-- dump date 20120504_142925 -- class Genbank::misc_feature -- table misc_feature_note -- id note 434922000001 mobile mystery protein A; Region: mob_myst_A; TIGR02612 434922000002 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 434922000003 non-specific DNA binding site [nucleotide binding]; other site 434922000004 salt bridge; other site 434922000005 sequence-specific DNA binding site [nucleotide binding]; other site 434922000006 Fic/DOC family; Region: Fic; cl00960 434922000007 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 434922000008 DNA binding site [nucleotide binding] 434922000009 dimer interface [polypeptide binding]; other site 434922000010 active site 434922000011 Int/Topo IB signature motif; other site 434922000012 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 434922000013 Catalytic domain, repeat 1, of phospholipase D from Streptomyces Sp. Strain PMF and similar proteins; Region: PLDc_PMFPLD_like_1; cd09108 434922000014 domain interface [polypeptide binding]; other site 434922000015 putative active site [active] 434922000016 catalytic site [active] 434922000017 Catalytic domain, repeat 2, of phospholipase D from Streptomyces Sp. Strain PMF and similar proteins; Region: PLDc_PMFPLD_like_2; cd09109 434922000018 domain interface [polypeptide binding]; other site 434922000019 putative active site [active] 434922000020 catalytic site [active] 434922000021 multiple promoter invertase; Provisional; Region: mpi; PRK13413 434922000022 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 434922000023 HSP70 interaction site [polypeptide binding]; other site 434922000024 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 434922000025 classical (c) SDRs; Region: SDR_c; cd05233 434922000026 NAD(P) binding site [chemical binding]; other site 434922000027 active site 434922000028 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 434922000029 Protein of unknown function (DUF419); Region: DUF419; cl15265 434922000030 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 434922000031 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922000032 Sel1 repeat; Region: Sel1; cl02723 434922000033 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 434922000034 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; cl02788 434922000035 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000037 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 434922000038 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 434922000039 MPN+ (JAMM) motif; other site 434922000040 Zinc-binding site [ion binding]; other site 434922000041 NlpC/P60 family; Region: NLPC_P60; cl11438 434922000042 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 434922000043 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 434922000044 Int/Topo IB signature motif; other site 434922000045 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 434922000046 Coxiella burnetii protein of unknown function (DUF807); Region: DUF807; pfam05660 434922000047 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 434922000048 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 434922000049 Predicted transcriptional regulator [Transcription]; Region: COG2944 434922000050 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 434922000051 Predicted transcriptional regulator [Transcription]; Region: COG2944 434922000052 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 434922000053 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 434922000054 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 434922000055 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 434922000056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000057 Family description; Region: UvrD_C_2; cl15862 434922000058 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 434922000059 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 434922000060 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434922000061 active site 434922000062 metal binding site [ion binding]; metal-binding site 434922000063 hexamer interface [polypeptide binding]; other site 434922000064 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 434922000065 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 434922000066 trimer interface [polypeptide binding]; other site 434922000067 putative metal binding site [ion binding]; other site 434922000068 ParB-like partition proteins; Region: parB_part; TIGR00180 434922000069 ParB-like nuclease domain; Region: ParBc; cl02129 434922000070 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 434922000071 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 434922000072 P-loop; other site 434922000073 Magnesium ion binding site [ion binding]; other site 434922000074 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 434922000075 Magnesium ion binding site [ion binding]; other site 434922000076 ParB-like partition proteins; Region: parB_part; TIGR00180 434922000077 ParB-like nuclease domain; Region: ParBc; cl02129 434922000078 Initiator Replication protein; Region: Rep_3; cl03080 434922000079 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 434922000080 DnaA N-terminal domain; Region: DnaA_N; pfam11638 434922000081 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 434922000082 Walker A motif; other site 434922000083 ATP binding site [chemical binding]; other site 434922000084 Walker B motif; other site 434922000085 arginine finger; other site 434922000086 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 434922000087 DnaA box-binding interface [nucleotide binding]; other site 434922000088 DNA polymerase III subunit beta; Validated; Region: PRK05643 434922000089 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 434922000090 putative DNA binding surface [nucleotide binding]; other site 434922000091 dimer interface [polypeptide binding]; other site 434922000092 beta-clamp/clamp loader binding surface; other site 434922000093 beta-clamp/translesion DNA polymerase binding surface; other site 434922000094 recombination protein F; Reviewed; Region: recF; PRK00064 434922000095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000096 Walker A/P-loop; other site 434922000097 ATP binding site [chemical binding]; other site 434922000098 Q-loop/lid; other site 434922000099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000100 ABC transporter signature motif; other site 434922000101 Walker B; other site 434922000102 D-loop; other site 434922000103 H-loop/switch region; other site 434922000104 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 434922000105 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922000106 ATP binding site [chemical binding]; other site 434922000107 Mg2+ binding site [ion binding]; other site 434922000108 G-X-G motif; other site 434922000109 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 434922000110 anchoring element; other site 434922000111 dimer interface [polypeptide binding]; other site 434922000112 ATP binding site [chemical binding]; other site 434922000113 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 434922000114 active site 434922000115 putative metal-binding site [ion binding]; other site 434922000116 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 434922000117 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 434922000118 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 434922000119 glutaminase active site [active] 434922000120 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 434922000121 dimer interface [polypeptide binding]; other site 434922000122 active site 434922000123 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 434922000124 dimer interface [polypeptide binding]; other site 434922000125 active site 434922000126 ORF6N domain; Region: ORF6N; pfam10543 434922000127 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 434922000128 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 434922000129 DNA polymerase I; Provisional; Region: PRK05755 434922000130 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 434922000131 active site 434922000132 metal binding site 1 [ion binding]; metal-binding site 434922000133 putative 5' ssDNA interaction site; other site 434922000134 metal binding site 3; metal-binding site 434922000135 metal binding site 2 [ion binding]; metal-binding site 434922000136 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 434922000137 putative DNA binding site [nucleotide binding]; other site 434922000138 putative metal binding site [ion binding]; other site 434922000139 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 434922000140 active site 434922000141 catalytic site [active] 434922000142 substrate binding site [chemical binding]; other site 434922000143 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 434922000144 active site 434922000145 DNA binding site [nucleotide binding] 434922000146 catalytic site [active] 434922000147 amino acid transporter; Region: 2A0306; TIGR00909 434922000148 Spore germination protein; Region: Spore_permease; cl15802 434922000149 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 434922000150 Amino acid permease; Region: AA_permease_2; pfam13520 434922000151 K+ potassium transporter; Region: K_trans; cl15781 434922000152 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 434922000153 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 434922000154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434922000155 Coenzyme A binding pocket [chemical binding]; other site 434922000156 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 434922000157 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 434922000158 DNA binding residues [nucleotide binding] 434922000159 dimerization interface [polypeptide binding]; other site 434922000160 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 434922000161 DNA binding residues [nucleotide binding] 434922000162 dimerization interface [polypeptide binding]; other site 434922000163 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434922000164 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 434922000165 FtsX-like permease family; Region: FtsX; cl15850 434922000166 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 434922000167 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 434922000168 Walker A/P-loop; other site 434922000169 ATP binding site [chemical binding]; other site 434922000170 Q-loop/lid; other site 434922000171 ABC transporter signature motif; other site 434922000172 Walker B; other site 434922000173 D-loop; other site 434922000174 H-loop/switch region; other site 434922000175 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922000176 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 434922000177 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 434922000178 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 434922000179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000180 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 434922000181 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 434922000182 primosome assembly protein PriA; Validated; Region: PRK05580 434922000183 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 434922000184 ATP binding site [chemical binding]; other site 434922000185 putative Mg++ binding site [ion binding]; other site 434922000186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000187 elongation factor P; Validated; Region: PRK00529 434922000188 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 434922000189 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 434922000190 RNA binding site [nucleotide binding]; other site 434922000191 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 434922000192 RNA binding site [nucleotide binding]; other site 434922000193 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 434922000194 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 434922000195 motif 1; other site 434922000196 dimer interface [polypeptide binding]; other site 434922000197 active site 434922000198 motif 2; other site 434922000199 motif 3; other site 434922000200 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 434922000201 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 434922000202 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 434922000203 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 434922000204 active site 434922000205 NTP binding site [chemical binding]; other site 434922000206 metal binding triad [ion binding]; metal-binding site 434922000207 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 434922000208 Uncharacterized conserved protein [Function unknown]; Region: COG1565 434922000209 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 434922000210 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 434922000211 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 434922000212 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 434922000213 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 434922000214 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922000215 active site 434922000216 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 434922000217 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 434922000218 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 434922000219 substrate binding site; other site 434922000220 tetramer interface; other site 434922000221 hypothetical protein; Provisional; Region: PRK07208 434922000222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000223 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 434922000224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000225 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922000226 extended (e) SDRs; Region: SDR_e; cd08946 434922000227 NAD(P) binding site [chemical binding]; other site 434922000228 active site 434922000229 substrate binding site [chemical binding]; other site 434922000230 Cupin domain; Region: Cupin_2; cl09118 434922000231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000232 hydroxyglutarate oxidase; Provisional; Region: PRK11728 434922000233 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 434922000234 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 434922000235 5S rRNA interface [nucleotide binding]; other site 434922000236 CTC domain interface [polypeptide binding]; other site 434922000237 L16 interface [polypeptide binding]; other site 434922000238 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 434922000239 putative active site [active] 434922000240 catalytic residue [active] 434922000241 GTP-binding protein YchF; Reviewed; Region: PRK09601 434922000242 YchF GTPase; Region: YchF; cd01900 434922000243 G1 box; other site 434922000244 GTP/Mg2+ binding site [chemical binding]; other site 434922000245 Switch I region; other site 434922000246 G2 box; other site 434922000247 Switch II region; other site 434922000248 G3 box; other site 434922000249 G4 box; other site 434922000250 G5 box; other site 434922000251 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 434922000252 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 434922000253 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 434922000254 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 434922000255 GtrA-like protein; Region: GtrA; cl00971 434922000256 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 434922000257 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 434922000258 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 434922000259 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 434922000260 substrate binding site [chemical binding]; other site 434922000261 oxyanion hole (OAH) forming residues; other site 434922000262 trimer interface [polypeptide binding]; other site 434922000263 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 434922000264 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 434922000265 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 434922000266 Walker A/P-loop; other site 434922000267 ATP binding site [chemical binding]; other site 434922000268 Q-loop/lid; other site 434922000269 ABC transporter signature motif; other site 434922000270 Walker B; other site 434922000271 D-loop; other site 434922000272 H-loop/switch region; other site 434922000273 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 434922000274 Walker A/P-loop; other site 434922000275 ATP binding site [chemical binding]; other site 434922000276 Q-loop/lid; other site 434922000277 ABC transporter signature motif; other site 434922000278 Walker B; other site 434922000279 D-loop; other site 434922000280 H-loop/switch region; other site 434922000281 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 434922000282 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 434922000283 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 434922000284 dimer interface [polypeptide binding]; other site 434922000285 conserved gate region; other site 434922000286 putative PBP binding loops; other site 434922000287 ABC-ATPase subunit interface; other site 434922000288 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 434922000289 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 434922000290 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 434922000291 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 434922000292 FeS/SAM binding site; other site 434922000293 Predicted membrane protein [Function unknown]; Region: COG3428 434922000294 Bacterial PH domain; Region: DUF304; cl01348 434922000295 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 434922000296 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 434922000297 CAP-like domain; other site 434922000298 active site 434922000299 primary dimer interface [polypeptide binding]; other site 434922000300 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 434922000301 diiron binding motif [ion binding]; other site 434922000302 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 434922000303 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 434922000304 glutamine binding [chemical binding]; other site 434922000305 catalytic triad [active] 434922000306 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 434922000307 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 434922000308 substrate binding site [chemical binding]; other site 434922000309 hexamer interface [polypeptide binding]; other site 434922000310 metal binding site [ion binding]; metal-binding site 434922000311 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 434922000312 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 434922000313 putative metal binding site [ion binding]; other site 434922000314 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 434922000315 HSP70 interaction site [polypeptide binding]; other site 434922000316 Glutamate-cysteine ligase; Region: GshA; pfam08886 434922000317 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 434922000318 glutathione synthetase; Provisional; Region: PRK05246 434922000319 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 434922000320 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922000321 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 434922000322 S-adenosylmethionine binding site [chemical binding]; other site 434922000323 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000324 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000325 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 434922000326 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 434922000327 active site 434922000328 catalytic residues [active] 434922000329 metal binding site [ion binding]; metal-binding site 434922000330 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 434922000331 Rubredoxin [Energy production and conversion]; Region: COG1773 434922000332 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 434922000333 iron binding site [ion binding]; other site 434922000334 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 434922000335 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 434922000336 inhibitor-cofactor binding pocket; inhibition site 434922000337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922000338 catalytic residue [active] 434922000339 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 434922000340 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 434922000341 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 434922000342 Transglycosylase; Region: Transgly; cl07896 434922000343 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 434922000344 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 434922000345 Pilus assembly protein, PilO; Region: PilO; cl01234 434922000346 shikimate kinase; Reviewed; Region: aroK; PRK00131 434922000347 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 434922000348 ADP binding site [chemical binding]; other site 434922000349 magnesium binding site [ion binding]; other site 434922000350 putative shikimate binding site; other site 434922000351 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 434922000352 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 434922000353 active site 434922000354 dimer interface [polypeptide binding]; other site 434922000355 metal binding site [ion binding]; metal-binding site 434922000356 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000357 H+ Antiporter protein; Region: 2A0121; TIGR00900 434922000358 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 434922000359 putative substrate translocation pore; other site 434922000360 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 434922000361 Protein of unknown function (DUF497); Region: DUF497; cl01108 434922000362 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 434922000363 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 434922000364 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 434922000365 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 434922000366 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 434922000367 shikimate binding site; other site 434922000368 NAD(P) binding site [chemical binding]; other site 434922000369 Phosphate transporter family; Region: PHO4; cl00396 434922000370 Phosphate transporter family; Region: PHO4; cl00396 434922000371 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 434922000372 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 434922000373 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 434922000374 intersubunit interface [polypeptide binding]; other site 434922000375 active site 434922000376 catalytic residue [active] 434922000377 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 434922000378 30S subunit