414684007413 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684007414 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684007415 Predicted methyltransferase [General function prediction only]; Region: COG4798 414684007416 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684007417 PIN domain; Region: PIN_3; pfam13470 414684007418 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 414684007419 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 414684007420 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 414684007421 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684007422 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 414684007423 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 414684007424 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 414684007425 FAD binding pocket [chemical binding]; other site 414684007426 FAD binding motif [chemical binding]; other site 414684007427 phosphate binding motif [ion binding]; other site 414684007428 beta-alpha-beta structure motif; other site 414684007429 NAD binding pocket [chemical binding]; other site 414684007430 Iron coordination center [ion binding]; other site 414684007431 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 414684007432 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 414684007433 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 414684007434 motif II; other site 414684007435 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 414684007436 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 414684007437 CoA binding domain; Region: CoA_binding_2; pfam13380 414684007438 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 414684007439 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 414684007440 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684007441 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684007442 Predicted membrane protein [Function unknown]; Region: COG3671 414684007443 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 414684007444 dimer interface [polypeptide binding]; other site 414684007445 substrate binding site [chemical binding]; other site 414684007446 metal binding sites [ion binding]; metal-binding site 414684007447 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 414684007448 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 414684007449 substrate binding site [chemical binding]; other site 414684007450 ATP binding site [chemical binding]; other site 414684007451 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 414684007452 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 414684007453 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 414684007454 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 414684007455 minor groove reading motif; other site 414684007456 helix-hairpin-helix signature motif; other site 414684007457 substrate binding pocket [chemical binding]; other site 414684007458 active site 414684007459 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 414684007460 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 414684007461 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 414684007462 active site 414684007463 kynureninase; Region: kynureninase; TIGR01814 414684007464 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 414684007465 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684007466 catalytic residue [active] 414684007467 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 414684007468 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 414684007469 peptide binding site [polypeptide binding]; other site 414684007470 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 414684007471 Putative cyclase; Region: Cyclase; cl00814 414684007472 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684007473 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 414684007474 putative DNA binding site [nucleotide binding]; other site 414684007475 putative Zn2+ binding site [ion binding]; other site 414684007476 AsnC family; Region: AsnC_trans_reg; pfam01037 414684007477 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 414684007478 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 414684007479 active site 414684007480 zinc binding site [ion binding]; other site 414684007481 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 414684007482 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 414684007483 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 414684007484 Nitrogen regulatory protein P-II; Region: P-II; smart00938 414684007485 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 414684007486 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 414684007487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684007488 homodimer interface [polypeptide binding]; other site 414684007489 catalytic residue [active] 414684007490 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 414684007491 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 414684007492 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 414684007493 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 414684007494 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684007495 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684007496 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 414684007497 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 414684007498 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 414684007499 Peptidase C26; Region: Peptidase_C26; pfam07722 414684007500 catalytic triad [active] 414684007501 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 414684007502 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 414684007503 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 414684007504 non-specific DNA binding site [nucleotide binding]; other site 414684007505 salt bridge; other site 414684007506 sequence-specific DNA binding site [nucleotide binding]; other site 414684007507 ferredoxin reductase fragment pseudogene 414684007508 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 414684007509 putative catalytic site [active] 414684007510 putative phosphate binding site [ion binding]; other site 414684007511 active site 414684007512 metal binding site A [ion binding]; metal-binding site 414684007513 DNA binding site [nucleotide binding] 414684007514 putative AP binding site [nucleotide binding]; other site 414684007515 putative metal binding site B [ion binding]; other site 414684007516 transcription termination factor Rho; Provisional; Region: rho; PRK09376 414684007517 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 414684007518 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 414684007519 RNA binding site [nucleotide binding]; other site 414684007520 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 414684007521 multimer interface [polypeptide binding]; other site 414684007522 Walker A motif; other site 414684007523 ATP binding site [chemical binding]; other site 414684007524 Walker B motif; other site 414684007525 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 414684007526 ligand binding site [chemical binding]; other site 414684007527 dimer interface [polypeptide binding]; other site 414684007528 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 414684007529 ferrochelatase; Reviewed; Region: hemH; PRK00035 414684007530 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 414684007531 C-terminal domain interface [polypeptide binding]; other site 414684007532 active site 414684007533 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 414684007534 active site 414684007535 N-terminal domain interface [polypeptide binding]; other site 414684007536 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 414684007537 substrate binding site [chemical binding]; other site 414684007538 active site 414684007539 PEP synthetase regulatory protein; Provisional; Region: PRK05339 414684007540 Maf-like protein; Provisional; Region: PRK14361 414684007541 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 414684007542 putative active site [active] 414684007543 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 414684007544 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 414684007545 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 414684007546 NAD(P) binding site [chemical binding]; other site 414684007547 shikimate binding site; other site 414684007548 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 414684007549 dephospho-CoA kinase; Region: TIGR00152 414684007550 CoA-binding site [chemical binding]; other site 414684007551 ATP-binding [chemical binding]; other site 414684007552 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 414684007553 active site 414684007554 catalytic site [active] 414684007555 substrate binding site [chemical binding]; other site 414684007556 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 414684007557 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 414684007558 NADP binding site [chemical binding]; other site 414684007559 dimer interface [polypeptide binding]; other site 414684007560 Dienelactone hydrolase family; Region: DLH; pfam01738 414684007561 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 414684007562 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 414684007563 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 414684007564 catalytic residues [active] 414684007565 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 414684007566 dimer interface [polypeptide binding]; other site 414684007567 [2Fe-2S] cluster binding site [ion binding]; other site 414684007568 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 414684007569 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 414684007570 trmE is a tRNA modification GTPase; Region: trmE; cd04164 414684007571 G1 box; other site 414684007572 GTP/Mg2+ binding site [chemical binding]; other site 414684007573 Switch I region; other site 414684007574 G2 box; other site 414684007575 Switch II region; other site 414684007576 G3 box; other site 414684007577 G4 box; other site 414684007578 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 414684007579 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 414684007580 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 414684007581 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 414684007582 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 414684007583 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 414684007584 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 414684007585 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 414684007586 P-loop; other site 414684007587 Magnesium ion binding site [ion binding]; other site 414684007588 ParB-like nuclease domain; Region: ParB; smart00470 414684007589 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 414684007590 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684007591 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684007592 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684007593 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 414684007594 catalytic site [active] 414684007595 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684007596 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 414684007597 putative ADP-binding pocket [chemical binding]; other site 414684007598 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 414684007599 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 414684007600 putative active site [active] 414684007601 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 414684007602 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 414684007603 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 414684007604 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 414684007605 active site 414684007606 dimer interface [polypeptide binding]; other site 414684007607 motif 1; other site 414684007608 motif 2; other site 414684007609 motif 3; other site 414684007610 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 414684007611 anticodon binding site; other site 414684007612 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 414684007613 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 414684007614 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 414684007615 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 414684007616 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 414684007617 active site 414684007618 substrate-binding site [chemical binding]; other site 414684007619 metal-binding site [ion binding] 414684007620 ATP binding site [chemical binding]; other site 414684007621 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 414684007622 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 414684007623 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 414684007624 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684007625 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007626 active site 414684007627 phosphorylation site [posttranslational modification] 414684007628 intermolecular recognition site; other site 414684007629 dimerization interface [polypeptide binding]; other site 414684007630 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 414684007631 DNA binding site [nucleotide binding] 414684007632 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 414684007633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684007634 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 414684007635 dimerization interface [polypeptide binding]; other site 414684007636 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007637 dimer interface [polypeptide binding]; other site 414684007638 phosphorylation site [posttranslational modification] 414684007639 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007640 ATP binding site [chemical binding]; other site 414684007641 Mg2+ binding site [ion binding]; other site 414684007642 G-X-G motif; other site 414684007643 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 414684007644 PAS domain; Region: PAS_9; pfam13426 414684007645 putative active site [active] 414684007646 heme pocket [chemical binding]; other site 414684007647 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 414684007648 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684007649 putative active site [active] 414684007650 heme pocket [chemical binding]; other site 414684007651 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 414684007652 putative active site [active] 414684007653 heme pocket [chemical binding]; other site 414684007654 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 414684007655 PAS fold; Region: PAS_3; pfam08447 414684007656 putative active site [active] 414684007657 heme pocket [chemical binding]; other site 414684007658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684007659 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007660 dimer interface [polypeptide binding]; other site 414684007661 phosphorylation site [posttranslational modification] 414684007662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007663 ATP binding site [chemical binding]; other site 414684007664 Mg2+ binding site [ion binding]; other site 414684007665 G-X-G motif; other site 414684007666 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 414684007667 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 414684007668 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 414684007669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684007670 catalytic residue [active] 414684007671 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 414684007672 substrate binding site [chemical binding]; other site 414684007673 active site 414684007674 catalytic residues [active] 414684007675 heterodimer interface [polypeptide binding]; other site 414684007676 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 414684007677 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 414684007678 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 414684007679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 414684007680 MAPEG family; Region: MAPEG; cl09190 414684007681 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 414684007682 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 414684007683 catalytic residues [active] 414684007684 Ion transport protein; Region: Ion_trans; pfam00520 414684007685 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 414684007686 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 414684007687 enoyl-CoA hydratase; Region: PLN02864 414684007688 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 414684007689 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 414684007690 dimer interaction site [polypeptide binding]; other site 414684007691 substrate-binding tunnel; other site 414684007692 active site 414684007693 catalytic site [active] 414684007694 substrate binding site [chemical binding]; other site 414684007695 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 414684007696 Major Facilitator Superfamily; Region: MFS_1; pfam07690 414684007697 putative substrate translocation pore; other site 414684007698 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684007699 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 414684007700 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 414684007701 GAF domain; Region: GAF; pfam01590 414684007702 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 414684007703 PAS fold; Region: PAS_3; pfam08447 414684007704 putative active site [active] 414684007705 heme pocket [chemical binding]; other site 414684007706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684007707 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007708 dimer interface [polypeptide binding]; other site 414684007709 phosphorylation site [posttranslational modification] 414684007710 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007711 ATP binding site [chemical binding]; other site 414684007712 Mg2+ binding site [ion binding]; other site 414684007713 G-X-G motif; other site 414684007714 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 414684007715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684007716 active site 414684007717 phosphorylation site [posttranslational modification] 414684007718 intermolecular recognition site; other site 414684007719 dimerization interface [polypeptide binding]; other site 414684007720 RecX family; Region: RecX; cl00936 414684007721 ABC-2 type transporter; Region: ABC2_membrane; cl17235 414684007722 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 414684007723 ABC-2 type transporter; Region: ABC2_membrane; cl17235 414684007724 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684007725 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 414684007726 5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase pseudogene;(Methionine synt Hase, vitamin-B12 independent isozyme) (Cobalamin-independent methionine synt Hase) 414684007727 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 414684007728 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 414684007729 nucleotide binding site [chemical binding]; other site 414684007730 NEF interaction site [polypeptide binding]; other site 414684007731 SBD interface [polypeptide binding]; other site 414684007732 chaperone protein DnaJ; Provisional; Region: PRK10767 414684007733 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 414684007734 HSP70 interaction site [polypeptide binding]; other site 414684007735 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 414684007736 substrate binding site [polypeptide binding]; other site 414684007737 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 414684007738 Zn binding sites [ion binding]; other site 414684007739 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 414684007740 dimer interface [polypeptide binding]; other site 414684007741 Protein of unknown function (DUF952); Region: DUF952; pfam06108 414684007742 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 414684007743 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 414684007744 quinone interaction residues [chemical binding]; other site 414684007745 active site 414684007746 catalytic residues [active] 414684007747 FMN binding site [chemical binding]; other site 414684007748 substrate binding site [chemical binding]; other site 414684007749 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 414684007750 conserved cys residue [active] 414684007751 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 414684007752 putative catalytic site [active] 414684007753 putative metal binding site [ion binding]; other site 414684007754 putative phosphate binding site [ion binding]; other site 414684007755 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 414684007756 active site 414684007757 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 414684007758 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 414684007759 active pocket/dimerization site; other site 414684007760 active site 414684007761 phosphorylation site [posttranslational modification] 414684007762 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 414684007763 regulatory protein interface [polypeptide binding]; other site 414684007764 active site 414684007765 regulatory phosphorylation site [posttranslational modification]; other site 414684007766 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 414684007767 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 414684007768 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 414684007769 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 414684007770 YGGT family; Region: YGGT; pfam02325 414684007771 Uncharacterized conserved protein [Function unknown]; Region: COG1872 414684007772 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 414684007773 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 414684007774 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 414684007775 homodimer interface [polypeptide binding]; other site 414684007776 NADP binding site [chemical binding]; other site 414684007777 substrate binding site [chemical binding]; other site 414684007778 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 414684007779 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 414684007780 Cl binding site [ion binding]; other site 414684007781 oligomer interface [polypeptide binding]; other site 414684007782 glutathione synthetase; Provisional; Region: PRK05246 414684007783 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 414684007784 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 414684007785 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 414684007786 Cysteine-rich domain; Region: CCG; pfam02754 414684007787 Cysteine-rich domain; Region: CCG; pfam02754 414684007788 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 414684007789 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 414684007790 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 414684007791 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 414684007792 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 414684007793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 414684007794 Smr domain; Region: Smr; pfam01713 414684007795 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 414684007796 NnrU protein; Region: NnrU; pfam07298 414684007797 putative cation:proton antiport protein; Provisional; Region: PRK10669 414684007798 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 414684007799 TrkA-N domain; Region: TrkA_N; pfam02254 414684007800 argininosuccinate synthase; Provisional; Region: PRK13820 414684007801 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 414684007802 ANP binding site [chemical binding]; other site 414684007803 Substrate Binding Site II [chemical binding]; other site 414684007804 Substrate Binding Site I [chemical binding]; other site 414684007805 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 414684007806 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 414684007807 putative active site [active] 414684007808 catalytic site [active] 414684007809 putative metal binding site [ion binding]; other site 414684007810 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 414684007811 intracellular protease, PfpI family; Region: PfpI; TIGR01382 414684007812 proposed catalytic triad [active] 414684007813 conserved cys residue [active] 414684007814 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 414684007815 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 414684007816 PAS fold; Region: PAS_3; pfam08447 414684007817 putative active site [active] 414684007818 heme pocket [chemical binding]; other site 414684007819 PAS domain S-box; Region: sensory_box; TIGR00229 414684007820 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 414684007821 putative active site [active] 414684007822 heme pocket [chemical binding]; other site 414684007823 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684007824 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684007825 dimer interface [polypeptide binding]; other site 414684007826 phosphorylation site [posttranslational modification] 414684007827 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684007828 ATP binding site [chemical binding]; other site 414684007829 Mg2+ binding site [ion binding]; other site 414684007830 G-X-G motif; other site 414684007831 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 414684007832 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 414684007833 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 414684007834 Walker A/P-loop; other site 414684007835 ATP binding site [chemical binding]; other site 414684007836 Q-loop/lid; other site 414684007837 ABC transporter signature motif; other site 414684007838 Walker B; other site 414684007839 D-loop; other site 414684007840 H-loop/switch region; other site 414684007841 MAPEG family; Region: MAPEG; pfam01124 414684007842 NAD-dependent deacetylase; Provisional; Region: PRK00481 414684007843 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 414684007844 NAD+ binding site [chemical binding]; other site 414684007845 substrate binding site [chemical binding]; other site 414684007846 Zn binding site [ion binding]; other site 414684007847 Low molecular weight phosphatase family; Region: LMWPc; cd00115 414684007848 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 414684007849 active site 414684007850 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 414684007851 PAS domain; Region: PAS_5; pfam07310 414684007852 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 414684007853 MutS domain I; Region: MutS_I; pfam01624 414684007854 MutS domain II; Region: MutS_II; pfam05188 414684007855 MutS domain III; Region: MutS_III; pfam05192 414684007856 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 414684007857 Walker A/P-loop; other site 414684007858 ATP binding site [chemical binding]; other site 414684007859 Q-loop/lid; other site 414684007860 ABC transporter signature motif; other site 414684007861 Walker B; other site 414684007862 D-loop; other site 414684007863 H-loop/switch region; other site 414684007864 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 414684007865 putative active site [active] 414684007866 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 414684007867 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684007868 Walker A/P-loop; other site 414684007869 ATP binding site [chemical binding]; other site 414684007870 Q-loop/lid; other site 414684007871 ABC transporter signature motif; other site 414684007872 Walker B; other site 414684007873 D-loop; other site 414684007874 H-loop/switch region; other site 414684007875 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684007876 FtsX-like permease family; Region: FtsX; pfam02687 414684007877 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 414684007878 ribosome maturation protein RimP; Reviewed; Region: PRK00092 414684007879 Sm and related proteins; Region: Sm_like; cl00259 414684007880 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 414684007881 putative RNA binding site [nucleotide binding]; other site 414684007882 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 414684007883 NusA N-terminal domain; Region: NusA_N; pfam08529 414684007884 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 414684007885 RNA binding site [nucleotide binding]; other site 414684007886 