binding site; other site 434922000379 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 434922000380 DNA-binding site [nucleotide binding]; DNA binding site 434922000381 RNA-binding motif; other site 434922000382 Global regulator protein family; Region: CsrA; cl00670 434922000383 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 434922000384 tetramer (dimer of dimers) interface [polypeptide binding]; other site 434922000385 active site 434922000386 dimer interface [polypeptide binding]; other site 434922000387 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 434922000388 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 434922000389 putative acyl-acceptor binding pocket; other site 434922000390 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 434922000391 helix swapped region; other site 434922000392 homodimer interface [polypeptide binding]; other site 434922000393 catalytic residues [active] 434922000394 substrate binding pocket [chemical binding]; other site 434922000395 NADH/NADPH cofactor binding site [chemical binding]; other site 434922000396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000397 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000398 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000399 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 434922000400 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922000401 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 434922000402 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 434922000403 dimer interface [polypeptide binding]; other site 434922000404 active site 434922000405 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 434922000406 active site 2 [active] 434922000407 active site 1 [active] 434922000408 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 434922000409 active site 2 [active] 434922000410 active site 1 [active] 434922000411 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 434922000412 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 434922000413 dimer interface [polypeptide binding]; other site 434922000414 active site 434922000415 CoA binding pocket [chemical binding]; other site 434922000416 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 434922000417 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 434922000418 active site 434922000419 Zn binding site [ion binding]; other site 434922000420 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 434922000421 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 434922000422 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 434922000423 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 434922000424 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 434922000425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000426 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 434922000427 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 434922000428 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 434922000429 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 434922000430 ABC transporter; Region: ABC_tran_2; pfam12848 434922000431 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 434922000432 AAA domain; Region: AAA_22; pfam13401 434922000433 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000434 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922000435 Restriction endonuclease; Region: Mrr_cat; cl00516 434922000436 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000437 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 434922000438 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 434922000439 Substrate binding site; other site 434922000440 Mg++ binding site; other site 434922000441 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 434922000442 active site 434922000443 substrate binding site [chemical binding]; other site 434922000444 CoA binding site [chemical binding]; other site 434922000445 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 434922000446 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 434922000447 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 434922000448 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 434922000449 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 434922000450 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 434922000451 alpha subunit interaction interface [polypeptide binding]; other site 434922000452 Walker A motif; other site 434922000453 ATP binding site [chemical binding]; other site 434922000454 Walker B motif; other site 434922000455 inhibitor binding site; inhibition site 434922000456 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 434922000457 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 434922000458 ATP synthase; Region: ATP-synt; cl00365 434922000459 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 434922000460 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 434922000461 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 434922000462 beta subunit interaction interface [polypeptide binding]; other site 434922000463 Walker A motif; other site 434922000464 ATP binding site [chemical binding]; other site 434922000465 Walker B motif; other site 434922000466 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 434922000467 Plant ATP synthase F0; Region: YMF19; cl07975 434922000468 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 434922000469 Plant ATP synthase F0; Region: YMF19; cl07975 434922000470 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 434922000471 ATP synthase subunit C; Region: ATP-synt_C; cl00466 434922000472 ATP synthase A chain; Region: ATP-synt_A; cl00413 434922000473 ATP synthase I chain; Region: ATP_synt_I; cl09170 434922000474 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000476 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000477 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000478 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000479 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 434922000480 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 434922000481 putative DNA binding site [nucleotide binding]; other site 434922000482 putative homodimer interface [polypeptide binding]; other site 434922000483 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 434922000484 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 434922000485 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 434922000486 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922000487 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 434922000488 AMP-binding enzyme; Region: AMP-binding; cl15778 434922000489 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 434922000490 putative acyl-acceptor binding pocket; other site 434922000491 ParB-like partition proteins; Region: parB_part; TIGR00180 434922000492 ParB-like nuclease domain; Region: ParBc; cl02129 434922000493 KorB domain; Region: KorB; pfam08535 434922000494 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 434922000495 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 434922000496 P-loop; other site 434922000497 Magnesium ion binding site [ion binding]; other site 434922000498 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 434922000499 Magnesium ion binding site [ion binding]; other site 434922000500 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 434922000501 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 434922000502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000504 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 434922000505 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 434922000506 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 434922000507 trmE is a tRNA modification GTPase; Region: trmE; cd04164 434922000508 G1 box; other site 434922000509 GTP/Mg2+ binding site [chemical binding]; other site 434922000510 Switch I region; other site 434922000511 G2 box; other site 434922000512 Switch II region; other site 434922000513 G3 box; other site 434922000514 G4 box; other site 434922000515 G5 box; other site 434922000516 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 434922000517 membrane protein insertase; Provisional; Region: PRK01318 434922000518 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 434922000519 Haemolytic domain; Region: Haemolytic; cl00506 434922000520 Ribonuclease P; Region: Ribonuclease_P; cl00457 434922000521 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 434922000522 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 434922000523 Ligand Binding Site [chemical binding]; other site 434922000524 16S rRNA methyltransferase B; Provisional; Region: PRK10901 434922000525 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 434922000526 putative RNA binding site [nucleotide binding]; other site 434922000527 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 434922000528 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 434922000529 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 434922000530 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 434922000531 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 434922000532 dimer interface [polypeptide binding]; other site 434922000533 motif 1; other site 434922000534 active site 434922000535 motif 2; other site 434922000536 motif 3; other site 434922000537 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000538 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 434922000539 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 434922000540 catalytic residues [active] 434922000541 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 434922000542 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 434922000543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434922000544 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 434922000545 DNA binding residues [nucleotide binding] 434922000546 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 434922000547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 434922000548 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 434922000549 FtsX-like permease family; Region: FtsX; cl15850 434922000550 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 434922000551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000552 Walker A/P-loop; other site 434922000553 ATP binding site [chemical binding]; other site 434922000554 Q-loop/lid; other site 434922000555 ABC transporter signature motif; other site 434922000556 Walker B; other site 434922000557 D-loop; other site 434922000558 H-loop/switch region; other site 434922000559 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 434922000560 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 434922000561 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 434922000562 P loop; other site 434922000563 GTP binding site [chemical binding]; other site 434922000564 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 434922000565 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 434922000566 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 434922000567 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 434922000568 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 434922000569 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 434922000570 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 434922000571 S-adenosylmethionine binding site [chemical binding]; other site 434922000572 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922000573 Helix-turn-helix domains; Region: HTH; cl00088 434922000574 Integrase core domain; Region: rve; cl01316 434922000575 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922000576 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922000577 transketolase; Reviewed; Region: PRK12753 434922000578 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 434922000579 TPP-binding site [chemical binding]; other site 434922000580 dimer interface [polypeptide binding]; other site 434922000581 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 434922000582 PYR/PP interface [polypeptide binding]; other site 434922000583 dimer interface [polypeptide binding]; other site 434922000584 TPP binding site [chemical binding]; other site 434922000585 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922000586 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 434922000587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000588 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 434922000589 Phosphoglycerate kinase; Region: PGK; pfam00162 434922000590 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 434922000591 substrate binding site [chemical binding]; other site 434922000592 hinge regions; other site 434922000593 ADP binding site [chemical binding]; other site 434922000594 catalytic site [active] 434922000595 pyruvate kinase; Provisional; Region: PRK05826 434922000596 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 434922000597 domain interfaces; other site 434922000598 active site 434922000599 hypothetical protein; Provisional; Region: PRK08185 434922000600 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 434922000601 intersubunit interface [polypeptide binding]; other site 434922000602 active site 434922000603 zinc binding site [ion binding]; other site 434922000604 Na+ binding site [ion binding]; other site 434922000605 Sel1 repeat; Region: Sel1; cl02723 434922000606 Predicted GTPase [General function prediction only]; Region: COG0218 434922000607 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 434922000608 G1 box; other site 434922000609 GTP/Mg2+ binding site [chemical binding]; other site 434922000610 Switch I region; other site 434922000611 G2 box; other site 434922000612 G3 box; other site 434922000613 Switch II region; other site 434922000614 G4 box; other site 434922000615 G5 box; other site 434922000616 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 434922000617 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 434922000618 dimer interface [polypeptide binding]; other site 434922000619 conserved gate region; other site 434922000620 putative PBP binding loops; other site 434922000621 ABC-ATPase subunit interface; other site 434922000622 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 434922000623 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 434922000624 Walker A/P-loop; other site 434922000625 ATP binding site [chemical binding]; other site 434922000626 Q-loop/lid; other site 434922000627 ABC transporter signature motif; other site 434922000628 Walker B; other site 434922000629 D-loop; other site 434922000630 H-loop/switch region; other site 434922000631 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 434922000632 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 434922000633 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 434922000634 FeoA domain; Region: FeoA; cl00838 434922000635 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 434922000636 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 434922000637 G1 box; other site 434922000638 GTP/Mg2+ binding site [chemical binding]; other site 434922000639 Switch I region; other site 434922000640 G2 box; other site 434922000641 G3 box; other site 434922000642 Switch II region; other site 434922000643 G4 box; other site 434922000644 G5 box; other site 434922000645 Nucleoside recognition; Region: Gate; cl00486 434922000646 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 434922000647 Nucleoside recognition; Region: Gate; cl00486 434922000648 Helix-turn-helix domains; Region: HTH; cl00088 434922000649 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000651 FAD dependent oxidoreductase; Region: DAO; pfam01266 434922000652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000653 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 434922000654 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 434922000655 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 434922000656 dimer interface [polypeptide binding]; other site 434922000657 phosphorylation site [posttranslational modification] 434922000658 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922000659 ATP binding site [chemical binding]; other site 434922000660 Mg2+ binding site [ion binding]; other site 434922000661 G-X-G motif; other site 434922000662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922000663 active site 434922000664 phosphorylation site [posttranslational modification] 434922000665 intermolecular recognition site; other site 434922000666 dimerization interface [polypeptide binding]; other site 434922000667 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 434922000668 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 434922000669 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000670 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 434922000671 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922000672 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000673 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 434922000674 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 434922000675 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 434922000676 IHF dimer interface [polypeptide binding]; other site 434922000677 IHF - DNA interface [nucleotide binding]; other site 434922000678 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 434922000679 23S rRNA interface [nucleotide binding]; other site 434922000680 L3 interface [polypeptide binding]; other site 434922000681 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 434922000682 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 434922000683 C-terminal domain interface [polypeptide binding]; other site 434922000684 putative GSH binding site (G-site) [chemical binding]; other site 434922000685 dimer interface [polypeptide binding]; other site 434922000686 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 434922000687 dimer interface [polypeptide binding]; other site 434922000688 N-terminal domain interface [polypeptide binding]; other site 434922000689 Stringent starvation protein B; Region: SspB; cl01120 434922000690 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 434922000691 active site 434922000692 putative substrate binding region [chemical binding]; other site 434922000693 BON domain; Region: BON; cl02771 434922000694 BON domain; Region: BON; cl02771 434922000695 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 434922000696 dimer interface [polypeptide binding]; other site 434922000697 active site 434922000698 Restriction endonuclease; Region: Mrr_cat; cl00516 434922000699 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 434922000700 putative ligand binding site [chemical binding]; other site 434922000701 Predicted methyltransferases [General function prediction only]; Region: COG0313 434922000702 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 434922000703 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 434922000704 IHF dimer interface [polypeptide binding]; other site 434922000705 IHF - DNA interface [nucleotide binding]; other site 434922000706 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 434922000707 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 434922000708 active site 434922000709 substrate binding site [chemical binding]; other site 434922000710 cosubstrate binding site; other site 434922000711 catalytic site [active] 434922000712 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 434922000713 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 434922000714 dimerization interface [polypeptide binding]; other site 434922000715 putative ATP binding site [chemical binding]; other site 434922000716 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 434922000717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000718 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 434922000719 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 434922000720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000721 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 434922000722 L-serine binding site [chemical binding]; other site 434922000723 ACT domain interface; other site 434922000724 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 434922000725 phosphoserine phosphatase SerB; Region: serB; TIGR00338 434922000726 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 434922000727 active site 434922000728 motif I; other site 434922000729 motif II; other site 434922000730 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 434922000731 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 434922000732 ornithine cyclodeaminase; Validated; Region: PRK07589 434922000733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000734 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 434922000735 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922000736 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922000737 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 434922000738 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 434922000739 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 434922000740 carboxyltransferase (CT) interaction site; other site 434922000741 biotinylation site [posttranslational modification]; other site 434922000742 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 434922000743 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 434922000744 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 434922000745 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 434922000746 DsbD alpha interface [polypeptide binding]; other site 434922000747 catalytic residues [active] 434922000748 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 434922000749 aconitate hydratase; Validated; Region: PRK09277 434922000750 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 434922000751 substrate binding site [chemical binding]; other site 434922000752 ligand binding site [chemical binding]; other site 434922000753 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 434922000754 substrate binding site [chemical binding]; other site 434922000755 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 434922000756 oligomerisation interface [polypeptide binding]; other site 434922000757 mobile loop; other site 434922000758 roof hairpin; other site 434922000759 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 434922000760 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 434922000761 ring oligomerisation interface [polypeptide binding]; other site 434922000762 ATP/Mg binding site [chemical binding]; other site 434922000763 stacking interactions; other site 