homodimer interface [polypeptide binding]; other site 414684007887 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 414684007888 G-X-X-G motif; other site 414684007889 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 414684007890 G-X-X-G motif; other site 414684007891 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 414684007892 hypothetical protein; Provisional; Region: PRK09190 414684007893 Protein of unknown function (DUF448); Region: DUF448; pfam04296 414684007894 putative RNA binding cleft [nucleotide binding]; other site 414684007895 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 414684007896 translation initiation factor IF-2; Region: IF-2; TIGR00487 414684007897 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 414684007898 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 414684007899 G1 box; other site 414684007900 putative GEF interaction site [polypeptide binding]; other site 414684007901 GTP/Mg2+ binding site [chemical binding]; other site 414684007902 Switch I region; other site 414684007903 G2 box; other site 414684007904 G3 box; other site 414684007905 Switch II region; other site 414684007906 G4 box; other site 414684007907 G5 box; other site 414684007908 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 414684007909 Translation-initiation factor 2; Region: IF-2; pfam11987 414684007910 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 414684007911 Helix-turn-helix domain; Region: HTH_18; pfam12833 414684007912 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684007913 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 414684007914 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 414684007915 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 414684007916 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 414684007917 RNA binding site [nucleotide binding]; other site 414684007918 active site 414684007919 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 414684007920 16S/18S rRNA binding site [nucleotide binding]; other site 414684007921 S13e-L30e interaction site [polypeptide binding]; other site 414684007922 25S rRNA binding site [nucleotide binding]; other site 414684007923 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 414684007924 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 414684007925 RNase E interface [polypeptide binding]; other site 414684007926 trimer interface [polypeptide binding]; other site 414684007927 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 414684007928 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 414684007929 RNase E interface [polypeptide binding]; other site 414684007930 trimer interface [polypeptide binding]; other site 414684007931 active site 414684007932 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 414684007933 putative nucleic acid binding region [nucleotide binding]; other site 414684007934 G-X-X-G motif; other site 414684007935 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 414684007936 RNA binding site [nucleotide binding]; other site 414684007937 domain interface; other site 414684007938 Transposase domain (DUF772); Region: DUF772; pfam05598 414684007939 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 414684007940 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684007941 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 414684007942 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 414684007943 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 414684007944 Peptidase M15; Region: Peptidase_M15_3; cl01194 414684007945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 414684007946 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 414684007947 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684007948 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 414684007949 phosphorylation site [posttranslational modification] 414684007950 intermolecular recognition site; other site 414684007951 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 414684007952 DNA binding site [nucleotide binding] 414684007953 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684007954 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 414684007955 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 414684007956 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 414684007957 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 414684007958 putative NAD(P) binding site [chemical binding]; other site 414684007959 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 414684007960 dimerization interface [polypeptide binding]; other site 414684007961 active site 414684007962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 414684007963 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 414684007964 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 414684007965 putative active site [active] 414684007966 catalytic site [active] 414684007967 putative metal binding site [ion binding]; other site 414684007968 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 414684007969 FMN binding site [chemical binding]; other site 414684007970 substrate binding site [chemical binding]; other site 414684007971 putative catalytic residue [active] 414684007972 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 414684007973 metal binding site 2 [ion binding]; metal-binding site 414684007974 putative DNA binding helix; other site 414684007975 metal binding site 1 [ion binding]; metal-binding site 414684007976 dimer interface [polypeptide binding]; other site 414684007977 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684007978 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684007979 short chain dehydrogenase; Provisional; Region: PRK06523 414684007980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684007981 NAD(P) binding site [chemical binding]; other site 414684007982 active site 414684007983 SnoaL-like domain; Region: SnoaL_2; pfam12680 414684007984 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684007985 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 414684007986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684007987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684007988 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 414684007989 putative effector binding pocket; other site 414684007990 putative dimerization interface [polypeptide binding]; other site 414684007991 putative transporter; Provisional; Region: PRK11043 414684007992 multidrug efflux system protein; Provisional; Region: PRK11431 414684007993 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 414684007994 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 414684007995 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 414684007996 Walker A motif; other site 414684007997 ATP binding site [chemical binding]; other site 414684007998 Walker B motif; other site 414684007999 arginine finger; other site 414684008000 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 414684008001 GrpE; Region: GrpE; pfam01025 414684008002 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 414684008003 dimer interface [polypeptide binding]; other site 414684008004 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 414684008005 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 414684008006 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 414684008007 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 414684008008 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 414684008009 non-specific DNA binding site [nucleotide binding]; other site 414684008010 salt bridge; other site 414684008011 sequence-specific DNA binding site [nucleotide binding]; other site 414684008012 ribonuclease PH; Reviewed; Region: rph; PRK00173 414684008013 Ribonuclease PH; Region: RNase_PH_bact; cd11362 414684008014 hexamer interface [polypeptide binding]; other site 414684008015 active site 414684008016 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 414684008017 active site 414684008018 dimerization interface [polypeptide binding]; other site 414684008019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 414684008020 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 414684008021 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 414684008022 FeS/SAM binding site; other site 414684008023 HemN C-terminal domain; Region: HemN_C; pfam06969 414684008024 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684008025 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 414684008026 acyl-activating enzyme (AAE) consensus motif; other site 414684008027 putative AMP binding site [chemical binding]; other site 414684008028 putative active site [active] 414684008029 putative CoA binding site [chemical binding]; other site 414684008030 patatin-related protein; Region: TIGR03607 414684008031 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 414684008032 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 414684008033 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 414684008034 DNA binding site [nucleotide binding] 414684008035 active site 414684008036 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 414684008037 dinuclear metal binding motif [ion binding]; other site 414684008038 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 414684008039 S-adenosylmethionine synthetase; Validated; Region: PRK05250 414684008040 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 414684008041 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 414684008042 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 414684008043 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684008044 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 414684008045 non-specific DNA binding site [nucleotide binding]; other site 414684008046 salt bridge; other site 414684008047 sequence-specific DNA binding site [nucleotide binding]; other site 414684008048 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 414684008049 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 414684008050 putative active site [active] 414684008051 catalytic triad [active] 414684008052 putative dimer interface [polypeptide binding]; other site 414684008053 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 414684008054 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 414684008055 Transporter associated domain; Region: CorC_HlyC; smart01091 414684008056 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 414684008057 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 414684008058 PhoH-like protein; Region: PhoH; pfam02562 414684008059 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 414684008060 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 414684008061 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 414684008062 FeS/SAM binding site; other site 414684008063 TRAM domain; Region: TRAM; pfam01938 414684008064 RNA polymerase sigma factor; Provisional; Region: PRK12526 414684008065 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684008066 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 414684008067 DNA binding residues [nucleotide binding] 414684008068 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 414684008069 Putative zinc-finger; Region: zf-HC2; pfam13490 414684008070 Cupin domain; Region: Cupin_2; pfam07883 414684008071 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684008072 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 414684008073 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 414684008074 ligand binding site [chemical binding]; other site 414684008075 flexible hinge region; other site 414684008076 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 414684008077 putative switch regulator; other site 414684008078 non-specific DNA interactions [nucleotide binding]; other site 414684008079 DNA binding site [nucleotide binding] 414684008080 sequence specific DNA binding site [nucleotide binding]; other site 414684008081 putative cAMP binding site [chemical binding]; other site 414684008082 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 414684008083 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 414684008084 putative RNA binding site [nucleotide binding]; other site 414684008085 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 414684008086 S-adenosylmethionine binding site [chemical binding]; other site 414684008087 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684008088 Coenzyme A binding pocket [chemical binding]; other site 414684008089 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 414684008090 quinolinate synthetase; Provisional; Region: PRK09375 414684008091 L-aspartate oxidase; Provisional; Region: PRK06175 414684008092 FAD binding domain; Region: FAD_binding_2; pfam00890 414684008093 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 414684008094 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 414684008095 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 414684008096 dimerization interface [polypeptide binding]; other site 414684008097 active site 414684008098 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684008099 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 414684008100 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 414684008101 Low molecular weight phosphatase family; Region: LMWPc; cl00105 414684008102 active site 414684008103 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 414684008104 Sodium Bile acid symporter family; Region: SBF; cl17470 414684008105 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 414684008106 aromatic arch; other site 414684008107 DCoH dimer interaction site [polypeptide binding]; other site 414684008108 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 414684008109 DCoH tetramer interaction site [polypeptide binding]; other site 414684008110 substrate binding site [chemical binding]; other site 414684008111 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 414684008112 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 414684008113 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 414684008114 Walker A/P-loop; other site 414684008115 ATP binding site [chemical binding]; other site 414684008116 Q-loop/lid; other site 414684008117 ABC transporter signature motif; other site 414684008118 Walker B; other site 414684008119 D-loop; other site 414684008120 H-loop/switch region; other site 414684008121 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 414684008122 Tim44-like domain; Region: Tim44; pfam04280 414684008123 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 414684008124 MltA specific insert domain; Region: MltA; smart00925 414684008125 3D domain; Region: 3D; pfam06725 414684008126 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 414684008127 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 414684008128 N-terminal plug; other site 414684008129 ligand-binding site [chemical binding]; other site 414684008130 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 414684008131 dimerization interface [polypeptide binding]; other site 414684008132 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 414684008133 GAF domain; Region: GAF; pfam01590 414684008134 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684008135 dimer interface [polypeptide binding]; other site 414684008136 phosphorylation site [posttranslational modification] 414684008137 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008138 ATP binding site [chemical binding]; other site 414684008139 Mg2+ binding site [ion binding]; other site 414684008140 G-X-G motif; other site 414684008141 aspartate aminotransferase; Provisional; Region: PRK06108 414684008142 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 414684008143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684008144 homodimer interface [polypeptide binding]; other site 414684008145 catalytic residue [active] 414684008146 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 414684008147 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 414684008148 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 414684008149 dimer interface [polypeptide binding]; other site 414684008150 active site 414684008151 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684008152 catalytic residues [active] 414684008153 substrate binding site [chemical binding]; other site 414684008154 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 414684008155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684008156 Walker A/P-loop; other site 414684008157 ATP binding site [chemical binding]; other site 414684008158 Q-loop/lid; other site 414684008159 ABC transporter signature motif; other site 414684008160 Walker B; other site 414684008161 D-loop; other site 414684008162 H-loop/switch region; other site 414684008163 CcmB protein; Region: CcmB; cl17444 414684008164 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 414684008165 Peptidase family M23; Region: Peptidase_M23; pfam01551 414684008166 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 414684008167 heme exporter protein CcmC; Region: ccmC; TIGR01191 414684008168 Heme exporter protein D (CcmD); Region: CcmD; cl11475 414684008169 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 414684008170 cytochrome c-type biogenesis protein CcmF;part of the cytochrome c-type biogenesis protein cluster 414684008171 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 414684008172 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 414684008173 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 414684008174 catalytic residues [active] 414684008175 central insert; other site 414684008176 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 414684008177 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 414684008178 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 414684008179 TPR motif; other site 414684008180 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 414684008181 Cache domain; Region: Cache_1; pfam02743 414684008182 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 414684008183 dimerization interface [polypeptide binding]; other site 414684008184 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684008185 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684008186 dimer interface [polypeptide binding]; other site 414684008187 putative CheW interface [polypeptide binding]; other site 414684008188 Response regulator receiver domain; Region: Response_reg; pfam00072 414684008189 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684008190 active site 414684008191 phosphorylation site [posttranslational modification] 414684008192 intermolecular recognition site; other site 414684008193 dimerization interface [polypeptide binding]; other site 414684008194 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 414684008195 Protein of unknown function (DUF808); Region: DUF808; cl01002 414684008196 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 414684008197 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 414684008198 active site 414684008199 acyl-activating enzyme (AAE) consensus motif; other site 414684008200 putative CoA binding site [chemical binding]; other site 414684008201 AMP binding site [chemical binding]; other site 414684008202 short chain dehydrogenase; Provisional; Region: PRK08278 414684008203 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 414684008204 NAD(P) binding site [chemical binding]; other site 414684008205 homodimer interface [polypeptide binding]; other site 414684008206 active site 414684008207 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 414684008208 putative binding surface; other site 414684008209 active site 414684008210 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 414684008211 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 414684008212 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 414684008213 putative ligand binding site [chemical binding]; other site 414684008214 Predicted methyltransferases [General function prediction only]; Region: COG0313 414684008215 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 414684008216 putative SAM binding site [chemical binding]; other site 414684008217 putative homodimer interface [polypeptide binding]; other site 414684008218 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 414684008219 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 414684008220 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 414684008221 Phosphotransferase enzyme family; Region: APH; pfam01636 414684008222 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 414684008223 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684008224 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 414684008225 Flavoprotein; Region: Flavoprotein; pfam02441 414684008226 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 414684008227 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 414684008228 trimer interface [polypeptide binding]; other site 414684008229 active site 414684008230 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 414684008231 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 414684008232 oligomeric interface; other site 414684008233 putative active site [active] 414684008234 homodimer interface [polypeptide binding]; other site 414684008235 Rrf2 family protein; Region: rrf2_super; TIGR00738 414684008236 Transcriptional regulator; Region: Rrf2; pfam02082 414684008237 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 414684008238 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 414684008239 dimer interface [polypeptide binding]; other site 414684008240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684008241 catalytic residue [active] 414684008242 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 414684008243 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 414684008244 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 414684008245 ATP binding site [chemical binding]; other site 414684008246 substrate interface [chemical binding]; other site 414684008247 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 414684008248 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 414684008249 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 414684008250 DNA binding site [nucleotide binding] 414684008251 catalytic residue [active] 414684008252 H2TH interface [polypeptide binding]; other site 414684008253 putative catalytic residues [active] 414684008254 turnover-facilitating residue; other site 414684008255 intercalation triad [nucleotide binding]; other site 414684008256 8OG recognition residue [nucleotide binding]; other site 414684008257 putative reading head residues; other site 414684008258 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 414684008259 enoyl-CoA hydratase; Provisional; Region: PRK05862 414684008260 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 414684008261 substrate binding site [chemical binding]; other site 414684008262 oxyanion hole (OAH) forming residues; other site 414684008263 trimer interface [polypeptide binding]; other site 414684008264 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 414684008265 DnaA N-terminal domain; Region: DnaA_N; pfam11638 414684008266 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 414684008267 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 414684008268 Walker A motif; other site 414684008269 ATP binding site [chemical binding]; other site 414684008270 Walker B motif; other site 414684008271 arginine finger; other site 414684008272 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 414684008273 DnaA box-binding interface [nucleotide binding]; other site 414684008274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684008275 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684008276 dimer interface [polypeptide binding]; other site 414684008277 phosphorylation site [posttranslational modification] 414684008278 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008279 ATP binding site [chemical binding]; other site 414684008280 Mg2+ binding site [ion binding]; other site 414684008281 G-X-G motif; other site 414684008282 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 414684008283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684008284 Histidine kinase; Region: HisKA_2; pfam07568 414684008285 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008286 ATP binding site [chemical binding]; other site 414684008287 Mg2+ binding site [ion binding]; other site 414684008288 G-X-G motif; other site 414684008289 Phasin protein; Region: Phasin_2; cl11491 414684008290 DNA polymerase III subunit beta; Validated; Region: PRK05643 414684008291 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 414684008292 putative DNA binding surface [nucleotide binding]; other site 414684008293 dimer interface [polypeptide binding]; other site 414684008294 beta-clamp/clamp loader binding surface; other site 414684008295 beta-clamp/translesion DNA polymerase binding surface; other site 414684008296 recombination protein F; Reviewed; Region: recF; PRK00064 414684008297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684008298 Walker A/P-loop; other site 414684008299 ATP binding site [chemical binding]; other site 414684008300 Q-loop/lid; other site 414684008301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684008302 ABC transporter signature motif; other site 414684008303 Walker B; other site 414684008304 D-loop; other site 414684008305 H-loop/switch region; other site 414684008306 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 414684008307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008308 Mg2+ binding site [ion binding]; other site 414684008309 G-X-G motif; other site 414684008310 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 414684008311 anchoring element; other site 414684008312 dimer interface [polypeptide binding]; other site 414684008313 ATP binding site [chemical binding]; other site 414684008314 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 414684008315 active site 414684008316 putative metal-binding site [ion binding]; other site 414684008317 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 414684008318 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 414684008319 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 414684008320 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684008321 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684008322 dimer interface [polypeptide binding]; other site 414684008323 putative CheW interface [polypeptide binding]; other site 414684008324 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 414684008325 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 414684008326 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 414684008327 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 414684008328 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 414684008329 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 414684008330 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 414684008331 HNH endonuclease; Region: HNH_2; pfam13391 414684008332 MarR family; Region: MarR_2; pfam12802 414684008333 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 414684008334 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 414684008335 metal ion-dependent adhesion site (MIDAS); other site 414684008336 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 414684008337 sequence-specific DNA binding site [nucleotide binding]; other site 414684008338 salt bridge; other site 414684008339 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 414684008340 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 414684008341 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 414684008342 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 414684008343 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 414684008344 HSP70 interaction site [polypeptide binding]; other site 414684008345 EamA-like transporter family; Region: EamA; pfam00892 414684008346 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 414684008347 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 414684008348 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 414684008349 Abi-like protein; Region: Abi_2; pfam07751 414684008350 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684008351 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684008352 