434922000764 hinge regions; other site 434922000765 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 434922000766 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 434922000767 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 434922000768 lipoyl attachment site [posttranslational modification]; other site 434922000769 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 434922000770 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 434922000771 tetramer interface [polypeptide binding]; other site 434922000772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922000773 catalytic residue [active] 434922000774 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 434922000775 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 434922000776 tetramer interface [polypeptide binding]; other site 434922000777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922000778 catalytic residue [active] 434922000779 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 434922000780 GIY-YIG motif/motif A; other site 434922000781 putative active site [active] 434922000782 putative metal binding site [ion binding]; other site 434922000783 dihydrodipicolinate reductase; Provisional; Region: PRK00048 434922000784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000785 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 434922000786 superoxide dismutase; Provisional; Region: PRK10543 434922000787 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 434922000788 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 434922000789 peroxidase; Provisional; Region: PRK15000 434922000790 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 434922000791 dimer interface [polypeptide binding]; other site 434922000792 decamer (pentamer of dimers) interface [polypeptide binding]; other site 434922000793 catalytic triad [active] 434922000794 peroxidatic and resolving cysteines [active] 434922000795 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 434922000796 dimer interface [polypeptide binding]; other site 434922000797 catalytic site [active] 434922000798 putative active site [active] 434922000799 putative substrate binding site [chemical binding]; other site 434922000800 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 434922000801 active site 434922000802 substrate binding pocket [chemical binding]; other site 434922000803 dimer interface [polypeptide binding]; other site 434922000804 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 434922000805 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000806 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000807 Helix-turn-helix domains; Region: HTH; cl00088 434922000808 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 434922000809 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 434922000810 minor groove reading motif; other site 434922000811 helix-hairpin-helix signature motif; other site 434922000812 substrate binding pocket [chemical binding]; other site 434922000813 active site 434922000814 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 434922000815 electron transport complex protein RnfB; Provisional; Region: PRK05113 434922000816 Putative Fe-S cluster; Region: FeS; pfam04060 434922000817 4Fe-4S binding domain; Region: Fer4; cl02805 434922000818 electron transport complex protein RnfC; Provisional; Region: PRK05035 434922000819 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 434922000820 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 434922000821 active site 434922000822 HIGH motif; other site 434922000823 KMSKS motif; other site 434922000824 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 434922000825 tRNA binding surface [nucleotide binding]; other site 434922000826 anticodon binding site; other site 434922000827 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 434922000828 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 434922000829 non-specific DNA binding site [nucleotide binding]; other site 434922000830 salt bridge; other site 434922000831 sequence-specific DNA binding site [nucleotide binding]; other site 434922000832 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 434922000833 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 434922000834 Walker A motif; other site 434922000835 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 434922000836 trimer interface [polypeptide binding]; other site 434922000837 active site 434922000838 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 434922000839 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922000840 Helix-turn-helix domains; Region: HTH; cl00088 434922000841 Integrase core domain; Region: rve; cl01316 434922000842 CTP synthetase; Validated; Region: pyrG; PRK05380 434922000843 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 434922000844 Catalytic site [active] 434922000845 active site 434922000846 UTP binding site [chemical binding]; other site 434922000847 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 434922000848 active site 434922000849 putative oxyanion hole; other site 434922000850 catalytic triad [active] 434922000851 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 434922000852 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 434922000853 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 434922000854 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 434922000855 NeuB family; Region: NeuB; cl00496 434922000856 enolase; Provisional; Region: eno; PRK00077 434922000857 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 434922000858 dimer interface [polypeptide binding]; other site 434922000859 metal binding site [ion binding]; metal-binding site 434922000860 substrate binding pocket [chemical binding]; other site 434922000861 Septum formation initiator; Region: DivIC; cl11433 434922000862 Survival protein SurE; Region: SurE; cl00448 434922000863 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 434922000864 putative peptidoglycan binding site; other site 434922000865 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 434922000866 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 434922000867 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 434922000868 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434922000869 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 434922000870 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 434922000871 DNA binding residues [nucleotide binding] 434922000872 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_27; cd04640 434922000873 Zinc-finger domain; Region: zf-CHCC; cl01821 434922000874 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434922000875 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 434922000876 putative active site [active] 434922000877 Uncharacterized conserved protein [Function unknown]; Region: COG5495 434922000878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000879 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 434922000880 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 434922000881 O-Antigen ligase; Region: Wzy_C; cl04850 434922000882 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922000883 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 434922000884 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 434922000885 putative metal binding site; other site 434922000886 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 434922000887 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 434922000888 putative ribose interaction site [chemical binding]; other site 434922000889 putative ADP binding site [chemical binding]; other site 434922000890 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434922000891 active site 434922000892 nucleotide binding site [chemical binding]; other site 434922000893 HIGH motif; other site 434922000894 KMSKS motif; other site 434922000895 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 434922000896 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 434922000897 BCCT family transporter; Region: BCCT; cl00569 434922000898 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 434922000899 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000900 Walker A motif; other site 434922000901 ATP binding site [chemical binding]; other site 434922000902 Walker B motif; other site 434922000903 Protein of unknown function (DUF3773); Region: DUF3773; pfam12608 434922000904 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922000905 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922000906 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000907 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 434922000908 Walker A motif; other site 434922000909 ATP binding site [chemical binding]; other site 434922000910 Walker B motif; other site 434922000911 Helix-turn-helix domains; Region: HTH; cl00088 434922000912 Dot/Icm secretion system protein (dot_icm_IcmQ); Region: Dot_icm_IcmQ; cl09711 434922000913 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 434922000914 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922000915 Walker A motif; other site 434922000916 ATP binding site [chemical binding]; other site 434922000917 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 434922000918 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434922000919 ligand binding site [chemical binding]; other site 434922000920 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 434922000921 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 434922000922 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 434922000923 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000924 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000925 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000926 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000927 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000928 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 434922000929 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 434922000930 AAA-like domain; Region: AAA_10; pfam12846 434922000931 DivIVA protein; Region: DivIVA; pfam05103 434922000932 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 434922000933 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000934 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 434922000935 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 434922000936 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000937 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 434922000938 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000939 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000940 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 434922000941 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000942 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 434922000943 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 434922000944 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434922000945 Predicted deacylase [General function prediction only]; Region: COG3608 434922000946 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 434922000947 putative active site [active] 434922000948 Zn binding site [ion binding]; other site 434922000949 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 434922000950 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922000951 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 434922000952 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 434922000953 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 434922000954 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 434922000955 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 434922000956 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 434922000957 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434922000958 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 434922000959 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 434922000960 DNA binding residues [nucleotide binding] 434922000961 DNA primase; Validated; Region: dnaG; PRK05667 434922000962 CHC2 zinc finger; Region: zf-CHC2; cl15369 434922000963 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 434922000964 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 434922000965 active site 434922000966 metal binding site [ion binding]; metal-binding site 434922000967 interdomain interaction site; other site 434922000968 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 434922000969 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 434922000970 GatB domain; Region: GatB_Yqey; cl11497 434922000971 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 434922000972 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 434922000973 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 434922000974 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 434922000975 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 434922000976 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 434922000977 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 434922000978 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 434922000979 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 434922000980 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 434922000981 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 434922000982 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 434922000983 Predicted ATPase [General function prediction only]; Region: COG1485 434922000984 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 434922000985 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 434922000986 L,D-transpeptidase; Provisional; Region: PRK10190 434922000987 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 434922000988 putative peptidoglycan binding site; other site 434922000989 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922000990 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 434922000991 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 434922000992 putative MFS family transporter protein; Provisional; Region: PRK03633 434922000993 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 434922000994 putative substrate translocation pore; other site 434922000995 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 434922000996 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 434922000997 Walker A motif; other site 434922000998 ATP binding site [chemical binding]; other site 434922000999 Walker B motif; other site 434922001000 arginine finger; other site 434922001001 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 434922001002 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 434922001003 RuvA N terminal domain; Region: RuvA_N; pfam01330 434922001004 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 434922001005 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 434922001006 active site 434922001007 putative DNA-binding cleft [nucleotide binding]; other site 434922001008 dimer interface [polypeptide binding]; other site 434922001009 Transcriptional regulator; Region: Transcrip_reg; cl00361 434922001010 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 434922001011 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 434922001012 dimer interface [polypeptide binding]; other site 434922001013 anticodon binding site; other site 434922001014 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 434922001015 homodimer interface [polypeptide binding]; other site 434922001016 motif 1; other site 434922001017 active site 434922001018 motif 2; other site 434922001019 GAD domain; Region: GAD; pfam02938 434922001020 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 434922001021 active site 434922001022 motif 3; other site 434922001023 Protein of unknown function (DUF502); Region: DUF502; cl01107 434922001024 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 434922001025 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 434922001026 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 434922001027 dimer interface [polypeptide binding]; other site 434922001028 putative radical transfer pathway; other site 434922001029 diiron center [ion binding]; other site 434922001030 tyrosyl radical; other site 434922001031 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 434922001032 ATP cone domain; Region: ATP-cone; pfam03477 434922001033 Class I ribonucleotide reductase; Region: RNR_I; cd01679 434922001034 active site 434922001035 dimer interface [polypeptide binding]; other site 434922001036 catalytic residues [active] 434922001037 effector binding site; other site 434922001038 R2 peptide binding site; other site 434922001039 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 434922001040 GAF domain; Region: GAF; cl15785 434922001041 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 434922001042 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 434922001043 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 434922001044 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 434922001045 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 434922001046 dimerization interface [polypeptide binding]; other site 434922001047 active site 434922001048 Insulin-induced protein (INSIG); Region: INSIG; pfam07281 434922001049 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 434922001050 aromatic amino acid transport protein; Region: araaP; TIGR00837 434922001051 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 434922001052 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 434922001053 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 434922001054 protein binding site [polypeptide binding]; other site 434922001055 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 434922001056 Catalytic dyad [active] 434922001057 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 434922001058 Sulfatase; Region: Sulfatase; cl10460 434922001059 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 434922001060 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 434922001061 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 434922001062 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 434922001063 Tropomyosin like; Region: Tropomyosin_1; pfam12718 434922001064 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 434922001065 active site residue [active] 434922001066 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 434922001067 GSH binding site [chemical binding]; other site 434922001068 catalytic residues [active] 434922001069 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 434922001070 SecA binding site; other site 434922001071 Preprotein binding site; other site 434922001072 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 434922001073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001074 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 434922001075 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 434922001076 Transposase [DNA replication, recombination, and repair]; Region: COG5421 434922001077 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 434922001078 classical (c) SDRs; Region: SDR_c; cd05233 434922001079 NAD(P) binding site [chemical binding]; other site 434922001080 active site 434922001081 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 434922001082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001083 NAD(P) binding site [chemical binding]; other site 434922001084 active site 434922001085 rhodanese superfamily protein; Provisional; Region: PRK05320 434922001086 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 434922001087 active site residue [active] 434922001088 ZIP Zinc transporter; Region: Zip; pfam02535 434922001089 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 434922001090 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 434922001091 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 434922001092 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 434922001093 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 434922001094 Ligand Binding Site [chemical binding]; other site 434922001095 TilS substrate binding domain; Region: TilS; pfam09179 434922001096 B3/4 domain; Region: B3_4; cl11458 434922001097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922001098 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922001099 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 434922001100 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 434922001101 metal-binding site [ion binding] 434922001102 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 434922001103 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 434922001104 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 434922001105 active site 434922001106 GTP-binding protein LepA; Provisional; Region: PRK05433 434922001107 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 434922001108 G1 box; other site 434922001109 putative GEF interaction site [polypeptide binding]; other site 434922001110 GTP/Mg2+ binding site [chemical binding]; other site 434922001111 Switch I region; other site 434922001112 G2 box; other site 434922001113 G3 box; other site 434922001114 Switch II region; other site 434922001115 G4 box; other site 434922001116 G5 box; other site 434922001117 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 434922001118 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 434922001119 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 434922001120 signal peptidase I; Provisional; Region: PRK10861 434922001121 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 434922001122 Catalytic site [active] 434922001123 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 434922001124 ribonuclease III; Reviewed; Region: rnc; PRK00102 434922001125 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 434922001126 dimerization interface [polypeptide binding]; other site 434922001127 active site 434922001128 metal binding site [ion binding]; metal-binding site 434922001129 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 434922001130 dsRNA binding site [nucleotide binding]; other site 434922001131 GTPase Era; Reviewed; Region: era; PRK00089 434922001132 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 434922001133 G1 box; other site 434922001134 GTP/Mg2+ binding site [chemical binding]; other site 434922001135 Switch I region; other site 434922001136 G2 box; other site 434922001137 Switch II region; other site 434922001138 G3 box; other site 434922001139 G4 box; other site 434922001140 G5 box; other site 434922001141 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 434922001142 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 434922001143 Recombination