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684008353 dimer interface [polypeptide binding]; other site 414684008354 putative CheW interface [polypeptide binding]; other site 414684008355 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 414684008356 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 414684008357 ABC transporter ATP-binding protein, putative 414684008358 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 414684008359 active site 414684008360 catalytic triad [active] 414684008361 oxyanion hole [active] 414684008362 switch loop; other site 414684008363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 414684008364 FIST N domain; Region: FIST; pfam08495 414684008365 FIST C domain; Region: FIST_C; pfam10442 414684008366 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 414684008367 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 414684008368 active site 414684008369 catalytic tetrad [active] 414684008370 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 414684008371 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 414684008372 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 414684008373 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 414684008374 non-specific DNA binding site [nucleotide binding]; other site 414684008375 salt bridge; other site 414684008376 sequence-specific DNA binding site [nucleotide binding]; other site 414684008377 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 414684008378 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 414684008379 active site 414684008380 dimer interface [polypeptide binding]; other site 414684008381 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 414684008382 active site 414684008383 membrane ATPase/protein kinase; Provisional; Region: PRK09435 414684008384 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 414684008385 Walker A; other site 414684008386 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 414684008387 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684008388 active site 414684008389 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 414684008390 ThiS interaction site; other site 414684008391 putative active site [active] 414684008392 tetramer interface [polypeptide binding]; other site 414684008393 Ubiquitin-like proteins; Region: UBQ; cl00155 414684008394 charged pocket; other site 414684008395 hydrophobic patch; other site 414684008396 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 414684008397 hydroxyglutarate oxidase; Provisional; Region: PRK11728 414684008398 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 414684008399 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 414684008400 HipA N-terminal domain; Region: Couple_hipA; pfam13657 414684008401 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 414684008402 non-specific DNA binding site [nucleotide binding]; other site 414684008403 salt bridge; other site 414684008404 sequence-specific DNA binding site [nucleotide binding]; other site 414684008405 hypothetical protein; Region: PHA00661 414684008406 hypothetical protein; Region: PHA00661 414684008407 hypothetical protein; Region: PHA00662 414684008408 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 414684008409 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 414684008410 active site 414684008411 substrate binding site [chemical binding]; other site 414684008412 coenzyme B12 binding site [chemical binding]; other site 414684008413 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 414684008414 B12 binding site [chemical binding]; other site 414684008415 cobalt ligand [ion binding]; other site 414684008416 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 414684008417 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684008418 active site 414684008419 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 414684008420 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684008421 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 414684008422 catalytic site [active] 414684008423 TAP-like protein; Region: Abhydrolase_4; pfam08386 414684008424 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 414684008425 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 414684008426 substrate binding pocket [chemical binding]; other site 414684008427 membrane-bound complex binding site; other site 414684008428 hinge residues; other site 414684008429 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 414684008430 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 414684008431 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 414684008432 putative PBP binding loops; other site 414684008433 dimer interface [polypeptide binding]; other site 414684008434 ABC-ATPase subunit interface; other site 414684008435 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 414684008436 dimer interface [polypeptide binding]; other site 414684008437 conserved gate region; other site 414684008438 putative PBP binding loops; other site 414684008439 ABC-ATPase subunit interface; other site 414684008440 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 414684008441 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 414684008442 Walker A/P-loop; other site 414684008443 ATP binding site [chemical binding]; other site 414684008444 Q-loop/lid; other site 414684008445 ABC transporter signature motif; other site 414684008446 Walker B; other site 414684008447 D-loop; other site 414684008448 H-loop/switch region; other site 414684008449 Protein of unknown function (DUF497); Region: DUF497; pfam04365 414684008450 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 414684008451 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 414684008452 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 414684008453 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 414684008454 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 414684008455 Cadherin repeat-like domain; Region: CA_like; cl15786 414684008456 Ca2+ binding site [ion binding]; other site 414684008457 Bacterial Ig-like domain; Region: Big_5; pfam13205 414684008458 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008459 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008460 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008461 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684008462 Ca2+ binding site [ion binding]; other site 414684008463 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 414684008464 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 414684008465 dimerization interface [polypeptide binding]; other site 414684008466 ligand binding site [chemical binding]; other site 414684008467 NADP binding site [chemical binding]; other site 414684008468 catalytic site [active] 414684008469 Bacterial SH3 domain; Region: SH3_4; pfam06347 414684008470 Bacterial SH3 domain; Region: SH3_4; pfam06347 414684008471 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 414684008472 intersubunit interface [polypeptide binding]; other site 414684008473 active site 414684008474 Zn2+ binding site [ion binding]; other site 414684008475 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 414684008476 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 414684008477 active site 414684008478 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 414684008479 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 414684008480 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 414684008481 non-specific DNA binding site [nucleotide binding]; other site 414684008482 salt bridge; other site 414684008483 sequence-specific DNA binding site [nucleotide binding]; other site 414684008484 Domain of unknown function (DUF955); Region: DUF955; cl01076 414684008485 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 414684008486 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 414684008487 conserved hypothetical protein; Region: MG423; TIGR00649 414684008488 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 414684008489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684008490 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 414684008491 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 414684008492 active site 414684008493 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 414684008494 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 414684008495 S-adenosylmethionine binding site [chemical binding]; other site 414684008496 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 414684008497 RibD C-terminal domain; Region: RibD_C; cl17279 414684008498 Peptidase family M48; Region: Peptidase_M48; cl12018 414684008499 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 414684008500 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 414684008501 putative FMN binding site [chemical binding]; other site 414684008502 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 414684008503 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 414684008504 Substrate binding site; other site 414684008505 metal-binding site 414684008506 aminoglycoside phosphotransferase, pseudogene;identified by match to protein family HMM PF00005 414684008507 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 414684008508 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 414684008509 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684008510 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684008511 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 414684008512 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 414684008513 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 414684008514 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 414684008515 dimer interface [polypeptide binding]; other site 414684008516 putative PBP binding regions; other site 414684008517 ABC-ATPase subunit interface; other site 414684008518 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 414684008519 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 414684008520 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 414684008521 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 414684008522 metal binding site [ion binding]; metal-binding site 414684008523 dihydrodipicolinate reductase; Provisional; Region: PRK00048 414684008524 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 414684008525 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 414684008526 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 414684008527 putative active site [active] 414684008528 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 414684008529 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 414684008530 dimer interface [polypeptide binding]; other site 414684008531 PYR/PP interface [polypeptide binding]; other site 414684008532 TPP binding site [chemical binding]; other site 414684008533 substrate binding site [chemical binding]; other site 414684008534 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 414684008535 TPP-binding site; other site 414684008536 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 414684008537 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 414684008538 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 414684008539 substrate binding site [chemical binding]; other site 414684008540 threonine dehydratase; Provisional; Region: PRK07334 414684008541 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 414684008542 tetramer interface [polypeptide binding]; other site 414684008543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684008544 catalytic residue [active] 414684008545 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 414684008546 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 414684008547 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 414684008548 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 414684008549 active site 414684008550 motif I; other site 414684008551 motif II; other site 414684008552 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 414684008553 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 414684008554 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 414684008555 Moco binding site; other site 414684008556 metal coordination site [ion binding]; other site 414684008557 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 414684008558 Mechanosensitive ion channel; Region: MS_channel; pfam00924 414684008559 Dihydroneopterin aldolase; Region: FolB; smart00905 414684008560 active site 414684008561 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 414684008562 DNA methylase; Region: N6_N4_Mtase; pfam01555 414684008563 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 414684008564 RNA/DNA hybrid binding site [nucleotide binding]; other site 414684008565 active site 414684008566 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 414684008567 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 414684008568 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684008569 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 414684008570 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 414684008571 FeS/SAM binding site; other site 414684008572 HemN C-terminal domain; Region: HemN_C; pfam06969 414684008573 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 414684008574 active site 414684008575 motif I; other site 414684008576 motif II; other site 414684008577 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 414684008578 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 414684008579 FeS/SAM binding site; other site 414684008580 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 414684008581 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 414684008582 binding surface 414684008583 TPR repeat; Region: TPR_11; pfam13414 414684008584 TPR motif; other site 414684008585 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 414684008586 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 414684008587 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 414684008588 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 414684008589 Fe-S cluster binding site [ion binding]; other site 414684008590 active site 414684008591 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 414684008592 MPT binding site; other site 414684008593 trimer interface [polypeptide binding]; other site 414684008594 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 414684008595 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 414684008596 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 414684008597 active site 414684008598 Predicted transcriptional regulators [Transcription]; Region: COG1695 414684008599 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 414684008600 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 414684008601 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 414684008602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684008603 Walker A/P-loop; other site 414684008604 ATP binding site [chemical binding]; other site 414684008605 Q-loop/lid; other site 414684008606 ABC transporter signature motif; other site 414684008607 Walker B; other site 414684008608 D-loop; other site 414684008609 H-loop/switch region; other site 414684008610 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 414684008611 Sel1-like repeats; Region: SEL1; smart00671 414684008612 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 414684008613 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 414684008614 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 414684008615 active site 414684008616 dimer interface [polypeptide binding]; other site 414684008617 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 414684008618 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 414684008619 active site 414684008620 FMN binding site [chemical binding]; other site 414684008621 substrate binding site [chemical binding]; other site 414684008622 3Fe-4S cluster binding site [ion binding]; other site 414684008623 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 414684008624 domain interface; other site 414684008625 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684008626 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 414684008627 putative C-terminal domain interface [polypeptide binding]; other site 414684008628 putative GSH binding site (G-site) [chemical binding]; other site 414684008629 putative dimer interface [polypeptide binding]; other site 414684008630 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 414684008631 N-terminal domain interface [polypeptide binding]; other site 414684008632 dimer interface [polypeptide binding]; other site 414684008633 substrate binding pocket (H-site) [chemical binding]; other site 414684008634 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 414684008635 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 414684008636 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 414684008637 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 414684008638 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 414684008639 putative NAD(P) binding site [chemical binding]; other site 414684008640 active site 414684008641 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 414684008642 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 414684008643 catalytic site [active] 414684008644 putative active site [active] 414684008645 putative substrate binding site [chemical binding]; other site 414684008646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 414684008647 OstA-like protein; Region: OstA; cl00844 414684008648 OstA-like protein; Region: OstA; cl00844 414684008649 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 414684008650 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 414684008651 Walker A/P-loop; other site 414684008652 ATP binding site [chemical binding]; other site 414684008653 Q-loop/lid; other site 414684008654 ABC transporter signature motif; other site 414684008655 Walker B; other site 414684008656 D-loop; other site 414684008657 H-loop/switch region; other site 414684008658 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 414684008659 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 414684008660 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 414684008661 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 414684008662 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 414684008663 30S subunit binding site; other site 414684008664 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 414684008665 active site 414684008666 phosphorylation site [posttranslational modification] 414684008667 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 414684008668 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 414684008669 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 414684008670 putative dimer interface [polypeptide binding]; other site 414684008671 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 414684008672 substrate binding pocket [chemical binding]; other site 414684008673 membrane-bound complex binding site; other site 414684008674 flagellar motor switch protein FliN; Region: fliN; TIGR02480 414684008675 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 414684008676 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 414684008677 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 414684008678 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 414684008679 N-terminal plug; other site 414684008680 ligand-binding site [chemical binding]; other site 414684008681 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 414684008682 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 414684008683 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 414684008684 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 414684008685 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 414684008686 Na binding site [ion binding]; other site 414684008687 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 414684008688 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 414684008689 ligand binding site [chemical binding]; other site 414684008690 flexible hinge region; other site 414684008691 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 414684008692 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 414684008693 metal binding triad; other site 414684008694 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 414684008695 Bacterial SH3 domain; Region: SH3_3; pfam08239 414684008696 photoactive yellow protein; Region: photo_yellow; TIGR02373 414684008697 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 414684008698 GAF domain; Region: GAF; pfam01590 414684008699 Phytochrome region; Region: PHY; pfam00360 414684008700 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684008701 dimer interface [polypeptide binding]; other site 414684008702 phosphorylation site [posttranslational modification] 414684008703 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008704 ATP binding site [chemical binding]; other site 414684008705 Mg2+ binding site [ion binding]; other site 414684008706 G-X-G motif; other site 414684008707 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684008708 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684008709 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684008710 Protein export membrane protein; Region: SecD_SecF; cl14618 414684008711 Protein export membrane protein; Region: SecD_SecF; cl14618 414684008712 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 414684008713 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 414684008714 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 414684008715 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 414684008716 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 414684008717 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 414684008718 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 414684008719 pseudouridine synthase; Region: TIGR00093 414684008720 active site 414684008721 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 414684008722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 414684008723 DNA-binding site [nucleotide binding]; DNA binding site 414684008724 UTRA domain; Region: UTRA; pfam07702 414684008725 imidazolonepropionase; Validated; Region: PRK09356 414684008726 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 414684008727 active site 414684008728 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 414684008729 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 414684008730 active site 414684008731 urocanate hydratase; Provisional; Region: PRK05414 414684008732 N-formylglutamate amidohydrolase; Region: FGase; cl01522 414684008733 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 414684008734 active sites [active] 414684008735 tetramer interface [polypeptide binding]; other site 414684008736 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 414684008737 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 414684008738 NAD(P) binding site [chemical binding]; other site 414684008739 catalytic residues [active] 414684008740 short chain dehydrogenase; Provisional; Region: PRK06181 414684008741 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 414684008742 putative NAD(P) binding site [chemical binding]; other site 414684008743 active site 414684008744 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 414684008745 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684008746 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684008747 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684008748 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 414684008749 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 414684008750 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 414684008751 TrkA-C domain; Region: TrkA_C; pfam02080 414684008752 TrkA-C domain; Region: TrkA_C; pfam02080 414684008753 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 414684008754 FOG: CBS domain [General function prediction only]; Region: COG0517 414684008755 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 414684008756 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 414684008757 Zinc-finger domain; Region: zf-CHCC; cl01821 414684008758 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684008759 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684008760 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684008761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684008762 Walker A/P-loop; other site 414684008763 ATP binding site [chemical binding]; other site 414684008764 Q-loop/lid; other site 414684008765 ABC transporter signature motif; other site 414684008766 Walker B; other site 414684008767 D-loop; other site 414684008768 H-loop/switch region; other site 414684008769 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 414684008770 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 414684008771 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 414684008772 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 414684008773 CoA-transferase family III; Region: CoA_transf_3; pfam02515 414684008774 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 414684008775 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 414684008776 FMN binding site [chemical binding]; other site 414684008777 substrate binding site [chemical binding]; other site 414684008778 putative catalytic residue [active] 414684008779 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 414684008780 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 414684008781 Malic enzyme, N-terminal domain; Region: malic; pfam00390 414684008782 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 414684008783 putative NAD(P) binding site [chemical binding]; other site 414684008784 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 414684008785 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684008786 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684008787 dimer interface [polypeptide binding]; other site 414684008788 phosphorylation site [posttranslational modification] 414684008789 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008790 ATP binding site [chemical binding]; other site 414684008791 Mg2+ binding site [ion binding]; other site 414684008792 G-X-G motif; other site 414684008793 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 414684008794 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 414684008795 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 414684008796 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 414684008797 dimer interface [polypeptide binding]; other site 414684008798 conserved gate region; other site 414684008799 putative PBP binding loops; other site 414684008800 ABC-ATPase subunit interface; other site 414684008801 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 414684008802 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 414684008803 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 414684008804 ABC-ATPase subunit interface; other site 414684008805 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 414684008806 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 414684008807 Walker A/P-loop; other site 414684008808 ATP binding site [chemical binding]; other site 414684008809 Q-loop/lid; other site 414684008810 ABC transporter signature motif; other site 414684008811 Walker B; other site 414684008812 D-loop; other site 414684008813 H-loop/switch region; other site 414684008814 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 414684008815 PhoU domain; Region: PhoU; pfam01895 414684008816 PhoU domain; Region: PhoU; pfam01895 414684008817 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 414684008818 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684008819 active site 414684008820 phosphorylation site [posttranslational modification] 414684008821 intermolecular recognition site; other site 414684008822 dimerization interface [polypeptide binding]; other site 414684008823 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 414684008824 DNA binding site [nucleotide binding] 414684008825 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 414684008826 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 414684008827 S-adenosylmethionine binding site [chemical binding]; other site 414684008828 ABC1 family; Region: ABC1; cl17513 414684008829 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 414684008830 