protein O N terminal; Region: RecO_N; cl15812 434922001144 Recombination protein O C terminal; Region: RecO_C; pfam02565 434922001145 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 434922001146 active site 434922001147 hydrophilic channel; other site 434922001148 dimerization interface [polypeptide binding]; other site 434922001149 catalytic residues [active] 434922001150 active site lid [active] 434922001151 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922001152 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922001153 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922001154 Sel1 repeat; Region: Sel1; cl02723 434922001155 Sel1 repeat; Region: Sel1; cl02723 434922001156 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922001157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922001158 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 434922001159 IHF dimer interface [polypeptide binding]; other site 434922001160 IHF - DNA interface [nucleotide binding]; other site 434922001161 EVE domain; Region: EVE; cl00728 434922001162 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 434922001163 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 434922001164 Predicted membrane protein [Function unknown]; Region: COG3164 434922001165 AsmA-like C-terminal region; Region: AsmA_2; cl15864 434922001166 rod shape-determining protein MreD; Region: MreD; cl01087 434922001167 rod shape-determining protein MreC; Provisional; Region: PRK13922 434922001168 rod shape-determining protein MreC; Region: MreC; pfam04085 434922001169 rod shape-determining protein MreB; Provisional; Region: PRK13927 434922001170 Cell division protein FtsA; Region: FtsA; cl11496 434922001171 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 434922001172 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 434922001173 Amidase; Region: Amidase; cl11426 434922001174 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 434922001175 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 434922001176 GatB domain; Region: GatB_Yqey; cl11497 434922001177 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 434922001178 Helix-turn-helix domains; Region: HTH; cl00088 434922001179 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 434922001180 dimerization interface [polypeptide binding]; other site 434922001181 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 434922001182 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 434922001183 dimer interface [polypeptide binding]; other site 434922001184 decamer (pentamer of dimers) interface [polypeptide binding]; other site 434922001185 catalytic triad [active] 434922001186 peroxidatic and resolving cysteines [active] 434922001187 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 434922001188 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 434922001189 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 434922001190 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 434922001191 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 434922001192 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 434922001193 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 434922001194 dimer interface [polypeptide binding]; other site 434922001195 active site residues [active] 434922001196 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 434922001197 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 434922001198 D-galactonate transporter; Region: 2A0114; TIGR00893 434922001199 putative substrate translocation pore; other site 434922001200 Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB...; Region: CYCLIN; cl00050 434922001201 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 434922001202 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 434922001203 active site 434922001204 HIGH motif; other site 434922001205 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 434922001206 KMSKS motif; other site 434922001207 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 434922001208 tRNA binding surface [nucleotide binding]; other site 434922001209 anticodon binding site; other site 434922001210 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 434922001211 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922001212 HIGH motif; other site 434922001213 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922001214 active site 434922001215 KMSKS motif; other site 434922001216 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 434922001217 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434922001218 putative active site [active] 434922001219 putative metal binding site [ion binding]; other site 434922001220 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 434922001221 sequence-specific DNA binding site [nucleotide binding]; other site 434922001222 salt bridge; other site 434922001223 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 434922001224 SurA N-terminal domain; Region: SurA_N_3; cl07813 434922001225 PPIC-type PPIASE domain; Region: Rotamase; cl08278 434922001226 periplasmic folding chaperone; Provisional; Region: PRK10788 434922001227 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 434922001228 substrate binding site [chemical binding]; other site 434922001229 dimer interface [polypeptide binding]; other site 434922001230 catalytic triad [active] 434922001231 Preprotein translocase SecG subunit; Region: SecG; cl09123 434922001232 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 434922001233 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 434922001234 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 434922001235 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 434922001236 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 434922001237 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 434922001238 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 434922001239 putative dimer interface [polypeptide binding]; other site 434922001240 [2Fe-2S] cluster binding site [ion binding]; other site 434922001241 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 434922001242 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 434922001243 SLBB domain; Region: SLBB; pfam10531 434922001244 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 434922001245 NADH dehydrogenase subunit G; Validated; Region: PRK09129 434922001246 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 434922001247 catalytic loop [active] 434922001248 iron binding site [ion binding]; other site 434922001249 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 434922001250 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 434922001251 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 434922001252 molybdopterin cofactor binding site; other site 434922001253 NADH dehydrogenase; Region: NADHdh; cl00469 434922001254 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 434922001255 4Fe-4S binding domain; Region: Fer4; cl02805 434922001256 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 434922001257 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 434922001258 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 434922001259 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 434922001260 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 434922001261 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 434922001262 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 434922001263 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 434922001264 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 434922001265 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 434922001266 ribosome maturation protein RimP; Reviewed; Region: PRK00092 434922001267 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 434922001268 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 434922001269 Sm1 motif; other site 434922001270 predicted subunit interaction site [polypeptide binding]; other site 434922001271 RNA binding pocket [nucleotide binding]; other site 434922001272 Sm2 motif; other site 434922001273 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 434922001274 NusA N-terminal domain; Region: NusA_N; pfam08529 434922001275 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 434922001276 RNA binding site [nucleotide binding]; other site 434922001277 homodimer interface [polypeptide binding]; other site 434922001278 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 434922001279 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 434922001280 G-X-X-G motif; other site 434922001281 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 434922001282 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 434922001283 translation initiation factor IF-2; Validated; Region: infB; PRK05306 434922001284 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 434922001285 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 434922001286 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 434922001287 G1 box; other site 434922001288 putative GEF interaction site [polypeptide binding]; other site 434922001289 GTP/Mg2+ binding site [chemical binding]; other site 434922001290 Switch I region; other site 434922001291 G2 box; other site 434922001292 G3 box; other site 434922001293 Switch II region; other site 434922001294 G4 box; other site 434922001295 G5 box; other site 434922001296 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 434922001297 Translation-initiation factor 2; Region: IF-2; pfam11987 434922001298 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 434922001299 Ribosome-binding factor A; Region: RBFA; cl00542 434922001300 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 434922001301 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 434922001302 RNA binding site [nucleotide binding]; other site 434922001303 active site 434922001304 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922001305 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922001306 Protein of unknown function (DUF962); Region: DUF962; cl01879 434922001307 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 434922001308 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 434922001309 Walker A motif; other site 434922001310 ATP binding site [chemical binding]; other site 434922001311 Walker B motif; other site 434922001312 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922001313 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 434922001314 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 434922001315 dimer interface [polypeptide binding]; other site 434922001316 active site 434922001317 Schiff base residues; other site 434922001318 DNA repair protein RadA; Provisional; Region: PRK11823 434922001319 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 434922001320 Walker A motif/ATP binding site; other site 434922001321 ATP binding site [chemical binding]; other site 434922001322 Walker B motif; other site 434922001323 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 434922001324 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 434922001325 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 434922001326 dimer interface [polypeptide binding]; other site 434922001327 active site 434922001328 glycine-pyridoxal phosphate binding site [chemical binding]; other site 434922001329 folate binding site [chemical binding]; other site 434922001330 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 434922001331 ATP cone domain; Region: ATP-cone; pfam03477 434922001332 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 434922001333 putative RNA binding site [nucleotide binding]; other site 434922001334 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 434922001335 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 434922001336 Catalytic site [active] 434922001337 thiamine monophosphate kinase; Provisional; Region: PRK05731 434922001338 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 434922001339 ATP binding site [chemical binding]; other site 434922001340 dimerization interface [polypeptide binding]; other site 434922001341 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 434922001342 dimer interface [polypeptide binding]; other site 434922001343 Citrate synthase; Region: Citrate_synt; pfam00285 434922001344 active site 434922001345 citrylCoA binding site [chemical binding]; other site 434922001346 NADH binding [chemical binding]; other site 434922001347 cationic pore residues; other site 434922001348 oxalacetate/citrate binding site [chemical binding]; other site 434922001349 coenzyme A binding site [chemical binding]; other site 434922001350 catalytic triad [active] 434922001351 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 434922001352 Iron-sulfur protein interface; other site 434922001353 proximal quinone binding site [chemical binding]; other site 434922001354 SdhD (CybS) interface [polypeptide binding]; other site 434922001355 proximal heme binding site [chemical binding]; other site 434922001356 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 434922001357 SdhC subunit interface [polypeptide binding]; other site 434922001358 proximal heme binding site [chemical binding]; other site 434922001359 cardiolipin binding site; other site 434922001360 Iron-sulfur protein interface; other site 434922001361 proximal quinone binding site [chemical binding]; other site 434922001362 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 434922001363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001364 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 434922001365 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 434922001366 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 434922001367 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 434922001368 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 434922001369 TPP-binding site [chemical binding]; other site 434922001370 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 434922001371 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 434922001372 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 434922001373 E3 interaction surface; other site 434922001374 lipoyl attachment site [posttranslational modification]; other site 434922001375 e3 binding domain; Region: E3_binding; pfam02817 434922001376 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 434922001377 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 434922001378 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922001379 CoA-ligase; Region: Ligase_CoA; cl02894 434922001380 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 434922001381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001382 CoA-ligase; Region: Ligase_CoA; cl02894 434922001383 GtrA-like protein; Region: GtrA; cl00971 434922001384 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922001385 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 434922001386 Active Sites [active] 434922001387 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 434922001388 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 434922001389 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922001390 catalytic residue [active] 434922001391 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 434922001392 active site 434922001393 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 434922001394 rRNA interaction site [nucleotide binding]; other site 434922001395 S8 interaction site; other site 434922001396 putative laminin-1 binding site; other site 434922001397 elongation factor Ts; Provisional; Region: tsf; PRK09377 434922001398 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 434922001399 Elongation factor TS; Region: EF_TS; pfam00889 434922001400 Elongation factor TS; Region: EF_TS; pfam00889 434922001401 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 434922001402 putative nucleotide binding site [chemical binding]; other site 434922001403 uridine monophosphate binding site [chemical binding]; other site 434922001404 homohexameric interface [polypeptide binding]; other site 434922001405 ribosome recycling factor; Reviewed; Region: frr; PRK00083 434922001406 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 434922001407 hinge region; other site 434922001408 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 434922001409 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 434922001410 catalytic residue [active] 434922001411 putative FPP diphosphate binding site; other site 434922001412 putative FPP binding hydrophobic cleft; other site 434922001413 dimer interface [polypeptide binding]; other site 434922001414 putative IPP diphosphate binding site; other site 434922001415 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 434922001416 DoxX; Region: DoxX; cl00976 434922001417 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 434922001418 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 434922001419 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 434922001420 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 434922001421 active site 434922001422 metal binding site [ion binding]; metal-binding site 434922001423 nudix motif; other site 434922001424 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 434922001425 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 434922001426 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 434922001427 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 434922001428 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 434922001429 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 434922001430 homodimer interface [polypeptide binding]; other site 434922001431 substrate binding pocket [chemical binding]; other site 434922001432 catalytic residues [active] 434922001433 NADH/NADPH cofactor binding site [chemical binding]; other site 434922001434 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 434922001435 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 434922001436 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 434922001437 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 434922001438 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 434922001439 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 434922001440 Surface antigen; Region: Bac_surface_Ag; cl03097 434922001441 periplasmic chaperone; Provisional; Region: PRK10780 434922001442 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 434922001443 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 434922001444 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 434922001445 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 434922001446 trimer interface [polypeptide binding]; other site 434922001447 active site 434922001448 UDP-GlcNAc binding site [chemical binding]; other site 434922001449 lipid binding site [chemical binding]; lipid-binding site 434922001450 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 434922001451 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 434922001452 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 434922001453 active site 434922001454 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 434922001455 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 434922001456 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 434922001457 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 434922001458 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 434922001459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001460 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 434922001461 nucleoside/Zn binding site; other site 434922001462 dimer interface [polypeptide binding]; other site 434922001463 catalytic motif [active] 434922001464 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 434922001465 dimer interface [polypeptide binding]; other site 434922001466 substrate binding site [chemical binding]; other site 434922001467 metal binding sites [ion binding]; metal-binding site 434922001468 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 434922001469 Proline dehydrogenase; Region: Pro_dh; cl03282 434922001470 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 434922001471 Glutamate binding site [chemical binding]; other site 434922001472 NAD binding site [chemical binding]; other site 434922001473 catalytic residues [active] 434922001474 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 434922001475 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 434922001476 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 434922001477 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 434922001478 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 434922001479 dimerization interface [polypeptide binding]; other site 434922001480 ATP binding site [chemical binding]; other site 434922001481 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 434922001482 dimerization interface [polypeptide binding]; other site 434922001483 ATP binding site [chemical binding]; other site 434922001484 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 434922001485 putative active site [active] 434922001486 catalytic triad [active] 434922001487 Uncharacterized conserved protein [Function unknown]; Region: COG3461 434922001488 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 434922001489 PAS fold; Region: PAS_4; pfam08448 434922001490 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 434922001491 putative active site [active] 434922001492 heme pocket [chemical binding]; other site 434922001493 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 434922001494 dimer interface [polypeptide binding]; other site 434922001495 phosphorylation site [posttranslational modification] 434922001496 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922001497 ATP binding site [chemical binding]; other site 434922001498 Mg2+ binding site [ion binding]; other site 434922001499 G-X-G motif; other site 434922001500 Response regulator receiver domain; Region: Response_reg; pfam00072 434922001501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001502 active site 434922001503 phosphorylation site [posttranslational modification] 434922001504 intermolecular recognition site; other site 434922001505 dimerization interface [polypeptide binding]; other site 434922001506 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 434922001507 EamA-like transporter family; Region: EamA; cl01037 434922001508 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 434922001509 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 434922001510 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 434922001511 E3 interaction surface; other site 434922001512 lipoyl attachment