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 414684008831 active site 414684008832 NTP binding site [chemical binding]; other site 414684008833 metal binding triad [ion binding]; metal-binding site 414684008834 antibiotic binding site [chemical binding]; other site 414684008835 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 414684008836 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684008837 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 414684008838 putative NAD(P) binding site [chemical binding]; other site 414684008839 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 414684008840 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 414684008841 C-terminal domain interface [polypeptide binding]; other site 414684008842 GSH binding site (G-site) [chemical binding]; other site 414684008843 dimer interface [polypeptide binding]; other site 414684008844 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 414684008845 N-terminal domain interface [polypeptide binding]; other site 414684008846 dimer interface [polypeptide binding]; other site 414684008847 substrate binding pocket (H-site) [chemical binding]; other site 414684008848 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 414684008849 S-adenosylmethionine binding site [chemical binding]; other site 414684008850 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684008851 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 414684008852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684008853 Coenzyme A binding pocket [chemical binding]; other site 414684008854 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 414684008855 dimer interface [polypeptide binding]; other site 414684008856 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684008857 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684008858 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 414684008859 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 414684008860 Walker A/P-loop; other site 414684008861 ATP binding site [chemical binding]; other site 414684008862 Q-loop/lid; other site 414684008863 ABC transporter signature motif; other site 414684008864 Walker B; other site 414684008865 D-loop; other site 414684008866 H-loop/switch region; other site 414684008867 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684008868 FtsX-like permease family; Region: FtsX; pfam02687 414684008869 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 414684008870 FtsX-like permease family; Region: FtsX; pfam02687 414684008871 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 414684008872 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 414684008873 dimer interface [polypeptide binding]; other site 414684008874 acyl-activating enzyme (AAE) consensus motif; other site 414684008875 putative active site [active] 414684008876 AMP binding site [chemical binding]; other site 414684008877 putative CoA binding site [chemical binding]; other site 414684008878 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 414684008879 Phage Tail Collar Domain; Region: Collar; pfam07484 414684008880 Uncharacterized conserved protein [Function unknown]; Region: COG1742 414684008881 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 414684008882 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 414684008883 Walker A motif; other site 414684008884 ATP binding site [chemical binding]; other site 414684008885 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 414684008886 Walker B motif; other site 414684008887 arginine finger; other site 414684008888 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 414684008889 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 414684008890 active site 414684008891 HslU subunit interaction site [polypeptide binding]; other site 414684008892 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 414684008893 4-fold oligomerization interface [polypeptide binding]; other site 414684008894 putative active site pocket [active] 414684008895 metal binding residues [ion binding]; metal-binding site 414684008896 3-fold/trimer interface [polypeptide binding]; other site 414684008897 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 414684008898 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 414684008899 putative active site [active] 414684008900 oxyanion strand; other site 414684008901 catalytic triad [active] 414684008902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684008903 Coenzyme A binding pocket [chemical binding]; other site 414684008904 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 414684008905 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 414684008906 catalytic residues [active] 414684008907 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 414684008908 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 414684008909 substrate binding site [chemical binding]; other site 414684008910 glutamase interaction surface [polypeptide binding]; other site 414684008911 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 414684008912 metal binding site [ion binding]; metal-binding site 414684008913 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 414684008914 nucleotide binding site/active site [active] 414684008915 HIT family signature motif; other site 414684008916 catalytic residue [active] 414684008917 L-lactate permease; Region: Lactate_perm; cl00701 414684008918 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 414684008919 L-lactate permease; Region: Lactate_perm; cl00701 414684008920 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 414684008921 MarC family integral membrane protein; Region: MarC; cl00919 414684008922 Predicted ATPase [General function prediction only]; Region: COG3911 414684008923 AAA domain; Region: AAA_28; pfam13521 414684008924 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 414684008925 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684008926 active site 414684008927 nucleotide binding site [chemical binding]; other site 414684008928 HIGH motif; other site 414684008929 KMSKS motif; other site 414684008930 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 414684008931 Transglycosylase; Region: Transgly; cl17702 414684008932 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 414684008933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684008934 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684008935 dimer interface [polypeptide binding]; other site 414684008936 phosphorylation site [posttranslational modification] 414684008937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008938 ATP binding site [chemical binding]; other site 414684008939 Mg2+ binding site [ion binding]; other site 414684008940 G-X-G motif; other site 414684008941 D-alanyl-D-alanine carboxypeptidase, pseudogene;identified by match to protein family HMM PF00529 414684008942 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 414684008943 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 414684008944 tellurite resistance protein terB; Region: terB; cd07176 414684008945 putative metal binding site [ion binding]; other site 414684008946 Predicted transcriptional regulator [Transcription]; Region: COG2932 414684008947 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 414684008948 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 414684008949 Catalytic site [active] 414684008950 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 414684008951 hypothetical protein; Region: PHA00670 414684008952 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684008953 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 414684008954 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 414684008955 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 414684008956 active site 414684008957 catalytic site [active] 414684008958 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 414684008959 DNA-binding site [nucleotide binding]; DNA binding site 414684008960 RNA-binding motif; other site 414684008961 Protein of unknown function (DUF533); Region: DUF533; pfam04391 414684008962 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 414684008963 putative metal binding site [ion binding]; other site 414684008964 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 414684008965 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 414684008966 putative substrate translocation pore; other site 414684008967 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684008968 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 414684008969 N-terminal plug; other site 414684008970 ligand-binding site [chemical binding]; other site 414684008971 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 414684008972 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 414684008973 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 414684008974 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 414684008975 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 414684008976 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 414684008977 CRISPR-associated protein Cse2 (CRISPR_cse2); Region: CRISPR_Cse2; pfam09485 414684008978 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 414684008979 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 414684008980 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 414684008981 PAS domain; Region: PAS_9; pfam13426 414684008982 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 414684008983 PAS domain; Region: PAS_9; pfam13426 414684008984 putative active site [active] 414684008985 heme pocket [chemical binding]; other site 414684008986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684008987 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684008988 dimer interface [polypeptide binding]; other site 414684008989 phosphorylation site [posttranslational modification] 414684008990 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684008991 ATP binding site [chemical binding]; other site 414684008992 Mg2+ binding site [ion binding]; other site 414684008993 G-X-G motif; other site 414684008994 Response regulator receiver domain; Region: Response_reg; pfam00072 414684008995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684008996 active site 414684008997 phosphorylation site [posttranslational modification] 414684008998 intermolecular recognition site; other site 414684008999 dimerization interface [polypeptide binding]; other site 414684009000 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 414684009001 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 414684009002 dimer interface [polypeptide binding]; other site 414684009003 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 414684009004 active site 414684009005 Fe binding site [ion binding]; other site 414684009006 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 414684009007 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 414684009008 putative DNA binding site [nucleotide binding]; other site 414684009009 putative Zn2+ binding site [ion binding]; other site 414684009010 AsnC family; Region: AsnC_trans_reg; pfam01037 414684009011 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684009012 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 414684009013 cofactor binding site; other site 414684009014 metal binding site [ion binding]; metal-binding site 414684009015 Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]; Region: GlmS; COG0449 414684009016 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 414684009017 active site 414684009018 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 414684009019 dimer interface [polypeptide binding]; other site 414684009020 active site 414684009021 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 414684009022 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 414684009023 active site 414684009024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684009025 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684009026 dimer interface [polypeptide binding]; other site 414684009027 phosphorylation site [posttranslational modification] 414684009028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009029 ATP binding site [chemical binding]; other site 414684009030 G-X-G motif; other site 414684009031 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 414684009032 dimer interface [polypeptide binding]; other site 414684009033 conserved gate region; other site 414684009034 ABC-ATPase subunit interface; other site 414684009035 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 414684009036 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 414684009037 Walker A/P-loop; other site 414684009038 ATP binding site [chemical binding]; other site 414684009039 Q-loop/lid; other site 414684009040 ABC transporter signature motif; other site 414684009041 Walker B; other site 414684009042 D-loop; other site 414684009043 H-loop/switch region; other site 414684009044 NIL domain; Region: NIL; pfam09383 414684009045 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 414684009046 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 414684009047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684009048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684009049 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 414684009050 putative effector binding pocket; other site 414684009051 putative dimerization interface [polypeptide binding]; other site 414684009052 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 414684009053 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 414684009054 active site 414684009055 catalytic tetrad [active] 414684009056 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 414684009057 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 414684009058 putative NAD(P) binding site [chemical binding]; other site 414684009059 putative substrate binding site [chemical binding]; other site 414684009060 catalytic Zn binding site [ion binding]; other site 414684009061 structural Zn binding site [ion binding]; other site 414684009062 dimer interface [polypeptide binding]; other site 414684009063 GAF domain; Region: GAF; cl17456 414684009064 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684009065 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684009066 metal binding site [ion binding]; metal-binding site 414684009067 active site 414684009068 I-site; other site 414684009069 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 414684009070 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 414684009071 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 414684009072 ATP binding site [chemical binding]; other site 414684009073 active site 414684009074 substrate binding site [chemical binding]; other site 414684009075 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 414684009076 SlyX; Region: SlyX; pfam04102 414684009077 aconitate hydratase; Validated; Region: PRK09277 414684009078 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 414684009079 substrate binding site [chemical binding]; other site 414684009080 ligand binding site [chemical binding]; other site 414684009081 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 414684009082 substrate binding site [chemical binding]; other site 414684009083 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 414684009084 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 414684009085 dimer interface [polypeptide binding]; other site 414684009086 conserved gate region; other site 414684009087 putative PBP binding loops; other site 414684009088 ABC-ATPase subunit interface; other site 414684009089 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 414684009090 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 414684009091 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 414684009092 dimer interface [polypeptide binding]; other site 414684009093 conserved gate region; other site 414684009094 putative PBP binding loops; other site 414684009095 ABC-ATPase subunit interface; other site 414684009096 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 414684009097 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 414684009098 Walker A/P-loop; other site 414684009099 ATP binding site [chemical binding]; other site 414684009100 Q-loop/lid; other site 414684009101 ABC transporter signature motif; other site 414684009102 Walker B; other site 414684009103 D-loop; other site 414684009104 H-loop/switch region; other site 414684009105 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 414684009106 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 414684009107 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 414684009108 Walker A/P-loop; other site 414684009109 ATP binding site [chemical binding]; other site 414684009110 Q-loop/lid; other site 414684009111 ABC transporter signature motif; other site 414684009112 Walker B; other site 414684009113 D-loop; other site 414684009114 H-loop/switch region; other site 414684009115 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 414684009116 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 414684009117 Putative esterase; Region: Esterase; pfam00756 414684009118 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 414684009119 nudix motif; other site 414684009120 Predicted small secreted protein [Function unknown]; Region: COG5510 414684009121 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 414684009122 Na2 binding site [ion binding]; other site 414684009123 putative substrate binding site 1 [chemical binding]; other site 414684009124 Na binding site 1 [ion binding]; other site 414684009125 putative substrate binding site 2 [chemical binding]; other site 414684009126 Domain of unknown function (DUF307); Region: DUF307; pfam03733 414684009127 hypothetical protein; Provisional; Region: PRK11770 414684009128 Domain of unknown function (DUF307); Region: DUF307; pfam03733 414684009129 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 414684009130 Phosphoglycerate kinase; Region: PGK; pfam00162 414684009131 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 414684009132 substrate binding site [chemical binding]; other site 414684009133 hinge regions; other site 414684009134 ADP binding site [chemical binding]; other site 414684009135 catalytic site [active] 414684009136 MgtC family; Region: MgtC; pfam02308 414684009137 Protein of unknown function DUF45; Region: DUF45; pfam01863 414684009138 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 414684009139 EamA-like transporter family; Region: EamA; pfam00892 414684009140 EamA-like transporter family; Region: EamA; pfam00892 414684009141 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 414684009142 active site 414684009143 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 414684009144 adenylosuccinate lyase; Provisional; Region: PRK07492 414684009145 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 414684009146 tetramer interface [polypeptide binding]; other site 414684009147 active site 414684009148 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 414684009149 active site 414684009150 hypothetical protein; Reviewed; Region: PRK00024 414684009151 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 414684009152 MPN+ (JAMM) motif; other site 414684009153 Zinc-binding site [ion binding]; other site 414684009154 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 414684009155 active site 414684009156 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 414684009157 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 414684009158 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 414684009159 putative dimer interface [polypeptide binding]; other site 414684009160 N-terminal domain interface [polypeptide binding]; other site 414684009161 putative substrate binding pocket (H-site) [chemical binding]; other site 414684009162 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 414684009163 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 414684009164 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 414684009165 putative MPT binding site; other site 414684009166 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 414684009167 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 414684009168 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 414684009169 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 414684009170 putative ligand binding site [chemical binding]; other site 414684009171 NAD binding site [chemical binding]; other site 414684009172 dimerization interface [polypeptide binding]; other site 414684009173 catalytic site [active] 414684009174 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 414684009175 FlxA-like protein; Region: FlxA; pfam14282 414684009176 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 414684009177 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 414684009178 CHASE4 domain; Region: CHASE4; pfam05228 414684009179 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 414684009180 PAS domain; Region: PAS; smart00091 414684009181 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684009182 dimer interface [polypeptide binding]; other site 414684009183 phosphorylation site [posttranslational modification] 414684009184 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009185 ATP binding site [chemical binding]; other site 414684009186 Mg2+ binding site [ion binding]; other site 414684009187 G-X-G motif; other site 414684009188 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 414684009189 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 414684009190 active site 414684009191 Cytochrome c2 [Energy production and conversion]; Region: COG3474 414684009192 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 414684009193 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 414684009194 Ligand binding site; other site 414684009195 oligomer interface; other site 414684009196 prephenate dehydratase; Provisional; Region: PRK11899 414684009197 Prephenate dehydratase; Region: PDT; pfam00800 414684009198 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 414684009199 putative L-Phe binding site [chemical binding]; other site 414684009200 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 414684009201 putative active site [active] 414684009202 Ap4A binding site [chemical binding]; other site 414684009203 nudix motif; other site 414684009204 putative metal binding site [ion binding]; other site 414684009205 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 414684009206 double-transmembrane region pseudogene;identified by match to protein family HMM PF02308 414684009207 double-transmembrane region pseudogene;identified by match to protein family HMM PF01863 414684009208 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 414684009209 Protein of unknown function DUF58; Region: DUF58; pfam01882 414684009210 MoxR-like ATPases [General function prediction only]; Region: COG0714 414684009211 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 414684009212 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 414684009213 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 414684009214 putative active site [active] 414684009215 putative CoA binding site [chemical binding]; other site 414684009216 nudix motif; other site 414684009217 metal binding site [ion binding]; metal-binding site 414684009218 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 414684009219 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 414684009220 active site 414684009221 NTP binding site [chemical binding]; other site 414684009222 metal binding triad [ion binding]; metal-binding site 414684009223 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 414684009224 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 414684009225 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 414684009226 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 414684009227 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 414684009228 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 414684009229 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 414684009230 [2Fe-2S] cluster binding site [ion binding]; other site 414684009231 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 414684009232 Qi binding site; other site 414684009233 intrachain domain interface; other site 414684009234 interchain domain interface [polypeptide binding]; other site 414684009235 cytochrome b; Provisional; Region: CYTB; MTH00156 414684009236 heme bH binding site [chemical binding]; other site 414684009237 heme bL binding site [chemical binding]; other site 414684009238 Qo binding site; other site 414684009239 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 414684009240 interchain domain interface [polypeptide binding]; other site 414684009241 intrachain domain interface; other site 414684009242 Qi binding site; other site 414684009243 Qo binding site; other site 414684009244 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 414684009245 Cytochrome c; Region: Cytochrom_C; cl11414 414684009246 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 414684009247 GTP-binding protein YchF; Reviewed; Region: PRK09601 414684009248 YchF GTPase; Region: YchF; cd01900 414684009249 G1 box; other site 414684009250 GTP/Mg2+ binding site [chemical binding]; other site 414684009251 Switch I region; other site 414684009252 G2 box; other site 414684009253 Switch II region; other site 414684009254 G3 box; other site 414684009255 G4 box; other site 414684009256 G5 box; other site 414684009257 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 414684009258 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 414684009259 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 414684009260 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 414684009261 heme binding site [chemical binding]; other site 414684009262 ferroxidase pore; other site 414684009263 ferroxidase diiron center [ion binding]; other site 414684009264 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 414684009265 putative glutathione S-transferase; Provisional; Region: PRK10357 414684009266 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 414684009267 putative C-terminal domain interface [polypeptide binding]; other site 414684009268 putative GSH binding site (G-site) [chemical binding]; other site 414684009269 putative dimer interface [polypeptide binding]; other site 414684009270 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 414684009271 dimer interface [polypeptide binding]; other site 414684009272 N-terminal domain interface [polypeptide binding]; other site 414684009273 putative substrate binding pocket (H-site) [chemical binding]; other site 414684009274 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 414684009275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684009276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684009277 metal binding site [ion binding]; metal-binding site 414684009278 active site 414684009279 I-site; other site 414684009280 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 414684009281 Prostaglandin dehydrogenases; Region: PGDH; cd05288 414684009282 NAD(P) binding site [chemical binding]; other site 414684009283 substrate binding site [chemical binding]; other site 414684009284 dimer interface [polypeptide binding]; other site 414684009285 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 414684009286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684009287 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 414684009288 dimerization interface [polypeptide binding]; other site 414684009289 substrate binding pocket [chemical binding]; other site 414684009290 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 414684009291 active site 414684009292 catalytic triad [active] 414684009293 oxyanion hole [active] 414684009294 Autotransporter beta-domain; Region: Autotransporter; smart00869 414684009295 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684009296 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684009297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684009298 WHG domain; Region: WHG; pfam13305 414684009299 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 414684009300 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 414684009301 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 414684009302 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 