site [posttranslational modification]; other site 434922001513 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 434922001514 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 434922001515 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 434922001516 alpha subunit interface [polypeptide binding]; other site 434922001517 TPP binding site [chemical binding]; other site 434922001518 heterodimer interface [polypeptide binding]; other site 434922001519 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922001520 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 434922001521 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 434922001522 TPP-binding site [chemical binding]; other site 434922001523 tetramer interface [polypeptide binding]; other site 434922001524 heterodimer interface [polypeptide binding]; other site 434922001525 phosphorylation loop region [posttranslational modification] 434922001526 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 434922001527 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 434922001528 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 434922001529 NAD binding site [chemical binding]; other site 434922001530 Phe binding site; other site 434922001531 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 434922001532 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 434922001533 putative active site [active] 434922001534 catalytic site [active] 434922001535 putative metal binding site [ion binding]; other site 434922001536 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 434922001537 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 434922001538 catalytic motif [active] 434922001539 Zn binding site [ion binding]; other site 434922001540 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 434922001541 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 434922001542 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 434922001543 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 434922001544 Lumazine binding domain; Region: Lum_binding; pfam00677 434922001545 Lumazine binding domain; Region: Lum_binding; pfam00677 434922001546 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 434922001547 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 434922001548 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 434922001549 dimerization interface [polypeptide binding]; other site 434922001550 active site 434922001551 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 434922001552 homopentamer interface [polypeptide binding]; other site 434922001553 active site 434922001554 Domain of unknown function DUF20; Region: UPF0118; pfam01594 434922001555 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 434922001556 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 434922001557 recombination protein RecR; Reviewed; Region: recR; PRK00076 434922001558 RecR protein; Region: RecR; pfam02132 434922001559 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 434922001560 putative active site [active] 434922001561 putative metal-binding site [ion binding]; other site 434922001562 tetramer interface [polypeptide binding]; other site 434922001563 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 434922001564 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14958 434922001565 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 434922001566 Walker A motif; other site 434922001567 ATP binding site [chemical binding]; other site 434922001568 Walker B motif; other site 434922001569 arginine finger; other site 434922001570 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 434922001571 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 434922001572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922001573 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 434922001574 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 434922001575 metal binding site [ion binding]; metal-binding site 434922001576 dimer interface [polypeptide binding]; other site 434922001577 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 434922001578 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 434922001579 trimer interface [polypeptide binding]; other site 434922001580 active site 434922001581 substrate binding site [chemical binding]; other site 434922001582 CoA binding site [chemical binding]; other site 434922001583 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 434922001584 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 434922001585 ATP binding site [chemical binding]; other site 434922001586 Mg++ binding site [ion binding]; other site 434922001587 motif III; other site 434922001588 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 434922001589 nucleotide binding region [chemical binding]; other site 434922001590 ATP-binding site [chemical binding]; other site 434922001591 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 434922001592 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 434922001593 Substrate binding site; other site 434922001594 Cupin domain; Region: Cupin_2; cl09118 434922001595 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 434922001596 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 434922001597 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 434922001598 active site 434922001599 motif I; other site 434922001600 motif II; other site 434922001601 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 434922001602 dimer interface [polypeptide binding]; other site 434922001603 active site 434922001604 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 434922001605 active site 434922001606 intersubunit interactions; other site 434922001607 catalytic residue [active] 434922001608 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 434922001609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001610 NAD(P) binding site [chemical binding]; other site 434922001611 active site 434922001612 N-terminal domain of RfaE; Region: RfaE_N; cd02172 434922001613 putative active site [active] 434922001614 (T/H)XGH motif; other site 434922001615 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 434922001616 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 434922001617 putative ribose interaction site [chemical binding]; other site 434922001618 putative ADP binding site [chemical binding]; other site 434922001619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001620 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 434922001621 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 434922001622 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 434922001623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001624 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 434922001625 extended (e) SDRs; Region: SDR_e; cd08946 434922001626 NAD(P) binding site [chemical binding]; other site 434922001627 active site 434922001628 substrate binding site [chemical binding]; other site 434922001629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001630 Methyltransferase domain; Region: Methyltransf_31; pfam13847 434922001631 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 434922001632 S-adenosylmethionine binding site [chemical binding]; other site 434922001633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001634 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 434922001635 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922001636 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 434922001637 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 434922001638 NADP binding site [chemical binding]; other site 434922001639 active site 434922001640 putative substrate binding site [chemical binding]; other site 434922001641 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 434922001642 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 434922001643 NADP-binding site; other site 434922001644 homotetramer interface [polypeptide binding]; other site 434922001645 substrate binding site [chemical binding]; other site 434922001646 homodimer interface [polypeptide binding]; other site 434922001647 active site 434922001648 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 434922001649 active site 434922001650 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 434922001651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001652 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 434922001653 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 434922001654 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 434922001655 alpha subunit interface [polypeptide binding]; other site 434922001656 TPP binding site [chemical binding]; other site 434922001657 heterodimer interface [polypeptide binding]; other site 434922001658 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922001659 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 434922001660 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 434922001661 tetramer interface [polypeptide binding]; other site 434922001662 TPP-binding site [chemical binding]; other site 434922001663 heterodimer interface [polypeptide binding]; other site 434922001664 phosphorylation loop region [posttranslational modification] 434922001665 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 434922001666 active site 434922001667 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 434922001668 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 434922001669 inhibitor-cofactor binding pocket; inhibition site 434922001670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922001671 catalytic residue [active] 434922001672 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 434922001673 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 434922001674 inhibitor-cofactor binding pocket; inhibition site 434922001675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922001676 catalytic residue [active] 434922001677 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 434922001678 ATP-sulfurylase; Region: ATPS; cd00517 434922001679 active site 434922001680 HXXH motif; other site 434922001681 flexible loop; other site 434922001682 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 434922001683 ligand-binding site [chemical binding]; other site 434922001684 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 434922001685 active site 434922001686 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 434922001687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001688 NAD(P) binding site [chemical binding]; other site 434922001689 active site 434922001690 ABC-2 type transporter; Region: ABC2_membrane; cl11417 434922001691 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 434922001692 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 434922001693 Walker A/P-loop; other site 434922001694 ATP binding site [chemical binding]; other site 434922001695 Q-loop/lid; other site 434922001696 ABC transporter signature motif; other site 434922001697 Walker B; other site 434922001698 D-loop; other site 434922001699 H-loop/switch region; other site 434922001700 Domain of unknown function DUF20; Region: UPF0118; pfam01594 434922001701 Transposase IS200 like; Region: Y1_Tnp; cl00848 434922001702 response regulator; Provisional; Region: PRK09483 434922001703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001704 active site 434922001705 phosphorylation site [posttranslational modification] 434922001706 intermolecular recognition site; other site 434922001707 dimerization interface [polypeptide binding]; other site 434922001708 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 434922001709 DNA binding residues [nucleotide binding] 434922001710 dimerization interface [polypeptide binding]; other site 434922001711 phosphate:H+ symporter; Region: 2A0109; TIGR00887 434922001712 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 434922001713 putative substrate translocation pore; other site 434922001714 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 434922001715 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 434922001716 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 434922001717 dimer interface [polypeptide binding]; other site 434922001718 active site 434922001719 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922001720 catalytic residues [active] 434922001721 substrate binding site [chemical binding]; other site 434922001722 Deoxyhypusine synthase; Region: DS; cl00826 434922001723 Arginase family; Region: Arginase; cl00306 434922001724 pyruvate dehydrogenase; Provisional; Region: PRK09124 434922001725 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 434922001726 PYR/PP interface [polypeptide binding]; other site 434922001727 tetramer interface [polypeptide binding]; other site 434922001728 dimer interface [polypeptide binding]; other site 434922001729 TPP binding site [chemical binding]; other site 434922001730 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 434922001731 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 434922001732 TPP-binding site [chemical binding]; other site 434922001733 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 434922001734 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 434922001735 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 434922001736 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 434922001737 anti sigma factor interaction site; other site 434922001738 regulatory phosphorylation site [posttranslational modification]; other site 434922001739 Permease; Region: Permease; cl00510 434922001740 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 434922001741 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 434922001742 Walker A/P-loop; other site 434922001743 ATP binding site [chemical binding]; other site 434922001744 Q-loop/lid; other site 434922001745 ABC transporter signature motif; other site 434922001746 Walker B; other site 434922001747 D-loop; other site 434922001748 H-loop/switch region; other site 434922001749 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 434922001750 mce related protein; Region: MCE; pfam02470 434922001751 Protein of unknown function (DUF330); Region: DUF330; cl01135 434922001752 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 434922001753 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 434922001754 trigger factor; Provisional; Region: tig; PRK01490 434922001755 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 434922001756 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 434922001757 Clp protease; Region: CLP_protease; pfam00574 434922001758 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 434922001759 oligomer interface [polypeptide binding]; other site 434922001760 active site residues [active] 434922001761 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 434922001762 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 434922001763 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 434922001764 Walker A motif; other site 434922001765 ATP binding site [chemical binding]; other site 434922001766 Walker B motif; other site 434922001767 arginine finger; other site 434922001768 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 434922001769 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 434922001770 Found in ATP-dependent protease La (LON); Region: LON; smart00464 434922001771 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 434922001772 Walker A motif; other site 434922001773 ATP binding site [chemical binding]; other site 434922001774 Walker B motif; other site 434922001775 arginine finger; other site 434922001776 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 434922001777 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 434922001778 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 434922001779 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 434922001780 dimerization domain swap beta strand [polypeptide binding]; other site 434922001781 regulatory protein interface [polypeptide binding]; other site 434922001782 active site 434922001783 regulatory phosphorylation site [posttranslational modification]; other site 434922001784 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 434922001785 Hpr binding site; other site 434922001786 active site 434922001787 homohexamer subunit interaction site [polypeptide binding]; other site 434922001788 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 434922001789 30S subunit binding site; other site 434922001790 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 434922001791 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 434922001792 Walker A/P-loop; other site 434922001793 ATP binding site [chemical binding]; other site 434922001794 Q-loop/lid; other site 434922001795 ABC transporter signature motif; other site 434922001796 Walker B; other site 434922001797 D-loop; other site 434922001798 H-loop/switch region; other site 434922001799 OstA-like protein; Region: OstA; cl00844 434922001800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 434922001801 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 434922001802 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 434922001803 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 434922001804 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 434922001805 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 434922001806 putative active site [active] 434922001807 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 434922001808 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 434922001809 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 434922001810 hinge; other site 434922001811 active site 434922001812 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 434922001813 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 434922001814 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922001815 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 434922001816 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 434922001817 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 434922001818 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 434922001819 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 434922001820 protein binding site [polypeptide binding]; other site 434922001821 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 434922001822 protein binding site [polypeptide binding]; other site 434922001823 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 434922001824 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 434922001825 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 434922001826 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 434922001827 RNA binding surface [nucleotide binding]; other site 434922001828 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 434922001829 active site 434922001830 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 434922001831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001832 Response regulator receiver domain; Region: Response_reg; pfam00072 434922001833 active site 434922001834 phosphorylation site [posttranslational modification] 434922001835 intermolecular recognition site; other site 434922001836 dimerization interface [polypeptide binding]; other site 434922001837 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 434922001838 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 434922001839 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 434922001840 AMP-binding enzyme; Region: AMP-binding; cl15778 434922001841 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922001842 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 434922001843 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 434922001844 putative substrate translocation pore; other site 434922001845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001846 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 434922001847 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 434922001848 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 434922001849 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922001850 Sel1 repeat; Region: Sel1; cl02723 434922001851 MatE; Region: MatE; cl10513 434922001852 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 434922001853 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 434922001854 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 434922001855 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 434922001856 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 434922001857 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 434922001858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001859 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922001860 NAD(P) binding site [chemical binding]; other site 434922001861 active site 434922001862 Vitamin K epoxide reductase family; Region: VKOR; cl01729 434922001863 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 434922001864 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 434922001865 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922001866 putative substrate translocation pore; other site 434922001867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434922001868 Helix-turn-helix domains; Region: HTH; cl00088 434922001869 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 434922001870 putative effector binding pocket; other site 434922001871 dimerization interface [polypeptide binding]; other site 434922001872 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 434922001873 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 434922001874 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 434922001875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434922001876 Helix-turn-helix domains; Region: HTH; cl00088 434922001877 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 434922001878 putative effector binding pocket; other site 434922001879 dimerization interface [polypeptide binding]; other site 434922001880 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 434922001881 active site 434922001882 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 434922001883 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 434922001884 catalytic triad [active] 434922001885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922001886 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922001887 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 434922001888 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 434922001889 tetramer interface [polypeptide binding]; other site 434922001890 active site 434922001891 Mg2+/Mn2+ binding site [ion binding]; other site 434922001892 