414684009303 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 414684009304 PAS domain S-box; Region: sensory_box; TIGR00229 414684009305 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 414684009306 putative active site [active] 414684009307 heme pocket [chemical binding]; other site 414684009308 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 414684009309 PAS fold; Region: PAS_3; pfam08447 414684009310 putative active site [active] 414684009311 heme pocket [chemical binding]; other site 414684009312 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684009313 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684009314 metal binding site [ion binding]; metal-binding site 414684009315 active site 414684009316 I-site; other site 414684009317 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 414684009318 YcjX-like family, DUF463; Region: DUF463; pfam04317 414684009319 hypothetical protein; Provisional; Region: PRK05415 414684009320 Domain of unknown function (DUF697); Region: DUF697; cl12064 414684009321 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 414684009322 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 414684009323 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 414684009324 Protein of unknown function (DUF445); Region: DUF445; pfam04286 414684009325 FOG: CBS domain [General function prediction only]; Region: COG0517 414684009326 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 414684009327 PRC-barrel domain; Region: PRC; pfam05239 414684009328 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 414684009329 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 414684009330 Cl binding site [ion binding]; other site 414684009331 oligomer interface [polypeptide binding]; other site 414684009332 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 414684009333 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 414684009334 two-component response regulator; Provisional; Region: PRK09191 414684009335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684009336 active site 414684009337 phosphorylation site [posttranslational modification] 414684009338 intermolecular recognition site; other site 414684009339 dimerization interface [polypeptide binding]; other site 414684009340 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 414684009341 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 414684009342 active site 414684009343 metal binding site [ion binding]; metal-binding site 414684009344 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 414684009345 BON domain; Region: BON; pfam04972 414684009346 DNA polymerase III beta subunit, central domain; Region: DNA_pol3_beta_2; pfam02767 414684009347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 414684009348 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 414684009349 PAS fold; Region: PAS_4; pfam08448 414684009350 PAS domain S-box; Region: sensory_box; TIGR00229 414684009351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684009352 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684009353 dimer interface [polypeptide binding]; other site 414684009354 phosphorylation site [posttranslational modification] 414684009355 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009356 ATP binding site [chemical binding]; other site 414684009357 Mg2+ binding site [ion binding]; other site 414684009358 G-X-G motif; other site 414684009359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684009360 active site 414684009361 phosphorylation site [posttranslational modification] 414684009362 intermolecular recognition site; other site 414684009363 dimerization interface [polypeptide binding]; other site 414684009364 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 414684009365 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 414684009366 active site 414684009367 metal binding site [ion binding]; metal-binding site 414684009368 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 414684009369 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 414684009370 active site 414684009371 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 414684009372 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 414684009373 Family description; Region: VCBS; pfam13517 414684009374 Family description; Region: VCBS; pfam13517 414684009375 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 414684009376 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 414684009377 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 414684009378 Class I ribonucleotide reductase; Region: RNR_I; cd01679 414684009379 active site 414684009380 dimer interface [polypeptide binding]; other site 414684009381 catalytic residues [active] 414684009382 effector binding site; other site 414684009383 R2 peptide binding site; other site 414684009384 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 414684009385 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 414684009386 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 414684009387 CRISPR-associated protein; Region: DUF3692; pfam12469 414684009388 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 414684009389 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 414684009390 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 414684009391 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cd09682 414684009392 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 414684009393 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 414684009394 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 414684009395 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 414684009396 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 414684009397 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 414684009398 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 414684009399 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 414684009400 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684009401 Coenzyme A binding pocket [chemical binding]; other site 414684009402 Domain of unknown function DUF29; Region: DUF29; pfam01724 414684009403 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 414684009404 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684009405 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 414684009406 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 414684009407 dimer interface [polypeptide binding]; other site 414684009408 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 414684009409 putative radical transfer pathway; other site 414684009410 diiron center [ion binding]; other site 414684009411 tyrosyl radical; other site 414684009412 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; cd00051 414684009413 EF-hand domain pair; Region: EF_hand_5; pfam13499 414684009414 Ca2+ binding site [ion binding]; other site 414684009415 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 414684009416 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 414684009417 active site 414684009418 motif I; other site 414684009419 motif II; other site 414684009420 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 414684009421 oligomerization interface [polypeptide binding]; other site 414684009422 active site 414684009423 metal binding site [ion binding]; metal-binding site 414684009424 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 414684009425 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 414684009426 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 414684009427 Switch I; other site 414684009428 Switch II; other site 414684009429 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 414684009430 septum formation inhibitor; Reviewed; Region: minC; PRK04804 414684009431 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 414684009432 Short C-terminal domain; Region: SHOCT; pfam09851 414684009433 PhoH-like protein; Region: PhoH; pfam02562 414684009434 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 414684009435 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 414684009436 NAD binding site [chemical binding]; other site 414684009437 dimer interface [polypeptide binding]; other site 414684009438 substrate binding site [chemical binding]; other site 414684009439 tetramer (dimer of dimers) interface [polypeptide binding]; other site 414684009440 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 414684009441 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 414684009442 Cu(I) binding site [ion binding]; other site 414684009443 Protein of unknown function (DUF461); Region: DUF461; pfam04314 414684009444 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 414684009445 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 414684009446 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 414684009447 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 414684009448 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 414684009449 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 414684009450 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 414684009451 glucokinase, proteobacterial type; Region: glk; TIGR00749 414684009452 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 414684009453 nucleotide binding site [chemical binding]; other site 414684009454 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 414684009455 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 414684009456 active site 414684009457 homotetramer interface [polypeptide binding]; other site 414684009458 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 414684009459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 414684009460 N-formylglutamate amidohydrolase; Region: FGase; cl01522 414684009461 Helix-turn-helix domain; Region: HTH_17; cl17695 414684009462 PIN domain; Region: PIN_3; pfam13470 414684009463 AMP-binding domain protein; Validated; Region: PRK07529 414684009464 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684009465 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684009466 acyl-activating enzyme (AAE) consensus motif; other site 414684009467 AMP binding site [chemical binding]; other site 414684009468 active site 414684009469 acyl-activating enzyme (AAE) consensus motif; other site 414684009470 CoA binding site [chemical binding]; other site 414684009471 enoyl-CoA hydratase; Provisional; Region: PRK06210 414684009472 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 414684009473 substrate binding site [chemical binding]; other site 414684009474 oxyanion hole (OAH) forming residues; other site 414684009475 trimer interface [polypeptide binding]; other site 414684009476 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 414684009477 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684009478 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 414684009479 N-terminal plug; other site 414684009480 ligand-binding site [chemical binding]; other site 414684009481 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 414684009482 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 414684009483 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684009484 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684009485 WHG domain; Region: WHG; pfam13305 414684009486 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 414684009487 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 414684009488 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 414684009489 acyl-activating enzyme (AAE) consensus motif; other site 414684009490 acyl-activating enzyme (AAE) consensus motif; other site 414684009491 putative AMP binding site [chemical binding]; other site 414684009492 putative active site [active] 414684009493 putative CoA binding site [chemical binding]; other site 414684009494 (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 414684009495 active site 414684009496 catalytic site [active] 414684009497 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 414684009498 active site 1 [active] 414684009499 active site 2 [active] 414684009500 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 414684009501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684009502 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 414684009503 NAD(P) binding site [chemical binding]; other site 414684009504 active site 414684009505 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 414684009506 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 414684009507 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 414684009508 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 414684009509 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 414684009510 carboxyltransferase (CT) interaction site; other site 414684009511 biotinylation site [posttranslational modification]; other site 414684009512 enoyl-CoA hydratase; Provisional; Region: PRK05995 414684009513 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 414684009514 substrate binding site [chemical binding]; other site 414684009515 oxyanion hole (OAH) forming residues; other site 414684009516 trimer interface [polypeptide binding]; other site 414684009517 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 414684009518 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 414684009519 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 414684009520 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 414684009521 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 414684009522 active site 414684009523 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 414684009524 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 414684009525 acyl-activating enzyme (AAE) consensus motif; other site 414684009526 putative AMP binding site [chemical binding]; other site 414684009527 putative active site [active] 414684009528 putative CoA binding site [chemical binding]; other site 414684009529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684009530 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684009531 elongation factor G; Reviewed; Region: PRK00007 414684009532 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 414684009533 G1 box; other site 414684009534 putative GEF interaction site [polypeptide binding]; other site 414684009535 GTP/Mg2+ binding site [chemical binding]; other site 414684009536 Switch I region; other site 414684009537 G2 box; other site 414684009538 G3 box; other site 414684009539 Switch II region; other site 414684009540 G4 box; other site 414684009541 G5 box; other site 414684009542 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 414684009543 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 414684009544 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 414684009545 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 414684009546 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 414684009547 putative oligomer interface [polypeptide binding]; other site 414684009548 putative active site [active] 414684009549 metal binding site [ion binding]; metal-binding site 414684009550 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 414684009551 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684009552 ATP-grasp domain; Region: ATP-grasp_4; cl17255 414684009553 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 414684009554 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 414684009555 active site 414684009556 dimer interface [polypeptide binding]; other site 414684009557 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 414684009558 Ligand Binding Site [chemical binding]; other site 414684009559 Molecular Tunnel; other site 414684009560 ferrochelatase; Reviewed; Region: hemH; PRK00035 414684009561 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 414684009562 C-terminal domain interface [polypeptide binding]; other site 414684009563 active site 414684009564 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 414684009565 active site 414684009566 N-terminal domain interface [polypeptide binding]; other site 414684009567 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 414684009568 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 414684009569 tetramer interface [polypeptide binding]; other site 414684009570 heme binding pocket [chemical binding]; other site 414684009571 NADPH binding site [chemical binding]; other site 414684009572 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 414684009573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684009574 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 414684009575 dimerization interface [polypeptide binding]; other site 414684009576 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 414684009577 active site 414684009578 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 414684009579 PrkA family serine protein kinase; Provisional; Region: PRK15455 414684009580 AAA ATPase domain; Region: AAA_16; pfam13191 414684009581 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 414684009582 hypothetical protein; Provisional; Region: PRK05325 414684009583 SpoVR family protein; Provisional; Region: PRK11767 414684009584 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 414684009585 enoyl-CoA hydratase; Provisional; Region: PRK06688 414684009586 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 414684009587 substrate binding site [chemical binding]; other site 414684009588 oxyanion hole (OAH) forming residues; other site 414684009589 trimer interface [polypeptide binding]; other site 414684009590 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 414684009591 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 414684009592 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 414684009593 Tetratricopeptide repeat; Region: TPR_12; pfam13424 414684009594 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 414684009595 TPR motif; other site 414684009596 binding surface 414684009597 Tetratricopeptide repeat; Region: TPR_12; pfam13424 414684009598 Tetratricopeptide repeat; Region: TPR_12; pfam13424 414684009599 GAF domain; Region: GAF_2; pfam13185 414684009600 GAF domain; Region: GAF_3; pfam13492 414684009601 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 414684009602 homodimer interface [polypeptide binding]; other site 414684009603 active site 414684009604 SAM binding site [chemical binding]; other site 414684009605 secreted effector protein PipB2; Provisional; Region: PRK15196 414684009606 phosphoenolpyruvate synthase; Validated; Region: PRK06464 414684009607 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 414684009608 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 414684009609 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 414684009610 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 414684009611 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 414684009612 DNA binding residues [nucleotide binding] 414684009613 chaperone protein DnaJ; Provisional; Region: PRK14299 414684009614 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 414684009615 HSP70 interaction site [polypeptide binding]; other site 414684009616 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 414684009617 substrate binding site [polypeptide binding]; other site 414684009618 dimer interface [polypeptide binding]; other site 414684009619 thioredoxin 2; Provisional; Region: PRK10996 414684009620 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 414684009621 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 414684009622 catalytic residues [active] 414684009623 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684009624 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 414684009625 Beta-lactamase; Region: Beta-lactamase; cl17358 414684009626 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 414684009627 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 414684009628 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 414684009629 dimerization interface [polypeptide binding]; other site 414684009630 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684009631 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684009632 dimer interface [polypeptide binding]; other site 414684009633 putative CheW interface [polypeptide binding]; other site 414684009634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 414684009635 active site 414684009636 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 414684009637 active site 414684009638 substrate binding pocket [chemical binding]; other site 414684009639 dimer interface [polypeptide binding]; other site 414684009640 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 414684009641 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 414684009642 dimer interface [polypeptide binding]; other site 414684009643 motif 1; other site 414684009644 active site 414684009645 motif 2; other site 414684009646 motif 3; other site 414684009647 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 414684009648 anticodon binding site; other site 414684009649 glycosyl transferase, family 51, pseudogene;identified by match to protein family HMM PF00762 match to protein family HMM TIGR00109 414684009650 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 414684009651 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 414684009652 (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 414684009653 dimer interaction site [polypeptide binding]; other site 414684009654 substrate-binding tunnel; other site 414684009655 active site 414684009656 catalytic site [active] 414684009657 substrate binding site [chemical binding]; other site 414684009658 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684009659 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684009660 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 414684009661 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 414684009662 active site 414684009663 Riboflavin kinase; Region: Flavokinase; smart00904 414684009664 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 414684009665 oligomeric interface; other site 414684009666 putative active site [active] 414684009667 homodimer interface [polypeptide binding]; other site 414684009668 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 414684009669 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 414684009670 active site 414684009671 HIGH motif; other site 414684009672 nucleotide binding site [chemical binding]; other site 414684009673 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 414684009674 active site 414684009675 KMSKS motif; other site 414684009676 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 414684009677 tRNA binding surface [nucleotide binding]; other site 414684009678 anticodon binding site; other site 414684009679 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 414684009680 lipoprotein signal peptidase; Provisional; Region: PRK14787 414684009681 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 414684009682 conserved hypothetical protein, pseudogene 414684009683 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684009684 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684009685 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684009686 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684009687 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684009688 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 414684009689 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 414684009690 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 414684009691 active site 414684009692 dimer interface [polypeptide binding]; other site 414684009693 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 414684009694 dimer interface [polypeptide binding]; other site 414684009695 active site 414684009696 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 414684009697 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009698 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684009699 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009700 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009701 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009702 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684009703 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 414684009704 nucleoside/Zn binding site; other site 414684009705 dimer interface [polypeptide binding]; other site 414684009706 catalytic motif [active] 414684009707 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684009708 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684009709 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684009710 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684009711 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 414684009712 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 414684009713 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 414684009714 RNA binding surface [nucleotide binding]; other site 414684009715 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 414684009716 active site 414684009717 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 414684009718 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 414684009719 S-adenosylmethionine binding site [chemical binding]; other site 414684009720 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 414684009721 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 414684009722 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684009723 ATP binding site [chemical binding]; other site 414684009724 Mg2+ binding site [ion binding]; other site 414684009725 G-X-G motif; other site 414684009726 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 414684009727 ATP binding site [chemical binding]; other site 414684009728 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 414684009729 Methyltransferase domain; Region: Methyltransf_12; pfam08242 414684009730 TPR domain protein, pseudogene;identified by match to protein family HMM PF01979 match to protein family HMM TIGR00856 414684009731 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 414684009732 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 414684009733 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 414684009734 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 414684009735 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 414684009736 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 414684009737 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684009738 catalytic residue [active] 414684009739 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 414684009740 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 414684009741 PhnA protein; Region: PhnA; pfam03831 414684009742 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 414684009743 non-specific DNA binding site [nucleotide binding]; other site 414684009744 salt bridge; other site 414684009745 sequence-specific DNA binding site [nucleotide binding]; other site 414684009746 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 414684009747 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 414684009748 generic binding surface II; other site 414684009749 generic binding surface I; other site 414684009750 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 414684009751 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 414684009752 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 414684009753 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 414684009754 putative acyl-acceptor binding pocket; other site 414684009755 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 414684009756 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 414684009757 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 414684009758 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 414684009759 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 414684009760 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 414684009761 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 414684009762 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 414684009763 Predicted methyltransferase [General function prediction only]; Region: COG3897 414684009764 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 414684009765 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 414684009766 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 414684009767 UbiA prenyltransferase family; Region: UbiA; pfam01040 414684009768 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 414684009769 Major Facilitator Superfamily; Region: MFS_1; pfam07690 414684009770 RNA methyltransferase, RsmE family; Region: TIGR00046 414684009771 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 414684009772 glutamate--cysteine ligase; Region: PLN02611 414684009773 protease TldD; Provisional; Region: tldD; PRK10735 414684009774 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 414684009775 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 414684009776 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 414684009777 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 414684009778 Subunit I/III interface [polypeptide binding]; other site 414684009779 D-pathway; other site 414684009780 Subunit I/VIIc interface [polypeptide binding]; other site 414684009781 Subunit I/IV interface [polypeptide binding]; other site 414684009782 Subunit I/II interface [polypeptide binding]; other site 414684009783 Low-spin heme (heme a) binding site [chemical binding]; other site 414684009784 Subunit I/VIIa interface [polypeptide binding]; other site 414684009785 Subunit I/VIa interface [polypeptide binding]; other site 414684009786 Dimer interface; other site 414684009787 Putative water exit pathway; other site 414684009788 Binuclear center (heme a3/CuB) [ion binding]; other site 414684009789 K-pathway; other site 414684009790 Subunit I/Vb interface [polypeptide binding]; other site 414684009791 Putative proton exit pathway; other site 414684009792 Subunit I/VIb interface; other site 414684009793 Subunit I/VIc interface [polypeptide binding]; other site 414684009794 Electron transfer pathway; other site 414684009795 Subunit I/VIIIb interface [polypeptide binding]; other site 414684009796 Subunit I/VIIb interface [polypeptide binding]; other site 414684009797 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 414684009798 UbiA prenyltransferase family; Region: UbiA; pfam01040 414684009799 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 414684009800 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 414684009801 Subunit III/VIIa interface [polypeptide binding]; other site 414684009802 Phospholipid binding site [chemical binding]; other site 414684009803 Subunit I/III interface [polypeptide binding]; other site 414684009804 Subunit III/VIb interface [polypeptide binding]; other site 414684009805 Subunit III/VIa interface; other site 414684009806 Subunit III/Vb interface [polypeptide binding]; other site 414684009807 Protein of unknown function (DUF983); Region: DUF983; cl02211 414684009808 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 414684009809 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 414684009810 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; Region: Thr-synth_2; cd01560 414684009811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684009812 catalytic residue [active] 414684009813 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 414684009814 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 414684009815 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 414684009816 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 414684009817 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 414684009818 hypothetical protein; Validated; Region: PRK00228 414684009819 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 414684009820 catalytic triad [active] 414684009821 dimer interface [polypeptide binding]; other site 414684009822 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 414684009823 RNA/DNA hybrid binding site [nucleotide binding]; other site 414684009824 active site 414684009825 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 414684009826 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 414684009827 putative active site [active] 414684009828 putative substrate binding site [chemical binding]; other site 414684009829 ATP binding site [chemical binding]; other site 414684009830 phage shock protein A; Region: phageshock_pspA; TIGR02977 414684009831 PspC domain; Region: PspC; cl00864 414684009832 PemK-like protein; Region: PemK; cl00995 414684009833 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 414684009834 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 414684009835 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 414684009836 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 414684009837 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 414684009838 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 414684009839 lipoyl attachment site [posttranslational modification]; other site 414684009840 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 414684009841 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 414684009842 tetramer interface [polypeptide binding]; other site 414684009843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684009844 catalytic residue [active] 414684009845 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 414684009846 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684009847 catalytic residue [active] 414684009848 hypothetical protein; Provisional; Region: PRK08912 414684009849 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 414684009850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684009851 homodimer interface [polypeptide binding]; other site 414684009852 catalytic residue [active] 414684009853 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 414684009854 MG2 domain; Region: A2M_N; pfam01835 414684009855 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 414684009856 Alpha-2-macroglobulin family; Region: A2M; pfam00207 414684009857 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 414684009858 surface patch; other site 414684009859 thioester region; other site 414684009860 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 414684009861 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 414684009862 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 414684009863 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 414684009864 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684009865 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 414684009866 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 414684009867 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 414684009868 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 414684009869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 414684009870 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 414684009871 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 414684009872 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 414684009873 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 414684009874 DNA-binding site [nucleotide binding]; DNA binding site 414684009875 RNA-binding motif; other site 414684009876 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 414684009877 DNA-binding site [nucleotide binding]; DNA binding site 414684009878 RNA-binding motif; other site 414684009879 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 414684009880 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 414684009881 acyl-activating enzyme (AAE) consensus motif; other site 414684009882 putative AMP binding site [chemical binding]; other site 414684009883 putative active site [active] 414684009884 putative CoA binding site [chemical binding]; other site 414684009885 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684009886 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684009887 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684009888 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684009889 DDE superfamily endonuclease; Region: DDE_3; pfam13358 414684009890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 414684009891 Winged helix-turn helix; Region: HTH_29; pfam13551 414684009892 Helix-turn-helix domain; Region: HTH_28; pfam13518 414684009893 Winged helix-turn helix; Region: HTH_33; pfam13592 414684009894 Rop-like; Region: Rop-like; pfam05082 414684009895 probable nitrogen fixation protein; Region: TIGR02935 414684009896 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 414684009897 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 414684009898 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 414684009899 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 414684009900 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 414684009901 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 414684009902 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 414684009903 MoFe protein beta/alpha subunit interactions; other site 414684009904 Beta subunit P cluster binding residues; other site 414684009905 MoFe protein beta subunit/Fe protein contacts; other site 414684009906 MoFe protein dimer/ dimer interactions; other site 414684009907 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 414684009908 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 414684009909 MoFe protein alpha/beta subunit interactions; other site 414684009910 Alpha subunit P cluster binding residues; other site 414684009911 FeMoco binding residues [chemical binding]; other site 414684009912 MoFe protein alpha subunit/Fe protein contacts; other site 414684009913 MoFe protein dimer/ dimer interactions; other site 414684009914 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 414684009915 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 414684009916 Nucleotide-binding sites [chemical binding]; other site 414684009917 Walker A motif; other site 414684009918 Switch I region of nucleotide binding site; other site 414684009919 Fe4S4 binding sites [ion binding]; other site 414684009920 Switch II region of nucleotide binding site; other site 414684009921 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 414684009922 TOBE domain; Region: TOBE; cl01440 414684009923 SIR2-like domain; Region: SIR2_2; pfam13289 414684009924 NifT/FixU protein; Region: NifT; pfam06988 414684009925 NifZ domain; Region: NifZ; pfam04319 414684009926 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 414684009927 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 414684009928 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 414684009929 FeS/SAM binding site; other site 414684009930 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 414684009931 Nif-specific regulatory protein; Region: nifA; TIGR01817 414684009932 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 414684009933 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 414684009934 Walker A motif; other site 414684009935 ATP binding site [chemical binding]; other site 414684009936 Walker B motif; other site 414684009937 arginine finger; other site 414684009938 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 414684009939 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 414684009940 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 414684009941 active site 414684009942 catalytic residues [active] 414684009943 metal binding site [ion binding]; metal-binding site 414684009944 Nitrogen fixation protein NifW; Region: NifW; cl03935 414684009945 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 414684009946 Ligand binding site [chemical binding]; other site 414684009947 Electron transfer flavoprotein domain; Region: ETF; pfam01012 414684009948 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 414684009949 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 414684009950 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 414684009951 oxidoreductase; Provisional; Region: PRK10015 414684009952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 414684009953 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 414684009954 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 414684009955 ArsC family; Region: ArsC; pfam03960 414684009956 catalytic residues [active] 414684009957 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 414684009958 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 414684009959 AAA ATPase domain; Region: AAA_16; pfam13191 414684009960 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 414684009961 DNA binding residues [nucleotide binding] 414684009962 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 414684009963 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 414684009964 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 414684009965 Protein of unknown function (DUF917); Region: DUF917; pfam06032 414684009966 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684009967 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 414684009968 N-terminal plug; other site 414684009969 ligand-binding site [chemical binding]; other site 414684009970 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 414684009971 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 414684009972 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 414684009973 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 414684009974 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 414684009975 Cupin domain; Region: Cupin_2; cl17218 414684009976 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 414684009977 hydroxyglutarate oxidase; Provisional; Region: PRK11728 414684009978 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 414684009979 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 414684009980 active site 414684009981 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 414684009982 putative FMN binding site [chemical binding]; other site 414684009983 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 414684009984 oligomeric interface; other site 414684009985 putative active site [active] 414684009986 homodimer interface [polypeptide binding]; other site 414684009987 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 414684009988 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 414684009989 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 414684009990 active site 414684009991 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684009992 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684009993 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684009994 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684009995 PAS domain; Region: PAS_9; pfam13426 414684009996 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 414684009997 putative active site [active] 414684009998 heme pocket [chemical binding]; other site 414684009999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684010000 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684010001 dimer interface [polypeptide binding]; other site 414684010002 phosphorylation site [posttranslational modification] 414684010003 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010004 ATP binding site [chemical binding]; other site 414684010005 Mg2+ binding site [ion binding]; other site 414684010006 G-X-G motif; other site 414684010007 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 414684010008 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684010009 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 414684010010 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 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 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684010019 Walker A/P-loop; other site 414684010020 ATP binding site [chemical binding]; other site 414684010021 Q-loop/lid; other site 414684010022 ABC transporter signature motif; other site 414684010023 Walker B; other site 414684010024 D-loop; other site 414684010025 H-loop/switch region; other site 414684010026 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684010027 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 414684010028 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 414684010029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684010030 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 414684010031 non-specific DNA binding site [nucleotide binding]; other site 414684010032 salt bridge; other site 414684010033 sequence-specific DNA binding site [nucleotide binding]; other site 414684010034 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 414684010035 dimer interface [polypeptide binding]; other site 414684010036 conserved gate region; other site 414684010037 putative PBP binding loops; other site 414684010038 ABC-ATPase subunit interface; other site 414684010039 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 414684010040 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 414684010041 dimer interface [polypeptide binding]; other site 414684010042 conserved gate region; other site 414684010043 putative PBP binding loops; other site 414684010044 ABC-ATPase subunit interface; other site 414684010045 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 414684010046 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 414684010047 Walker A/P-loop; other site 414684010048 ATP binding site [chemical binding]; other site 414684010049 Q-loop/lid; other site 414684010050 ABC transporter signature motif; other site 414684010051 Walker B; other site 414684010052 D-loop; other site 414684010053 H-loop/switch region; other site 414684010054 TOBE domain; Region: TOBE_2; pfam08402 414684010055 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 414684010056 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 414684010057 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684010058 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684010059 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684010060 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 414684010061 homodimer interaction site [polypeptide binding]; other site 414684010062 cofactor binding site; other site 414684010063 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684010064 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 414684010065 N-terminal plug; other site 414684010066 ligand-binding site [chemical binding]; other site 414684010067 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 414684010068 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 414684010069 putative metal binding site [ion binding]; other site 414684010070 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 414684010071 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 414684010072 ABC-ATPase subunit interface; other site 414684010073 dimer interface [polypeptide binding]; other site 414684010074 putative PBP binding regions; other site 414684010075 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 414684010076 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 414684010077 Walker A/P-loop; other site 414684010078 ATP binding site [chemical binding]; other site 414684010079 Q-loop/lid; other site 414684010080 ABC transporter signature motif; other site 414684010081 Walker B; other site 414684010082 D-loop; other site 414684010083 H-loop/switch region; other site 414684010084 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 414684010085 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 414684010086 P-loop; other site 414684010087 Magnesium ion binding site [ion binding]; other site 414684010088 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 414684010089 Magnesium ion binding site [ion binding]; other site 414684010090 ParB-like nuclease domain; Region: ParB; smart00470 414684010091 Predicted membrane protein [Function unknown]; Region: COG2364 414684010092 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 414684010093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684010094 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 414684010095 dimerization interface [polypeptide binding]; other site 414684010096 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684010097 dimer interface [polypeptide binding]; other site 414684010098 phosphorylation site [posttranslational modification] 414684010099 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010100 ATP binding site [chemical binding]; other site 414684010101 Mg2+ binding site [ion binding]; other site 414684010102 G-X-G motif; other site 414684010103 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684010104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010105 active site 414684010106 phosphorylation site [posttranslational modification] 414684010107 intermolecular recognition site; other site 414684010108 dimerization interface [polypeptide binding]; other site 414684010109 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 414684010110 DNA binding site [nucleotide binding] 414684010111 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684010112 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684010113 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684010114 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 414684010115 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 414684010116 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 414684010117 putative ADP-binding pocket [chemical binding]; other site 414684010118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684010119 HD domain; Region: HD_3; cl17350 414684010120 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 414684010121 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 414684010122 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 414684010123 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684010124 Flagellar protein FlbT; Region: FlbT; cl11455 414684010125 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 414684010126 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 414684010127 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684010128 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 414684010129 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 414684010130 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 414684010131 Flagellar protein FlaF; Region: FlaF; pfam07309 414684010132 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 414684010133 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 414684010134 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 414684010135 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 414684010136 NAD(P) binding site [chemical binding]; other site 414684010137 catalytic residues [active] 414684010138 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 414684010139 ligand binding site; other site 414684010140 tetramer interface; other site 414684010141 transketolase; Reviewed; Region: PRK05899 414684010142 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 414684010143 TPP-binding site [chemical binding]; other site 414684010144 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 414684010145 PYR/PP interface [polypeptide binding]; other site 414684010146 dimer interface [polypeptide binding]; other site 414684010147 TPP binding site [chemical binding]; other site 414684010148 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684010149 short chain dehydrogenase; Provisional; Region: PRK06841 414684010150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010151 NAD(P) binding site [chemical binding]; other site 414684010152 active site 414684010153 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 414684010154 NeuB family; Region: NeuB; pfam03102 414684010155 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 414684010156 NeuB binding interface [polypeptide binding]; other site 414684010157 putative substrate binding site [chemical binding]; other site 414684010158 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 414684010159 active site 414684010160 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 414684010161 extended (e) SDRs; Region: SDR_e; cd08946 414684010162 NAD(P) binding site [chemical binding]; other site 414684010163 active site 414684010164 substrate binding site [chemical binding]; other site 414684010165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010166 Cephalosporin hydroxylase; Region: CmcI; pfam04989 414684010167 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010168 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 414684010169 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684010170 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 414684010171 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 414684010172 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010173 Methyltransferase domain; Region: Methyltransf_12; pfam08242 414684010174 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684010175 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 414684010176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010177 NAD(P) binding site [chemical binding]; other site 414684010178 active site 414684010179 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 414684010180 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 414684010181 substrate binding site; other site 414684010182 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 414684010183 active site 414684010184 dimer interface [polypeptide binding]; other site 414684010185 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 414684010186 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 414684010187 Ligand Binding Site [chemical binding]; other site 414684010188 Molecular Tunnel; other site 414684010189 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 414684010190 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 414684010191 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 414684010192 cyclase homology domain; Region: CHD; cd07302 414684010193 nucleotidyl binding site; other site 414684010194 metal binding site [ion binding]; metal-binding site 414684010195 dimer interface [polypeptide binding]; other site 414684010196 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 414684010197 Uncharacterized conserved protein [Function unknown]; Region: COG1944 414684010198 YcaO-like family; Region: YcaO; pfam02624 414684010199 Uncharacterized conserved protein [Function unknown]; Region: COG3482 414684010200 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684010201 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 414684010202 ligand binding site [chemical binding]; other site 414684010203 flexible hinge region; other site 414684010204 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 414684010205 putative switch regulator; other site 414684010206 non-specific DNA interactions [nucleotide binding]; other site 414684010207 DNA binding site [nucleotide binding] 414684010208 sequence specific DNA binding site [nucleotide binding]; other site 414684010209 putative cAMP binding site [chemical binding]; other site 414684010210 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 414684010211 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 414684010212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684010213 Walker A/P-loop; other site 414684010214 ATP binding site [chemical binding]; other site 414684010215 Q-loop/lid; other site 414684010216 ABC transporter signature motif; other site 414684010217 Walker B; other site 414684010218 D-loop; other site 414684010219 H-loop/switch region; other site 414684010220 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 414684010221 KpsF/GutQ family protein; Region: kpsF; TIGR00393 414684010222 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 414684010223 putative active site [active] 414684010224 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 414684010225 Transmembrane secretion effector; Region: MFS_3; pfam05977 414684010226 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 414684010227 putative substrate translocation pore; other site 414684010228 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 414684010229 Replication initiator protein A; Region: RPA; pfam10134 414684010230 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684010231 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 414684010232 NAD binding site [chemical binding]; other site 414684010233 putative substrate binding site 2 [chemical binding]; other site 414684010234 putative substrate binding site 1 [chemical binding]; other site 414684010235 active site 414684010236 PAS fold; Region: PAS_2; pfam08446 414684010237 GAF domain; Region: GAF; pfam01590 414684010238 Phytochrome region; Region: PHY; pfam00360 414684010239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684010240 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684010241 dimer interface [polypeptide binding]; other site 414684010242 phosphorylation site [posttranslational