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 434922001893 dimer interface [polypeptide binding]; other site 434922001894 Citrate synthase; Region: Citrate_synt; pfam00285 434922001895 active site 434922001896 citrylCoA binding site [chemical binding]; other site 434922001897 oxalacetate/citrate binding site [chemical binding]; other site 434922001898 coenzyme A binding site [chemical binding]; other site 434922001899 catalytic triad [active] 434922001900 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 434922001901 putative dimer interface [polypeptide binding]; other site 434922001902 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 434922001903 PspC domain; Region: PspC; cl00864 434922001904 Predicted transcriptional regulators [Transcription]; Region: COG1725 434922001905 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 434922001906 DNA-binding site [nucleotide binding]; DNA binding site 434922001907 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 434922001908 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 434922001909 Walker A/P-loop; other site 434922001910 ATP binding site [chemical binding]; other site 434922001911 Q-loop/lid; other site 434922001912 ABC transporter signature motif; other site 434922001913 Walker B; other site 434922001914 D-loop; other site 434922001915 H-loop/switch region; other site 434922001916 intracellular protease, PfpI family; Region: PfpI; TIGR01382 434922001917 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 434922001918 proposed catalytic triad [active] 434922001919 conserved cys residue [active] 434922001920 response regulator; Provisional; Region: PRK09483 434922001921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001922 active site 434922001923 phosphorylation site [posttranslational modification] 434922001924 intermolecular recognition site; other site 434922001925 dimerization interface [polypeptide binding]; other site 434922001926 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 434922001927 DNA binding residues [nucleotide binding] 434922001928 dimerization interface [polypeptide binding]; other site 434922001929 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 434922001930 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922001931 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 434922001932 CoA-transferase family III; Region: CoA_transf_3; pfam02515 434922001933 D-alanine--poly(phosphoribitol) ligase, subunit 1; Region: D-ala-DACP-lig; TIGR01734 434922001934 AMP-binding enzyme; Region: AMP-binding; cl15778 434922001935 AMP-binding enzyme; Region: AMP-binding; cl15778 434922001936 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922001937 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 434922001938 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 434922001939 active site 434922001940 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 434922001941 Acyl transferase domain; Region: Acyl_transf_1; cl08282 434922001942 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 434922001943 putative NADP binding site [chemical binding]; other site 434922001944 active site 434922001945 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922001946 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 434922001947 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 434922001948 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 434922001949 dimer interface [polypeptide binding]; other site 434922001950 phosphorylation site [posttranslational modification] 434922001951 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922001952 ATP binding site [chemical binding]; other site 434922001953 Mg2+ binding site [ion binding]; other site 434922001954 G-X-G motif; other site 434922001955 Response regulator receiver domain; Region: Response_reg; pfam00072 434922001956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001957 active site 434922001958 phosphorylation site [posttranslational modification] 434922001959 intermolecular recognition site; other site 434922001960 dimerization interface [polypeptide binding]; other site 434922001961 YcaO-like family; Region: YcaO; pfam02624 434922001962 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 434922001963 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 434922001964 YcaO-like family; Region: YcaO; pfam02624 434922001965 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922001966 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922001967 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 434922001968 putative substrate translocation pore; other site 434922001969 TfoX N-terminal domain; Region: TfoX_N; cl01167 434922001970 hypothetical protein; Provisional; Region: PRK06126 434922001971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001974 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 434922001975 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 434922001976 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 434922001977 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 434922001978 DNA binding site [nucleotide binding] 434922001979 active site 434922001980 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 434922001981 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 434922001982 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 434922001983 DNA binding residues [nucleotide binding] 434922001984 dimerization interface [polypeptide binding]; other site 434922001985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 434922001986 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 434922001987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 434922001988 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 434922001989 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 434922001990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922001991 Walker A/P-loop; other site 434922001992 ATP binding site [chemical binding]; other site 434922001993 Q-loop/lid; other site 434922001994 ABC transporter signature motif; other site 434922001995 Walker B; other site 434922001996 D-loop; other site 434922001997 H-loop/switch region; other site 434922001998 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 434922001999 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 434922002000 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 434922002001 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 434922002002 active site 434922002003 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 434922002004 FAD binding domain; Region: FAD_binding_4; pfam01565 434922002005 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 434922002006 homodecamer interface [polypeptide binding]; other site 434922002007 GTP cyclohydrolase I; Provisional; Region: PLN03044 434922002008 active site 434922002009 putative catalytic site residues [active] 434922002010 zinc binding site [ion binding]; other site 434922002011 GTP-CH-I/GFRP interaction surface; other site 434922002012 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 434922002013 nucleotide binding site/active site [active] 434922002014 HIT family signature motif; other site 434922002015 catalytic residue [active] 434922002016 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 434922002017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922002018 putative substrate translocation pore; other site 434922002019 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 434922002020 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 434922002021 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 434922002022 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 434922002023 active site 434922002024 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 434922002025 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434922002026 Coenzyme A binding pocket [chemical binding]; other site 434922002027 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922002028 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 434922002029 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 434922002030 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 434922002031 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 434922002032 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 434922002033 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 434922002034 HIGH motif; other site 434922002035 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434922002036 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 434922002037 active site 434922002038 KMSKS motif; other site 434922002039 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 434922002040 tRNA binding surface [nucleotide binding]; other site 434922002041 anticodon binding site; other site 434922002042 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 434922002043 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 434922002044 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 434922002045 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 434922002046 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 434922002047 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 434922002048 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 434922002049 G1 box; other site 434922002050 putative GEF interaction site [polypeptide binding]; other site 434922002051 GTP/Mg2+ binding site [chemical binding]; other site 434922002052 Switch I region; other site 434922002053 G2 box; other site 434922002054 G3 box; other site 434922002055 Switch II region; other site 434922002056 G4 box; other site 434922002057 G5 box; other site 434922002058 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 434922002059 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 434922002060 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 434922002061 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 434922002062 Helix-turn-helix domains; Region: HTH; cl00088 434922002063 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 434922002064 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 434922002065 C-terminal domain interface [polypeptide binding]; other site 434922002066 GSH binding site (G-site) [chemical binding]; other site 434922002067 dimer interface [polypeptide binding]; other site 434922002068 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 434922002069 N-terminal domain interface [polypeptide binding]; other site 434922002070 dimer interface [polypeptide binding]; other site 434922002071 substrate binding pocket (H-site) [chemical binding]; other site 434922002072 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 434922002073 Fic family protein [Function unknown]; Region: COG3177 434922002074 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 434922002075 Fic/DOC family; Region: Fic; cl00960 434922002076 malate dehydrogenase; Provisional; Region: PRK13529 434922002077 Malic enzyme, N-terminal domain; Region: malic; pfam00390 434922002078 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 434922002079 NAD(P) binding site [chemical binding]; other site 434922002080 adenylosuccinate lyase; Provisional; Region: PRK09285 434922002081 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 434922002082 tetramer interface [polypeptide binding]; other site 434922002083 active site 434922002084 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 434922002085 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 434922002086 inhibitor-cofactor binding pocket; inhibition site 434922002087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922002088 catalytic residue [active] 434922002089 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 434922002090 transcriptional activator RfaH; Region: RfaH; TIGR01955 434922002091 Helix-turn-helix domains; Region: HTH; cl00088 434922002092 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 434922002093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002094 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 434922002095 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 434922002096 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 434922002097 putative trimer interface [polypeptide binding]; other site 434922002098 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 434922002099 putative CoA binding site [chemical binding]; other site 434922002100 putative trimer interface [polypeptide binding]; other site 434922002101 putative active site [active] 434922002102 putative substrate binding site [chemical binding]; other site 434922002103 putative CoA binding site [chemical binding]; other site 434922002104 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922002105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002106 NAD(P) binding site [chemical binding]; other site 434922002107 active site 434922002108 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 434922002109 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 434922002110 inhibitor-cofactor binding pocket; inhibition site 434922002111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922002112 catalytic residue [active] 434922002113 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 434922002114 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 434922002115 active site 434922002116 dimer interface [polypeptide binding]; other site 434922002117 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 434922002118 Ligand Binding Site [chemical binding]; other site 434922002119 Molecular Tunnel; other site 434922002120 maltose O-acetyltransferase; Provisional; Region: PRK10092 434922002121 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 434922002122 trimer interface [polypeptide binding]; other site 434922002123 active site 434922002124 substrate binding site [chemical binding]; other site 434922002125 CoA binding site [chemical binding]; other site 434922002126 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 434922002127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002128 Walker A/P-loop; other site 434922002129 ATP binding site [chemical binding]; other site 434922002130 Q-loop/lid; other site 434922002131 ABC transporter signature motif; other site 434922002132 Walker B; other site 434922002133 D-loop; other site 434922002134 H-loop/switch region; other site 434922002135 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 434922002136 S-adenosylmethionine binding site [chemical binding]; other site 434922002137 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 434922002138 Radical SAM superfamily; Region: Radical_SAM; pfam04055 434922002139 FeS/SAM binding site; other site 434922002140 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 434922002141 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002142 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 434922002143 putative ADP-binding pocket [chemical binding]; other site 434922002144 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002145 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 434922002146 putative ADP-binding pocket [chemical binding]; other site 434922002147 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 434922002148 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 434922002149 active site 434922002150 dimer interface [polypeptide binding]; other site 434922002151 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 434922002152 Ligand Binding Site [chemical binding]; other site 434922002153 Molecular Tunnel; other site 434922002154 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 434922002155 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002156 putative ADP-binding pocket [chemical binding]; other site 434922002157 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 434922002158 active site 434922002159 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 434922002160 homodimer interface [polypeptide binding]; other site 434922002161 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002162 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 434922002163 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 434922002164 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922002165 putative NAD(P) binding site [chemical binding]; other site 434922002166 active site 434922002167 putative substrate binding site [chemical binding]; other site 434922002168 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 434922002169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002170 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 434922002171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002172 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 434922002173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002174 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 434922002175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002176 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 434922002177 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 434922002178 NAD binding site [chemical binding]; other site 434922002179 homodimer interface [polypeptide binding]; other site 434922002180 homotetramer interface [polypeptide binding]; other site 434922002181 active site 434922002182 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 434922002183 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 434922002184 active site 434922002185 dimer interface [polypeptide binding]; other site 434922002186 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 434922002187 dimer interface [polypeptide binding]; other site 434922002188 active site 434922002189 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 434922002190 active site 434922002191 tetramer interface; other site 434922002192 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 434922002193 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 434922002194 16S/18S rRNA binding site [nucleotide binding]; other site 434922002195 S13e-L30e interaction site [polypeptide binding]; other site 434922002196 25S rRNA binding site [nucleotide binding]; other site 434922002197 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 434922002198 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 434922002199 RNase E interface [polypeptide binding]; other site 434922002200 trimer interface [polypeptide binding]; other site 434922002201 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 434922002202 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 434922002203 RNase E interface [polypeptide binding]; other site 434922002204 trimer interface [polypeptide binding]; other site 434922002205 active site 434922002206 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 434922002207 putative nucleic acid binding region [nucleotide binding]; other site 434922002208 G-X-X-G motif; other site 434922002209 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 434922002210 RNA binding site [nucleotide binding]; other site 434922002211 domain interface; other site 434922002212 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 434922002213 active site 434922002214 dimer interfaces [polypeptide binding]; other site 434922002215 catalytic residues [active] 434922002216 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 434922002217 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 434922002218 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 434922002219 Walker A/P-loop; other site 434922002220 ATP binding site [chemical binding]; other site 434922002221 Q-loop/lid; other site 434922002222 ABC transporter signature motif; other site 434922002223 Walker B; other site 434922002224 D-loop; other site 434922002225 H-loop/switch region; other site 434922002226 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 434922002227 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 434922002228 NAD synthetase; Provisional; Region: PRK13981 434922002229 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 434922002230 multimer interface [polypeptide binding]; other site 434922002231 active site 434922002232 catalytic triad [active] 434922002233 protein interface 1 [polypeptide binding]; other site 434922002234 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 434922002235 homodimer interface [polypeptide binding]; other site 434922002236 NAD binding pocket [chemical binding]; other site 434922002237 ATP binding pocket [chemical binding]; other site 434922002238 Mg binding site [ion binding]; other site 434922002239 active-site loop [active] 434922002240 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 434922002241 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 434922002242 ankyrin-like protein; Provisional; Region: PHA03095 434922002243 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 434922002244 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 434922002245 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 434922002246 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 434922002247 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 434922002248 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 434922002249 AAA domain; Region: AAA_25; pfam13481 434922002250 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 434922002251 Walker A motif; other site 434922002252 ATP binding site [chemical binding]; other site 434922002253 Walker B motif; other site 434922002254 DNA binding loops [nucleotide binding] 434922002255 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 434922002256 protein-splicing catalytic site; other site 434922002257 thioester formation/cholesterol transfer; other site 434922002258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002259 alanine racemase; Reviewed; Region: alr; PRK00053 434922002260 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 434922002261 active site 434922002262 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922002263 substrate binding site [chemical binding]; other site 434922002264 catalytic residues [active] 434922002265 dimer interface [polypeptide binding]; other site 434922002266 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 434922002267 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 434922002268 putative deacylase active site [active] 434922002269 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 434922002270 Sugar specificity; other site 434922002271 Pyrimidine base specificity; other site 434922002272 ATP-binding site [chemical binding]; other site 434922002273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 434922002274 Smr domain; Region: Smr; cl02619 434922002275 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 434922002276 Tetramer interface [polypeptide binding]; other site 434922002277 active site 434922002278 FMN-binding site [chemical binding]; other site 434922002279 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 434922002280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002281 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 434922002282 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 434922002283 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 434922002284 ATP binding site [chemical binding]; other site 434922002285 substrate interface [chemical binding]; other site 434922002286 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 434922002287 active site residue [active] 434922002288 Integrase core domain; Region: rve; cl01316 434922002289 Integrase core domain; Region: rve_3; cl15866 434922002290 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 434922002291 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 434922002292 G1 box; other site 434922002293 putative GEF interaction site [polypeptide binding]; other site 434922002294 GTP/Mg2+ binding site [chemical binding]; other site 434922002295 Switch I region; other site 434922002296 G2 box; other site 434922002297 G3 box; other site 434922002298 Switch II region; other site 434922002299 G4 box; other site 434922002300 G5 box; other site 434922002301 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 434922002302 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 434922002303 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 434922002304 active site 434922002305 motif I; other site 434922002306 motif II; other site 434922002307 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 434922002308 Flavoprotein; Region: Flavoprotein; cl08021 434922002309 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 434922002310 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 434922002311 active site 434922002312 nucleophile elbow; other site 434922002313 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 434922002314 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 434922002315 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 434922002316 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 434922002317 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 434922002318 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 434922002319 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 434922002320 dimerization interface 3.5A [polypeptide binding]; other site 434922002321 active site 434922002322 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 434922002323 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 434922002324 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 434922002325 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922002326 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922002327 cell division protein DedD; Provisional; Region: PRK11633 434922002328 Sporulation related domain; Region: SPOR; cl10051 434922002329 Colicin V production protein; Region: Colicin_V; cl00567 434922002330 amidophosphoribosyltransferase; Provisional; Region: PRK09246 434922002331 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 434922002332 tetramer interface [polypeptide binding]; other site 434922002333 active site 434922002334 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922002335 active site 434922002336 Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases; Region: TY; cd00191 434922002337 protease interaction site; other site 434922002338 Protein required for attachment to host cells; Region: Host_attach; cl02398 434922002339 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922002340 Helix-turn-helix domains; Region: HTH; cl00088 434922002341 Integrase core domain; Region: rve; cl01316 434922002342 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 434922002343 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 434922002344 FMN binding site [chemical binding]; other site 434922002345 active site 434922002346 catalytic residues [active] 434922002347 substrate binding site [chemical binding]; other site 434922002348 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 434922002349 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 434922002350 putative substrate translocation pore; other site 434922002351 Intracellular septation protein A; Region: IspA; cl01098 434922002352 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 434922002353 Phosphotransferase enzyme family; Region: APH; pfam01636 434922002354 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922002355 active site 434922002356 ATP binding site [chemical binding]; other site 434922002357 substrate binding site [chemical binding]; other site 434922002358 ScpA/B protein; Region: ScpA_ScpB; cl00598 434922002359 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 434922002360 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 434922002361 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 434922002362 RNA binding surface [nucleotide binding]; other site 434922002363 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 434922002364 probable active site [active] 434922002365 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 434922002366 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 434922002367 Ligand binding site; other site 434922002368 Putative Catalytic site; other site 434922002369 DXD motif; other site 434922002370 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 434922002371 MutS domain I; Region: MutS_I; pfam01624 434922002372 MutS domain II; Region: MutS_II; pfam05188 434922002373 MutS family domain IV; Region: MutS_IV; pfam05190 434922002374 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002375 Walker A/P-loop; other site 434922002376 ATP binding site [chemical binding]; other site 434922002377 Q-loop/lid; other site 434922002378 ABC transporter signature motif; other site 434922002379 Walker B; other site 434922002380 D-loop; other site 434922002381 H-loop/switch region; other site 434922002382 Competence-damaged protein; Region: CinA; cl00666 434922002383 recombinase A; Provisional; Region: recA; PRK09354 434922002384 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 434922002385 hexamer interface [polypeptide binding]; other site 434922002386 Walker A motif; other site 434922002387 ATP binding site [chemical binding]; other site 434922002388 Walker B motif; other site 434922002389 RecX family; Region: RecX; cl00936 434922002390 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 434922002391 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 434922002392 motif 1; other site 434922002393 active site 434922002394 motif 2; other site 434922002395 motif 3; other site 434922002396 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 434922002397 DHHA1 domain; Region: DHHA1; pfam02272 434922002398 aspartate kinase; Reviewed; Region: PRK06635 434922002399 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 434922002400 putative nucleotide binding site [chemical binding]; other site 434922002401 putative catalytic residues [active] 434922002402 putative Mg ion binding site [ion binding]; other site 434922002403 putative aspartate binding site [chemical binding]; other site 434922002404 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 434922002405 putative allosteric regulatory site; other site 434922002406 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 434922002407 putative allosteric regulatory residue; other site 434922002408 Global regulator protein family; Region: CsrA; cl00670 434922002409 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002410 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002411 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002412 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002413 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002414 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002415 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002416 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002417 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002418 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 434922002419 response regulator; Provisional; Region: PRK09483 434922002420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002421 active site 434922002422 phosphorylation site [posttranslational modification] 434922002423 intermolecular recognition site; other site 434922002424 dimerization interface [polypeptide binding]; other site 434922002425 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 434922002426 DNA binding residues [nucleotide binding] 434922002427 dimerization interface [polypeptide binding]; other site 434922002428 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 434922002429 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 434922002430 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 434922002431 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 434922002432 D-pathway; other site 434922002433 Putative ubiquinol binding site [chemical binding]; other site 434922002434 Low-spin heme (heme b) binding site [chemical binding]; other site 434922002435 Putative water exit pathway; other site 434922002436 Binuclear center (heme o3/CuB) [ion binding]; other site 434922002437 K-pathway; other site 434922002438 Putative proton exit pathway; other site 434922002439 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 434922002440 Subunit I/III interface [polypeptide binding]; other site 434922002441 Subunit III/IV interface [polypeptide binding]; other site 434922002442 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 434922002443 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 434922002444 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 434922002445 Helix-turn-helix domains; Region: HTH; cl00088 434922002446 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 434922002447 catalytic triad [active] 434922002448 metal binding site [ion binding]; metal-binding site 434922002449 conserved cis-peptide bond; other site 434922002450 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 434922002451 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 434922002452 active site 434922002453 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 434922002454 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 434922002455 catalytic residue [active] 434922002456 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 434922002457 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922002458 catalytic residue [active] 434922002459 AMP-binding enzyme; Region: AMP-binding; cl15778 434922002460 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 434922002461 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 434922002462 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 434922002463 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 434922002464 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002465 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 434922002466 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002467 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 434922002468 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 434922002469 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002470 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 434922002471 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002472 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 434922002473 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 434922002474 putative NAD(P) binding site [chemical binding]; other site 434922002475 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 434922002476 active site 434922002477 NTP binding site [chemical binding]; other site 434922002478 metal binding triad [ion binding]; metal-binding site 434922002479 antibiotic binding site [chemical binding]; other site 434922002480 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922002481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002482 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 434922002483 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 434922002484 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 434922002485 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 434922002486 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 434922002487 CrcB-like protein; Region: CRCB; cl09114 434922002488 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 434922002489 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 434922002490 inhibitor-cofactor binding pocket; inhibition site 434922002491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922002492 catalytic residue [active] 434922002493 biotin synthase; Region: bioB; TIGR00433 434922002494 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 434922002495 FeS/SAM binding site; other site 434922002496 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 434922002497 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 434922002498 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 434922002499 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922002500 catalytic residue [active] 434922002501 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 434922002502 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 434922002503 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 434922002504 S-adenosylmethionine binding site [chemical binding]; other site 434922002505 AAA domain; Region: AAA_26; pfam13500 434922002506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002507 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002508 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 434922002509 Helix-turn-helix domains; Region: HTH; cl00088 434922002510 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 434922002511 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 434922002512 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 434922002513 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434922002514 FtsX-like permease family; Region: FtsX; cl15850 434922002515 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 434922002516 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 434922002517 Walker A/P-loop; other site 434922002518 ATP binding site [chemical binding]; other site 434922002519 Q-loop/lid; other site 434922002520 ABC transporter signature motif; other site 434922002521 Walker B; other site 434922002522 D-loop; other site 434922002523 H-loop/switch region; other site 434922002524 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 434922002525 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 434922002526 HflX GTPase family; Region: HflX; cd01878 434922002527 G1 box; other site 434922002528 GTP/Mg2+ binding site [chemical binding]; other site 434922002529 Switch I region; other site 434922002530 G2 box; other site 434922002531 G3 box; other site 434922002532 Switch II region; other site 434922002533 G4 box; other site 434922002534 G5 box; other site 434922002535 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 434922002536 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 434922002537 GDP-binding site [chemical binding]; other site 434922002538 ACT binding site; other site 434922002539 IMP binding site; other site 434922002540 UbiA prenyltransferase family; Region: UbiA; cl00337 434922002541 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 434922002542 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 434922002543 active site 434922002544 catalytic residues [active] 434922002545 metal binding site [ion binding]; metal-binding site 434922002546 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 434922002547 active site 434922002548 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 434922002549 ligand binding site [chemical binding]; other site 434922002550 active site 434922002551 UGI interface [polypeptide binding]; other site 434922002552 catalytic site [active] 434922002553 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 434922002554 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 434922002555 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 434922002556 Sporulation related domain; Region: SPOR; cl10051 434922002557 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 434922002558 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 434922002559 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 434922002560 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 434922002561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002562 NeuB family; Region: NeuB; cl00496 434922002563 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 434922002564 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 434922002565 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922002566 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922002567 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 434922002568 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 434922002569 carboxyltransferase (CT) interaction site; other site 434922002570 biotinylation site [posttranslational modification]; other site 434922002571 enoyl-CoA hydratase; Provisional; Region: PRK05995 434922002572 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 434922002573 substrate binding site [chemical binding]; other site 434922002574 oxyanion hole (OAH) forming residues; other site 434922002575 trimer interface [polypeptide binding]; other site 434922002576 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 434922002577 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 434922002578 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 434922002579 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 434922002580 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 434922002581 dimer interface [polypeptide binding]; other site 434922002582 active site 434922002583 isovaleryl-CoA dehydrogenase; Region: PLN02519 434922002584 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 434922002585 substrate binding site [chemical binding]; other site 434922002586 FAD binding site [chemical binding]; other site 434922002587 catalytic base [active] 434922002588 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 434922002589 quinone interaction residues [chemical binding]; other site 434922002590 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 434922002591 active site 434922002592 catalytic residues [active] 434922002593 FMN binding site [chemical binding]; other site 434922002594 substrate binding site [chemical binding]; other site 434922002595 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 434922002596 PLD-like domain; Region: PLDc_2; pfam13091 434922002597 putative active site [active] 434922002598 catalytic site [active] 434922002599 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 434922002600 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 434922002601 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 434922002602 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 434922002603 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 434922002604 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 434922002605 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 434922002606 catalytic triad [active] 434922002607 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 434922002608 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 434922002609 NADP binding site [chemical binding]; other site 434922002610 homodimer interface [polypeptide binding]; other site 434922002611 active site 434922002612 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 434922002613 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 434922002614 non-specific DNA binding site [nucleotide binding]; other site 434922002615 salt bridge; other site 434922002616 sequence-specific DNA binding site [nucleotide binding]; other site 434922002617 Cupin domain; Region: Cupin_2; cl09118 434922002618 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 434922002619 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922002620 putative substrate translocation pore; other site 434922002621 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 434922002622 response regulator; Provisional; Region: PRK09483 434922002623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002624 active site 434922002625 phosphorylation site [posttranslational modification] 434922002626 intermolecular recognition site; other site 434922002627 dimerization interface [polypeptide binding]; other site 434922002628 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 434922002629 DNA binding residues [nucleotide binding] 434922002630 dimerization interface [polypeptide binding]; other site 434922002631 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 434922002632 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 434922002633 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 434922002634 putative NADH binding site [chemical binding]; other site 434922002635 putative active site [active] 434922002636 nudix motif; other site 434922002637 putative metal binding site [ion binding]; other site 434922002638 Spore germination protein; Region: Spore_permease; cl15802 434922002639 amino acid transporter; Region: 2A0306; TIGR00909 434922002640 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 434922002641 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 434922002642 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 434922002643 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 434922002644 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 434922002645 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 434922002646 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922002647 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002648 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 434922002649 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922002650 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 434922002651 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002652 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002653 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002654 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002655 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002656 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002657 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002658 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002659 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002660 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002661 