modification] 414684010243 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010244 ATP binding site [chemical binding]; other site 414684010245 Mg2+ binding site [ion binding]; other site 414684010246 G-X-G motif; other site 414684010247 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 414684010248 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 414684010249 tetramer interface [polypeptide binding]; other site 414684010250 active site 414684010251 Mg2+/Mn2+ binding site [ion binding]; other site 414684010252 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 414684010253 methylcitrate synthase; Provisional; Region: PRK12351 414684010254 oxalacetate binding site [chemical binding]; other site 414684010255 citrylCoA binding site [chemical binding]; other site 414684010256 coenzyme A binding site [chemical binding]; other site 414684010257 catalytic triad [active] 414684010258 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 414684010259 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 414684010260 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 414684010261 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 414684010262 sequence-specific DNA binding site [nucleotide binding]; other site 414684010263 salt bridge; other site 414684010264 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 414684010265 Domain of unknown function (DUF955); Region: DUF955; pfam06114 414684010266 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 414684010267 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684010268 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 414684010269 Secretin and TonB N terminus short domain; Region: STN; smart00965 414684010270 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 414684010271 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 414684010272 N-terminal plug; other site 414684010273 ligand-binding site [chemical binding]; other site 414684010274 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684010275 FecR protein; Region: FecR; pfam04773 414684010276 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 414684010277 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684010278 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 414684010279 DNA binding residues [nucleotide binding] 414684010280 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 414684010281 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 414684010282 Beta-Casp domain; Region: Beta-Casp; smart01027 414684010283 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 414684010284 RES domain; Region: RES; smart00953 414684010285 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 414684010286 sequence-specific DNA binding site [nucleotide binding]; other site 414684010287 salt bridge; other site 414684010288 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 414684010289 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 414684010290 active site 414684010291 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684010292 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684010293 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 414684010294 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684010295 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 414684010296 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684010297 Outer membrane efflux protein; Region: OEP; pfam02321 414684010298 Outer membrane efflux protein; Region: OEP; pfam02321 414684010299 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 414684010300 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 414684010301 VCBS repeat; Region: VCBS_repeat; TIGR01965 414684010302 Cadherin repeat-like domain; Region: CA_like; cl15786 414684010303 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010304 Ca2+ binding site [ion binding]; other site 414684010305 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010306 Cadherin repeat-like domain; Region: CA_like; cl15786 414684010307 Ca2+ binding site [ion binding]; other site 414684010308 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010309 Cadherin repeat-like domain; Region: CA_like; cl15786 414684010310 Ca2+ binding site [ion binding]; other site 414684010311 Cadherin repeat-like domain; Region: CA_like; cl15786 414684010312 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010313 Ca2+ binding site [ion binding]; other site 414684010314 Cadherin repeat-like domain; Region: CA_like; cl15786 414684010315 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010316 Ca2+ binding site [ion binding]; other site 414684010317 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010318 PAS domain; Region: PAS_5; pfam07310 414684010319 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 414684010320 heme-binding site [chemical binding]; other site 414684010321 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010322 dimer interface [polypeptide binding]; other site 414684010323 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 414684010324 putative CheW interface [polypeptide binding]; other site 414684010325 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 414684010326 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 414684010327 Domain of unknown function DUF87; Region: DUF87; pfam01935 414684010328 AAA-like domain; Region: AAA_10; pfam12846 414684010329 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 414684010330 active site clefts [active] 414684010331 zinc binding site [ion binding]; other site 414684010332 dimer interface [polypeptide binding]; other site 414684010333 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 414684010334 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 414684010335 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684010336 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010337 dimer interface [polypeptide binding]; other site 414684010338 putative CheW interface [polypeptide binding]; other site 414684010339 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 414684010340 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 414684010341 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 414684010342 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 414684010343 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 414684010344 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684010345 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 414684010346 Walker A/P-loop; other site 414684010347 ATP binding site [chemical binding]; other site 414684010348 Q-loop/lid; other site 414684010349 ABC transporter signature motif; other site 414684010350 Walker B; other site 414684010351 D-loop; other site 414684010352 H-loop/switch region; other site 414684010353 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684010354 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684010355 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 414684010356 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 414684010357 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 414684010358 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 414684010359 FeS/SAM binding site; other site 414684010360 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 414684010361 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684010362 FecR protein; Region: FecR; pfam04773 414684010363 Domain of unknown function DUF87; Region: DUF87; pfam01935 414684010364 HerA helicase [Replication, recombination, and repair]; Region: COG0433 414684010365 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 414684010366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684010367 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 414684010368 DNA binding residues [nucleotide binding] 414684010369 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 414684010370 TPR motif; other site 414684010371 binding surface 414684010372 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 414684010373 binding surface 414684010374 TPR motif; other site 414684010375 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; cl17879 414684010376 bacterial Hfq-like; Region: Hfq; cd01716 414684010377 hexamer interface [polypeptide binding]; other site 414684010378 Sm1 motif; other site 414684010379 RNA binding site [nucleotide binding]; other site 414684010380 Sm2 motif; other site 414684010381 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 414684010382 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684010383 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 414684010384 ligand binding site [chemical binding]; other site 414684010385 flexible hinge region; other site 414684010386 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; cl17320 414684010387 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 414684010388 active site residue [active] 414684010389 OsmC-like protein; Region: OsmC; pfam02566 414684010390 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 414684010391 gating phenylalanine in ion channel; other site 414684010392 Creatinine amidohydrolase; Region: Creatininase; pfam02633 414684010393 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 414684010394 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 414684010395 N-terminal plug; other site 414684010396 ligand-binding site [chemical binding]; other site 414684010397 Hemin uptake protein hemP; Region: hemP; pfam10636 414684010398 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 414684010399 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 414684010400 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 414684010401 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 414684010402 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684010403 intersubunit interface [polypeptide binding]; other site 414684010404 FecCD transport family; Region: FecCD; pfam01032 414684010405 putative PBP binding regions; other site 414684010406 ABC-ATPase subunit interface; other site 414684010407 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 414684010408 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 414684010409 Walker A/P-loop; other site 414684010410 ATP binding site [chemical binding]; other site 414684010411 Q-loop/lid; other site 414684010412 ABC transporter signature motif; other site 414684010413 Walker B; other site 414684010414 D-loop; other site 414684010415 H-loop/switch region; other site 414684010416 Rrf2 family protein; Region: rrf2_super; TIGR00738 414684010417 Transcriptional regulator; Region: Rrf2; pfam02082 414684010418 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 414684010419 PAS domain; Region: PAS_9; pfam13426 414684010420 putative active site [active] 414684010421 heme pocket [chemical binding]; other site 414684010422 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684010423 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010424 dimer interface [polypeptide binding]; other site 414684010425 putative CheW interface [polypeptide binding]; other site 414684010426 PilZ domain; Region: PilZ; pfam07238 414684010427 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 414684010428 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 414684010429 substrate binding pocket [chemical binding]; other site 414684010430 membrane-bound complex binding site; other site 414684010431 hinge residues; other site 414684010432 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 414684010433 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 414684010434 dimer interface [polypeptide binding]; other site 414684010435 conserved gate region; other site 414684010436 putative PBP binding loops; other site 414684010437 ABC-ATPase subunit interface; other site 414684010438 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 414684010439 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 414684010440 dimer interface [polypeptide binding]; other site 414684010441 conserved gate region; other site 414684010442 putative PBP binding loops; other site 414684010443 ABC-ATPase subunit interface; other site 414684010444 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 414684010445 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684010446 Walker A/P-loop; other site 414684010447 ATP binding site [chemical binding]; other site 414684010448 Q-loop/lid; other site 414684010449 ABC transporter signature motif; other site 414684010450 Walker B; other site 414684010451 D-loop; other site 414684010452 H-loop/switch region; other site 414684010453 TOBE domain; Region: TOBE_2; pfam08402 414684010454 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684010455 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 414684010456 N-terminal plug; other site 414684010457 ligand-binding site [chemical binding]; other site 414684010458 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; cd00636 414684010459 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 414684010460 intersubunit interface [polypeptide binding]; other site 414684010461 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 414684010462 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 414684010463 dimer interface [polypeptide binding]; other site 414684010464 putative PBP binding regions; other site 414684010465 ABC-ATPase subunit interface; other site 414684010466 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 414684010467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684010468 Walker A/P-loop; other site 414684010469 ATP binding site [chemical binding]; other site 414684010470 Q-loop/lid; other site 414684010471 ABC transporter signature motif; other site 414684010472 Walker B; other site 414684010473 D-loop; other site 414684010474 H-loop/switch region; other site 414684010475 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 414684010476 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 414684010477 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 414684010478 catalytic residue [active] 414684010479 PAS fold; Region: PAS_3; pfam08447 414684010480 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684010481 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684010482 metal binding site [ion binding]; metal-binding site 414684010483 active site 414684010484 I-site; other site 414684010485 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 414684010486 CheB methylesterase; Region: CheB_methylest; pfam01339 414684010487 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 414684010488 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 414684010489 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 414684010490 PAS domain; Region: PAS_10; pfam13596 414684010491 PAS fold; Region: PAS; pfam00989 414684010492 Palmitoyl protein thioesterase; Region: Palm_thioest; cl15849 414684010493 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 414684010494 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 414684010495 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684010496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684010497 metal binding site [ion binding]; metal-binding site 414684010498 active site 414684010499 I-site; other site 414684010500 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 414684010501 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 414684010502 putative Zn2+ binding site [ion binding]; other site 414684010503 putative DNA binding site [nucleotide binding]; other site 414684010504 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684010505 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684010506 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684010507 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 414684010508 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 414684010509 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 414684010510 Trp docking motif [polypeptide binding]; other site 414684010511 putative active site [active] 414684010512 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 414684010513 PAS domain; Region: PAS_9; pfam13426 414684010514 putative active site [active] 414684010515 heme pocket [chemical binding]; other site 414684010516 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684010517 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010518 dimer interface [polypeptide binding]; other site 414684010519 putative CheW interface [polypeptide binding]; other site 414684010520 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 414684010521 PAS domain; Region: PAS_9; pfam13426 414684010522 putative active site [active] 414684010523 heme pocket [chemical binding]; other site 414684010524 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 414684010525 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684010526 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010527 dimer interface [polypeptide binding]; other site 414684010528 putative CheW interface [polypeptide binding]; other site 414684010529 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 414684010530 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 414684010531 N-terminal plug; other site 414684010532 ligand-binding site [chemical binding]; other site 414684010533 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 414684010534 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 414684010535 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 414684010536 Putative serine esterase (DUF676); Region: DUF676; pfam05057 414684010537 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 414684010538 Protein export membrane protein; Region: SecD_SecF; cl14618 414684010539 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 414684010540 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684010541 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684010542 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684010543 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684010544 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 414684010545 Heavy-metal resistance; Region: Metal_resist; pfam13801 414684010546 dimer interface [polypeptide binding]; other site 414684010547 RNA polymerase sigma factor; Reviewed; Region: PRK05602 414684010548 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684010549 conserved hypothetical protein, pseudogene;identified by match to protein family HMM PF01032 414684010550 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684010551 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 414684010552 ApbE family; Region: ApbE; pfam02424 414684010553 NosL; Region: NosL; pfam05573 414684010554 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 414684010555 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 414684010556 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 414684010557 Walker A/P-loop; other site 414684010558 ATP binding site [chemical binding]; other site 414684010559 Q-loop/lid; other site 414684010560 ABC transporter signature motif; other site 414684010561 Walker B; other site 414684010562 D-loop; other site 414684010563 H-loop/switch region; other site 414684010564 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 414684010565 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 414684010566 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 414684010567 nitrous-oxide reductase; Validated; Region: PRK02888 414684010568 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 414684010569 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 414684010570 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 414684010571 4Fe-4S binding domain; Region: Fer4_5; pfam12801 414684010572 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 414684010573 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 414684010574 putative active site [active] 414684010575 heme pocket [chemical binding]; other site 414684010576 PAS fold; Region: PAS_3; pfam08447 414684010577 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 414684010578 heme pocket [chemical binding]; other site 414684010579 putative active site [active] 414684010580 PAS fold; Region: PAS_4; pfam08448 414684010581 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 414684010582 putative active site [active] 414684010583 heme pocket [chemical binding]; other site 414684010584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 414684010585 HWE histidine kinase; Region: HWE_HK; smart00911 414684010586 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 414684010587 VacJ like lipoprotein; Region: VacJ; cl01073 414684010588 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 414684010589 homotrimer interaction site [polypeptide binding]; other site 414684010590 putative active site [active] 414684010591 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684010592 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 414684010593 N-terminal plug; other site 414684010594 ligand-binding site [chemical binding]; other site 414684010595 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 414684010596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 414684010597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684010598 ABC transporter signature motif; other site 414684010599 Walker B; other site 414684010600 D-loop; other site 414684010601 H-loop/switch region; other site 414684010602 hydroxyglutarate oxidase; Provisional; Region: PRK11728 414684010603 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 414684010604 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 414684010605 PAS domain S-box; Region: sensory_box; TIGR00229 414684010606 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 414684010607 putative active site [active] 414684010608 heme pocket [chemical binding]; other site 414684010609 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 414684010610 PAS domain; Region: PAS_9; pfam13426 414684010611 putative active site [active] 414684010612 heme pocket [chemical binding]; other site 414684010613 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 414684010614 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 414684010615 metal binding site [ion binding]; metal-binding site 414684010616 active site 414684010617 I-site; other site 414684010618 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 414684010619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 414684010620 Family of unknown function (DUF490); Region: DUF490; pfam04357 414684010621 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 414684010622 Surface antigen; Region: Bac_surface_Ag; pfam01103 414684010623 AMP nucleosidase; Provisional; Region: PRK08292 414684010624 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 414684010625 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 414684010626 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 414684010627 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 414684010628 pyridoxamine kinase; Validated; Region: PRK05756 414684010629 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 414684010630 dimer interface [polypeptide binding]; other site 414684010631 pyridoxal binding site [chemical binding]; other site 414684010632 ATP binding site [chemical binding]; other site 414684010633 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 414684010634 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 414684010635 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 414684010636 Protein of unknown function (DUF962); Region: DUF962; pfam06127 414684010637 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 414684010638 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010639 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010640 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010641 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010642 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 414684010643 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 414684010644 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 414684010645 N-terminal plug; other site 414684010646 ligand-binding site [chemical binding]; other site 414684010647 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 414684010648 Iron-sulfur protein interface; other site 414684010649 proximal quinone binding site [chemical binding]; other site 414684010650 SdhD (CybS) interface [polypeptide binding]; other site 414684010651 proximal heme binding site [chemical binding]; other site 414684010652 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 414684010653 proximal heme binding site [chemical binding]; other site 414684010654 Iron-sulfur protein interface; other site 414684010655 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 414684010656 L-aspartate oxidase; Provisional; Region: PRK06175 414684010657 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 414684010658 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 414684010659 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 414684010660 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 414684010661 short chain dehydrogenase; Provisional; Region: PRK06181 414684010662 NADP binding site [chemical binding]; other site 414684010663 homodimer interface [polypeptide binding]; other site 414684010664 substrate binding site [chemical binding]; other site 414684010665 active site 414684010666 intracellular septation protein A; Reviewed; Region: PRK00259 414684010667 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 414684010668 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 414684010669 G1 box; other site 414684010670 putative GEF interaction site [polypeptide binding]; other site 414684010671 GTP/Mg2+ binding site [chemical binding]; other site 414684010672 Switch I region; other site 414684010673 G2 box; other site 414684010674 G3 box; other site 414684010675 Switch II region; other site 414684010676 G4 box; other site 414684010677 G5 box; other site 414684010678 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 414684010679 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 414684010680 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 414684010681 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010682 ATP binding site [chemical binding]; other site 414684010683 Mg2+ binding site [ion binding]; other site 414684010684 G-X-G motif; other site 414684010685 putative acyltransferase; Provisional; Region: PRK05790 414684010686 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 414684010687 dimer interface [polypeptide binding]; other site 414684010688 active site 414684010689 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 414684010690 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 414684010691 NAD(P) binding site [chemical binding]; other site 414684010692 homotetramer interface [polypeptide binding]; other site 414684010693 homodimer interface [polypeptide binding]; other site 414684010694 active site 414684010695 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 414684010696 nudix motif; other site 414684010697 EamA-like transporter family; Region: EamA; pfam00892 414684010698 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010699 Methyltransferase domain; Region: Methyltransf_11; pfam08241 414684010700 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 414684010701 Radical SAM superfamily; Region: Radical_SAM; pfam04055 414684010702 FeS/SAM binding site; other site 414684010703 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 414684010704 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 414684010705 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 414684010706 Fe-S cluster binding site [ion binding]; other site 414684010707 active site 414684010708 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 414684010709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010710 NAD(P) binding site [chemical binding]; other site 414684010711 active site 414684010712 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 414684010713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 414684010714 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 414684010715 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 414684010716 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 414684010717 substrate binding site [chemical binding]; other site 414684010718 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 414684010719 tartrate dehydrogenase; Region: TTC; TIGR02089 414684010720 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684010721 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 414684010722 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 414684010723 catalytic core [active] 414684010724 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684010725 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 414684010726 substrate binding pocket [chemical binding]; other site 414684010727 membrane-bound complex binding site; other site 414684010728 hinge residues; other site 414684010729 Predicted ATPase [General function prediction only]; Region: COG1485 414684010730 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 414684010731 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 414684010732 Coenzyme A binding pocket [chemical binding]; other site 414684010733 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 414684010734 ThiC-associated domain; Region: ThiC-associated; pfam13667 414684010735 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 414684010736 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 414684010737 GMP synthase; Reviewed; Region: guaA; PRK00074 414684010738 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 414684010739 AMP/PPi binding site [chemical binding]; other site 414684010740 candidate oxyanion hole; other site 414684010741 catalytic triad [active] 414684010742 potential glutamine specificity residues [chemical binding]; other site 414684010743 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 414684010744 ATP Binding subdomain [chemical binding]; other site 414684010745 Ligand Binding sites [chemical binding]; other site 414684010746 Dimerization subdomain; other site 414684010747 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 414684010748 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 414684010749 short chain dehydrogenase; Provisional; Region: PRK07478 414684010750 classical (c) SDRs; Region: SDR_c; cd05233 414684010751 NAD(P) binding site [chemical binding]; other site 414684010752 active site 414684010753 Hemerythrin-like domain; Region: Hr-like; cd12108 414684010754 Fe binding site [ion binding]; other site 414684010755 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 414684010756 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 414684010757 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 414684010758 ligand binding site [chemical binding]; other site 414684010759 flexible hinge region; other site 414684010760 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 414684010761 putative switch regulator; other site 414684010762 non-specific DNA interactions [nucleotide binding]; other site 414684010763 DNA binding site [nucleotide binding] 414684010764 sequence specific DNA binding site [nucleotide binding]; other site 414684010765 putative cAMP binding site [chemical binding]; other site 414684010766 NnrS protein; Region: NnrS; pfam05940 414684010767 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684010768 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 414684010769 N-terminal plug; other site 414684010770 ligand-binding site [chemical binding]; other site 414684010771 Cytochrome c; Region: Cytochrom_C; cl11414 414684010772 Predicted dehydrogenase [General function prediction only]; Region: COG0579 414684010773 hydroxyglutarate oxidase; Provisional; Region: PRK11728 414684010774 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 414684010775 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010776 Methyltransferase domain; Region: Methyltransf_12; pfam08242 414684010777 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684010778 short chain dehydrogenase; Provisional; Region: PRK08219 414684010779 classical (c) SDRs; Region: SDR_c; cd05233 414684010780 NAD(P) binding site [chemical binding]; other site 414684010781 active site 414684010782 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 414684010783 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 414684010784 metal binding site [ion binding]; metal-binding site 414684010785 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 414684010786 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 414684010787 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 414684010788 substrate binding site; other site 414684010789 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 414684010790 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684010791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010792 NAD(P) binding site [chemical binding]; other site 414684010793 active site 414684010794 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684010795 extended (e) SDRs; Region: SDR_e; cd08946 414684010796 NAD(P) binding site [chemical binding]; other site 414684010797 active site 414684010798 substrate binding site [chemical binding]; other site 414684010799 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684010800 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 414684010801 active site 414684010802 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 414684010803 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 414684010804 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 414684010805 substrate binding site; other site 414684010806 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 414684010807 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010808 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 414684010809 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 414684010810 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 414684010811 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010812 ATP binding site [chemical binding]; other site 414684010813 Mg2+ binding site [ion binding]; other site 414684010814 G-X-G motif; other site 414684010815 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 414684010816 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 414684010817 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 414684010818 active site 414684010819 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 414684010820 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 414684010821 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684010822 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 414684010823 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 414684010824 Ca2+ binding site [ion binding]; other site 414684010825 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 414684010826 Bacterial sugar transferase; Region: Bac_transf; pfam02397 414684010827 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 414684010828 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 414684010829 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 414684010830 SLBB domain; Region: SLBB; pfam10531 414684010831 Chain length determinant protein; Region: Wzz; cl15801 414684010832 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 414684010833 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 414684010834 ParA/MinD ATPase like; Region: ParA; pfam10609 414684010835 putative glycosyl transferase; Provisional; Region: PRK10307 414684010836 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 414684010837 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010838 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 414684010839 S-adenosylmethionine binding site [chemical binding]; other site 414684010840 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 414684010841 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684010842 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 414684010843 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684010844 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 414684010845 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 414684010846 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684010847 putative metal binding site; other site 414684010848 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010849 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 414684010850 S-adenosylmethionine binding site [chemical binding]; other site 414684010851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010852 TIGR01777 family protein; Region: yfcH 414684010853 NAD(P) binding site [chemical binding]; other site 414684010854 active site 414684010855 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 414684010856 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 414684010857 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 414684010858 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 414684010859 active site 414684010860 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 414684010861 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684010862 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 414684010863 S-adenosylmethionine binding site [chemical binding]; other site 414684010864 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 414684010865 S-adenosylmethionine binding site [chemical binding]; other site 414684010866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 414684010867 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 414684010868 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 414684010869 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 414684010870 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 414684010871 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 414684010872 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 414684010873 active site 414684010874 dimer interface [polypeptide binding]; other site 414684010875 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 414684010876 Ligand Binding Site [chemical binding]; other site 414684010877 Molecular Tunnel; other site 414684010878 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 414684010879 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 414684010880 NAD binding site [chemical binding]; other site 414684010881 putative substrate binding site 2 [chemical binding]; other site 414684010882 putative substrate binding site 1 [chemical binding]; other site 414684010883 active site 414684010884 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 414684010885 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 414684010886 NADP-binding site; other site 414684010887 homotetramer interface [polypeptide binding]; other site 414684010888 substrate binding site [chemical binding]; other site 414684010889 homodimer interface [polypeptide binding]; other site 414684010890 active site 414684010891 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 414684010892 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 414684010893 NADP binding site [chemical binding]; other site 414684010894 active site 414684010895 putative substrate binding site [chemical binding]; other site 414684010896 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 414684010897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684010898 NAD(P) binding site [chemical binding]; other site 414684010899 active site 414684010900 Cupin domain; Region: Cupin_2; cl17218 414684010901 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 414684010902 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 414684010903 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 414684010904 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 414684010905 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 414684010906 ABC transporter ATP-binding protein CydD, pseudogene;identified by match to protein family HMM PF02706 414684010907 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 414684010908 Walker A/P-loop; other site 414684010909 ATP binding site [chemical binding]; other site 414684010910 Q-loop/lid; other site 414684010911 ABC transporter signature motif; other site 414684010912 Walker B; other site 414684010913 D-loop; other site 414684010914 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 414684010915 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 414684010916 PhoD-like phosphatase; Region: PhoD; pfam09423 414684010917 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684010918 putative active site [active] 414684010919 putative metal binding site [ion binding]; other site 414684010920 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 414684010921 Transcriptional regulators [Transcription]; Region: MarR; COG1846 414684010922 MarR family; Region: MarR; pfam01047 414684010923 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 414684010924 catalytic residues [active] 414684010925 dimer interface [polypeptide binding]; other site 414684010926 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 414684010927 CoenzymeA binding site [chemical binding]; other site 414684010928 subunit interaction site [polypeptide binding]; other site 414684010929 PHB binding site; other site 414684010930 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 414684010931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 414684010932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 414684010933 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 414684010934 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 414684010935 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 414684010936 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 414684010937 HlyD family secretion protein; Region: HlyD_3; pfam13437 414684010938 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 414684010939 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 414684010940 putative substrate translocation pore; other site 414684010941 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 414684010942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 414684010943 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 414684010944 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 414684010945 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 414684010946 substrate binding pocket [chemical binding]; other site 414684010947 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684010948 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 414684010949 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010950 active site 414684010951 phosphorylation site [posttranslational modification] 414684010952 intermolecular recognition site; other site 414684010953 dimerization interface [polypeptide binding]; other site 414684010954 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 414684010955 DNA binding site [nucleotide binding] 414684010956 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 414684010957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010958 active site 414684010959 phosphorylation site [posttranslational modification] 414684010960 intermolecular recognition site; other site 414684010961 dimerization interface [polypeptide binding]; other site 414684010962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 414684010963 Zn2+ binding site [ion binding]; other site 414684010964 Mg2+ binding site [ion binding]; other site 414684010965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010966 Response regulator receiver domain; Region: Response_reg; pfam00072 414684010967 active site 414684010968 phosphorylation site [posttranslational modification] 414684010969 intermolecular recognition site; other site 414684010970 dimerization interface [polypeptide binding]; other site 414684010971 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 414684010972 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 414684010973 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 414684010974 putative active site [active] 414684010975 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 414684010976 dimer interface [polypeptide binding]; other site 414684010977 phosphorylation site [posttranslational modification] 414684010978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 414684010979 ATP binding site [chemical binding]; other site 414684010980 Mg2+ binding site [ion binding]; other site 414684010981 G-X-G motif; other site 414684010982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010983 Response regulator receiver domain; Region: Response_reg; pfam00072 414684010984 active site 414684010985 phosphorylation site [posttranslational modification] 414684010986 intermolecular recognition site; other site 414684010987 dimerization interface [polypeptide binding]; other site 414684010988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 414684010989 Response regulator receiver domain; Region: Response_reg; pfam00072 414684010990 active site 414684010991 phosphorylation site [posttranslational modification] 414684010992 intermolecular recognition site; other site 414684010993 dimerization interface [polypeptide binding]; other site 414684010994 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 414684010995 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684010996 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684010997 dimer interface [polypeptide binding]; other site 414684010998 putative CheW interface [polypeptide binding]; other site 414684010999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 414684011000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 414684011001 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 414684011002 putative dimerization interface [polypeptide binding]; other site 414684011003 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 414684011004 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 414684011005 homodimer interface [polypeptide binding]; other site 414684011006 active site 414684011007 heterodimer interface [polypeptide binding]; other site 414684011008 catalytic residue [active] 414684011009 metal binding site [ion binding]; metal-binding site 414684011010 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 414684011011 multimerization interface [polypeptide binding]; other site 414684011012 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 414684011013 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 414684011014 substrate binding site [chemical binding]; other site 414684011015 hexamer interface [polypeptide binding]; other site 414684011016 metal binding site [ion binding]; metal-binding site 414684011017 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 414684011018 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 414684011019 Walker A motif; other site 414684011020 ATP binding site [chemical binding]; other site 414684011021 Walker B motif; other site 414684011022 arginine finger; other site 414684011023 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 414684011024 AMP binding site [chemical binding]; other site 414684011025 metal binding site [ion binding]; metal-binding site 414684011026 active site 414684011027 phosphoribulokinase; Provisional; Region: PRK15453 414684011028 transketolase; Reviewed; Region: PRK12753 414684011029 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 414684011030 TPP-binding site [chemical binding]; other site 414684011031 dimer interface [polypeptide binding]; other site 414684011032 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 414684011033 PYR/PP interface [polypeptide binding]; other site 414684011034 dimer interface [polypeptide binding]; other site 414684011035 TPP binding site [chemical binding]; other site 414684011036 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 414684011037 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 414684011038 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 414684011039 intersubunit interface [polypeptide binding]; other site 414684011040 active site 414684011041 zinc binding site [ion binding]; other site 414684011042 Na+ binding site [ion binding]; other site 414684011043 phosphoglycolate phosphatase; Provisional; Region: PRK13222 414684011044 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 414684011045 active site 414684011046 motif I; other site 414684011047 motif II; other site 414684011048 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 414684011049 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 414684011050 motif II; other site 414684011051 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 414684011052 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 414684011053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 414684011054 ATP-grasp domain; Region: ATP-grasp; pfam02222 414684011055 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 414684011056 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 414684011057 NADP binding site [chemical binding]; other site 414684011058 active site 414684011059 putative substrate binding site [chemical binding]; other site 414684011060 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 414684011061 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 414684011062 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 414684011063 Probable Catalytic site; other site 414684011064 metal-binding site 414684011065 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 414684011066 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 414684011067 substrate binding pocket [chemical binding]; other site 414684011068 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 414684011069 membrane-bound complex binding site; other site 414684011070 hinge residues; other site 414684011071 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 414684011072 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 414684011073 substrate binding pocket [chemical binding]; other site 414684011074 membrane-bound complex binding site; other site 414684011075 hinge residues; other site 414684011076 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 414684011077 malate dehydrogenase; Reviewed; Region: PRK06223 414684011078 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 414684011079 NAD(P) binding site [chemical binding]; other site 414684011080 dimer interface [polypeptide binding]; other site 414684011081 tetramer (dimer of dimers) interface [polypeptide binding]; other site 414684011082 substrate binding site [chemical binding]; other site 414684011083 PRC-barrel domain; Region: PRC; pfam05239 414684011084 Methyltransferase domain; Region: Methyltransf_23; pfam13489 414684011085 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 414684011086 S-adenosylmethionine binding site [chemical binding]; other site 414684011087 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 414684011088 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 414684011089 hypothetical protein; Provisional; Region: PRK06034 414684011090 Chorismate mutase type II; Region: CM_2; smart00830 414684011091 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 414684011092 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 414684011093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 414684011094 homodimer interface [polypeptide binding]; other site 414684011095 catalytic residue [active] 414684011096 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 414684011097 prephenate dehydrogenase; Validated; Region: PRK08507 414684011098 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 414684011099 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 414684011100 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 414684011101 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 414684011102 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 414684011103 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 414684011104 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 414684011105 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 414684011106 Transposase [DNA replication, recombination, and repair]; Region: COG5433 414684011107 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 414684011108 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 414684011109 putative active site pocket [active] 414684011110 dimerization interface [polypeptide binding]; other site 414684011111 putative catalytic residue [active] 414684011112 CHASE3 domain; Region: CHASE3; pfam05227 414684011113 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 414684011114 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 414684011115 dimer interface [polypeptide binding]; other site 414684011116 putative CheW interface [polypeptide binding]; other site 414684011117 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 414684011118 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684011119 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 414684011120 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 414684011121 TSCPD domain; Region: TSCPD; pfam12637 414684011122 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 414684011123 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 414684011124 putative acyl-acceptor binding pocket; other site 414684011125 Uncharacterized conserved protein [Function unknown]; Region: COG1434 414684011126 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 414684011127 putative active site [active] 414684011128 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 414684011129 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 414684011130 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 414684011131 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 414684011132 diaminopimelate decarboxylase; Region: lysA; TIGR01048 414684011133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 414684011134 active site 414684011135 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 414684011136 substrate binding site [chemical binding]; other site 414684011137 catalytic residues [active] 414684011138 dimer interface [polypeptide binding]; other site 414684011139 argininosuccinate lyase; Provisional; Region: PRK00855 414684011140 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 414684011141 active sites [active] 414684011142 tetramer interface [polypeptide binding]; other site 414684011143 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 414684011144 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 414684011145 catalytic residues [active] 414684011146 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 414684011147 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 414684011148 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 414684011149 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 414684011150 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 414684011151 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 414684011152 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 414684011153 Ligand binding site [chemical binding]; other site 414684011154 Electron transfer flavoprotein domain; Region: ETF; pfam01012 414684011155 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 414684011156 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 414684011157 nudix motif; other site 414684011158 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 414684011159 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 414684011160 active site 414684011161 HIGH motif; other site 414684011162 nucleotide binding site [chemical binding]; other site 414684011163 active site 414684011164 KMSKS motif; other site 414684011165 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 414684011166 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 414684011167 active site 414684011168 Uncharacterized conserved protein [Function unknown]; Region: COG2353 414684011169 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 414684011170 diiron binding motif [ion binding]; other site 414684011171 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 414684011172 Predicted membrane protein [Function unknown]; Region: COG1238 414684011173 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 414684011174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 414684011175 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 414684011176 DNA binding residues [nucleotide binding] 414684011177 FecR protein; Region: FecR; pfam04773 414684011178 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 414684011179 Secretin and TonB N terminus short domain; Region: STN; smart00965 414684011180 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 414684011181 TonB-dependent siderophore receptor, pseudogene;identified by match to protein family HMM PF01553 414684011182 TonB dependent receptor, pseudogene