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 434922002662 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 434922002663 salt bridge; other site 434922002664 non-specific DNA binding site [nucleotide binding]; other site 434922002665 sequence-specific DNA binding site [nucleotide binding]; other site 434922002666 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 434922002667 major vault protein; Provisional; Region: PTZ00491 434922002668 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 434922002669 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 434922002670 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 434922002671 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 434922002672 Fic/DOC family; Region: Fic; cl00960 434922002673 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 434922002674 active site residue [active] 434922002675 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 434922002676 adenine DNA glycosylase; Provisional; Region: PRK10880 434922002677 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 434922002678 minor groove reading motif; other site 434922002679 helix-hairpin-helix signature motif; other site 434922002680 substrate binding pocket [chemical binding]; other site 434922002681 active site 434922002682 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 434922002683 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 434922002684 DNA binding and oxoG recognition site [nucleotide binding] 434922002685 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 434922002686 AsmA-like C-terminal region; Region: AsmA_2; cl15864 434922002687 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 434922002688 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 434922002689 RNA/DNA binding site [nucleotide binding]; other site 434922002690 RRM dimerization site [polypeptide binding]; other site 434922002691 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 434922002692 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002693 Walker A/P-loop; other site 434922002694 ATP binding site [chemical binding]; other site 434922002695 Q-loop/lid; other site 434922002696 ABC transporter signature motif; other site 434922002697 Walker B; other site 434922002698 D-loop; other site 434922002699 H-loop/switch region; other site 434922002700 ABC-2 type transporter; Region: ABC2_membrane; cl11417 434922002701 glycerol kinase; Provisional; Region: glpK; PRK00047 434922002702 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 434922002703 N- and C-terminal domain interface [polypeptide binding]; other site 434922002704 active site 434922002705 MgATP binding site [chemical binding]; other site 434922002706 catalytic site [active] 434922002707 metal binding site [ion binding]; metal-binding site 434922002708 glycerol binding site [chemical binding]; other site 434922002709 homotetramer interface [polypeptide binding]; other site 434922002710 homodimer interface [polypeptide binding]; other site 434922002711 FBP binding site [chemical binding]; other site 434922002712 protein IIAGlc interface [polypeptide binding]; other site 434922002713 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 434922002714 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 434922002715 active site 434922002716 DNA binding site [nucleotide binding] 434922002717 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 434922002718 classical (c) SDRs; Region: SDR_c; cd05233 434922002719 NAD(P) binding site [chemical binding]; other site 434922002720 active site 434922002721 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 434922002722 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 434922002723 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 434922002724 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 434922002725 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 434922002726 tetrameric interface [polypeptide binding]; other site 434922002727 NAD binding site [chemical binding]; other site 434922002728 catalytic residues [active] 434922002729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002730 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 434922002731 lytic murein transglycosylase; Region: MltB_2; TIGR02283 434922002732 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 434922002733 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922002734 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 434922002735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002736 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 434922002737 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 434922002738 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 434922002739 putative substrate translocation pore; other site 434922002740 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 434922002741 Di-iron ligands [ion binding]; other site 434922002742 chromosome segregation protein; Provisional; Region: PRK03918 434922002743 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 434922002744 putative catalytic site [active] 434922002745 putative metal binding site [ion binding]; other site 434922002746 putative phosphate binding site [ion binding]; other site 434922002747 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 434922002748 CoenzymeA binding site [chemical binding]; other site 434922002749 subunit interaction site [polypeptide binding]; other site 434922002750 PHB binding site; other site 434922002751 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 434922002752 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 434922002753 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 434922002754 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 434922002755 transmembrane helices; other site 434922002756 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 434922002757 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 434922002758 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 434922002759 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 434922002760 Ligand Binding Site [chemical binding]; other site 434922002761 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 434922002762 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 434922002763 cyclase homology domain; Region: CHD; cd07302 434922002764 nucleotidyl binding site; other site 434922002765 metal binding site [ion binding]; metal-binding site 434922002766 dimer interface [polypeptide binding]; other site 434922002767 DoxX; Region: DoxX; cl00976 434922002768 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 434922002769 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 434922002770 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 434922002771 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922002772 active site 434922002773 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 434922002774 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434922002775 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 434922002776 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 434922002777 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 434922002778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 434922002779 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922002780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922002781 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 434922002782 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 434922002783 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922002784 ATP binding site [chemical binding]; other site 434922002785 Mg2+ binding site [ion binding]; other site 434922002786 G-X-G motif; other site 434922002787 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 434922002788 ATP binding site [chemical binding]; other site 434922002789 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 434922002790 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 434922002791 PAS fold; Region: PAS_3; pfam08447 434922002792 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 434922002793 PAS fold; Region: PAS_3; pfam08447 434922002794 putative active site [active] 434922002795 heme pocket [chemical binding]; other site 434922002796 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 434922002797 dimer interface [polypeptide binding]; other site 434922002798 phosphorylation site [posttranslational modification] 434922002799 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922002800 ATP binding site [chemical binding]; other site 434922002801 Mg2+ binding site [ion binding]; other site 434922002802 G-X-G motif; other site 434922002803 Response regulator receiver domain; Region: Response_reg; pfam00072 434922002804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002805 active site 434922002806 phosphorylation site [posttranslational modification] 434922002807 intermolecular recognition site; other site 434922002808 dimerization interface [polypeptide binding]; other site 434922002809 AMIN domain; Region: AMIN; pfam11741 434922002810 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 434922002811 active site 434922002812 metal binding site [ion binding]; metal-binding site 434922002813 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 434922002814 putative carbohydrate kinase; Provisional; Region: PRK10565 434922002815 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 434922002816 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 434922002817 putative substrate binding site [chemical binding]; other site 434922002818 putative ATP binding site [chemical binding]; other site 434922002819 ribonuclease R; Region: RNase_R; TIGR02063 434922002820 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 434922002821 RNB domain; Region: RNB; pfam00773 434922002822 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 434922002823 RNA binding site [nucleotide binding]; other site 434922002824 multidrug efflux protein; Reviewed; Region: PRK09579 434922002825 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922002826 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 434922002827 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 434922002828 fumarate hydratase; Reviewed; Region: fumC; PRK00485 434922002829 Class II fumarases; Region: Fumarase_classII; cd01362 434922002830 active site 434922002831 tetramer interface [polypeptide binding]; other site 434922002832 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 434922002833 signal peptidase I; Provisional; Region: PRK10861 434922002834 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 434922002835 Catalytic site [active] 434922002836 Uncharacterized protein family (UPF0146); Region: UPF0146; cl00552 434922002837 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 434922002838 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922002839 catalytic residue [active] 434922002840 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 434922002841 putative peptidoglycan binding site; other site 434922002842 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 434922002843 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 434922002844 MltA specific insert domain; Region: MltA; cl08398 434922002845 3D domain; Region: 3D; cl01439 434922002846 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 434922002847 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 434922002848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002849 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 434922002850 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 434922002851 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 434922002852 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 434922002853 Electron transfer flavoprotein domain; Region: ETF; pfam01012 434922002854 Ligand binding site [chemical binding]; other site 434922002855 Dienelactone hydrolase family; Region: DLH; pfam01738 434922002856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002857 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 434922002858 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 434922002859 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 434922002860 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922002861 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 434922002862 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 434922002863 HSP70 interaction site [polypeptide binding]; other site 434922002864 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 434922002865 substrate binding site [polypeptide binding]; other site 434922002866 dimer interface [polypeptide binding]; other site 434922002867 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 434922002868 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 434922002869 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 434922002870 active site 434922002871 HPP family; Region: HPP; pfam04982 434922002872 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 434922002873 trimerization site [polypeptide binding]; other site 434922002874 active site 434922002875 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 434922002876 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 434922002877 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922002878 catalytic residue [active] 434922002879 OPT oligopeptide transporter protein; Region: OPT; cl14607 434922002880 oligopeptide transporters, OPT superfamily; Region: OPT_sfam; TIGR00728 434922002881 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 434922002882 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 434922002883 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 434922002884 active site 434922002885 dimerization interface [polypeptide binding]; other site 434922002886 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922002887 Sel1 repeat; Region: Sel1; cl02723 434922002888 Sel1 repeat; Region: Sel1; cl02723 434922002889 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922002890 Sel1 repeat; Region: Sel1; cl02723 434922002891 Sel1 repeat; Region: Sel1; cl02723 434922002892 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922002893 Sel1 repeat; Region: Sel1; cl02723 434922002894 Sel1 repeat; Region: Sel1; cl02723 434922002895 Sel1 repeat; Region: Sel1; cl02723 434922002896 Sel1 repeat; Region: Sel1; cl02723 434922002897 Sel1 repeat; Region: Sel1; cl02723 434922002898 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922002899 CAF1 family ribonuclease; Region: CAF1; cl15833 434922002900 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 434922002901 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 434922002902 Protein export membrane protein; Region: SecD_SecF; cl14618 434922002903 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 434922002904 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 434922002905 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 434922002906 Protein export membrane protein; Region: SecD_SecF; cl14618 434922002907 Preprotein translocase subunit; Region: YajC; cl00806 434922002908 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 434922002909 LanM-like proteins. LanM is a bifunctional enzyme, involved in the synthesis of class II lantibiotics. It is responsible for both the dehydration and the cyclization of the precursor-peptide during lantibiotic synthesis. The C-terminal domain shows...; Region: LanM-like; cd04792 434922002910 active site 434922002911 zinc binding site [ion binding]; other site 434922002912 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 434922002913 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 434922002914 Ligand Binding Site [chemical binding]; other site 434922002915 transcription-repair coupling factor; Provisional; Region: PRK10689 434922002916 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 434922002917 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 434922002918 ATP binding site [chemical binding]; other site 434922002919 putative Mg++ binding site [ion binding]; other site 434922002920 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 434922002921 nucleotide binding region [chemical binding]; other site 434922002922 ATP-binding site [chemical binding]; other site 434922002923 TRCF domain; Region: TRCF; cl04088 434922002924 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 434922002925 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 434922002926 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 434922002927 motif II; other site 434922002928 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 434922002929 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 434922002930 chorismate binding enzyme; Region: Chorismate_bind; cl10555 434922002931 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 434922002932 active site 434922002933 ribulose/triose binding site [chemical binding]; other site 434922002934 phosphate binding site [ion binding]; other site 434922002935 substrate (anthranilate) binding pocket [chemical binding]; other site 434922002936 product (indole) binding pocket [chemical binding]; other site 434922002937 bifunctional phosphoribosylanthranilate isomerase/tryptophan synthase subunit beta; Provisional; Region: PRK13803 434922002938 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 434922002939 active site 434922002940 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 434922002941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922002942 catalytic residue [active] 434922002943 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 434922002944 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 434922002945 substrate binding site [chemical binding]; other site 434922002946 active site 434922002947 catalytic residues [active] 434922002948 heterodimer interface [polypeptide binding]; other site 434922002949 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922002950 Phospholipid methyltransferase; Region: PEMT; cl00763 434922002951 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 434922002952 TPR repeat; Region: TPR_11; pfam13414 434922002953 binding surface 434922002954 TPR motif; other site 434922002955 Catalytic domain of Protein Kinases; Region: PKc; cd00180 434922002956 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 434922002957 active site 434922002958 ATP binding site [chemical binding]; other site 434922002959 substrate binding site [chemical binding]; other site 434922002960 activation loop (A-loop); other site 434922002961 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 434922002962 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 434922002963 putative dimer interface [polypeptide binding]; other site 434922002964 Domain of unknown function (DUF378); Region: DUF378; cl00943 434922002965 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 434922002966 hypothetical protein; Reviewed; Region: PRK09588 434922002967 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 434922002968 Archease protein family (MTH1598/TM1083); Region: Archease; cl00606 434922002969 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 434922002970 DNA photolyase; Region: DNA_photolyase; pfam00875 434922002971 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 434922002972 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922002973 Ubiquitin C-terminal hydrolase 37 receptor binding site; Region: UCH37_bd; pfam13658 434922002974 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922002975 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 434922002976 putative substrate translocation pore; other site 434922002977 Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]; Region: ThiI; COG0301 434922002978 THUMP domain; Region: THUMP; cl12076 434922002979 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 434922002980 Ligand Binding Site [chemical binding]; other site 434922002981 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 434922002982 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 434922002983 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922002984 catalytic residue [active] 434922002985 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 434922002986 RNA/DNA binding site [nucleotide binding]; other site 434922002987 RRM dimerization site [polypeptide binding]; other site 434922002988 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 434922002989 putative acyl-acceptor binding pocket; other site 434922002990 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 434922002991 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 434922002992 GIY-YIG motif/motif A; other site 434922002993 active site 434922002994 catalytic site [active] 434922002995 putative DNA binding site [nucleotide binding]; other site 434922002996 metal binding site [ion binding]; metal-binding site 434922002997 UvrB/uvrC motif; Region: UVR; pfam02151 434922002998 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 434922002999 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 434922003000 seryl-tRNA synthetase; Provisional; Region: PRK05431 434922003001 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 434922003002 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 434922003003 dimer interface [polypeptide binding]; other site 434922003004 active site 434922003005 motif 1; other site 434922003006 motif 2; other site 434922003007 motif 3; other site 434922003008 recombination factor protein RarA; Reviewed; Region: PRK13342 434922003009 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 434922003010 Walker A motif; other site 434922003011 ATP binding site [chemical binding]; other site 434922003012 Walker B motif; other site 434922003013 arginine finger; other site 434922003014 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 434922003015 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 434922003016 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 434922003017 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 434922003018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003019 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 434922003020 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 434922003021 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434922003022 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 434922003023 rRNA binding site [nucleotide binding]; other site 434922003024 predicted 30S ribosome binding site; other site 434922003025 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 434922003026 Clp amino terminal domain; Region: Clp_N; pfam02861 434922003027 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 434922003028 Walker A motif; other site 434922003029 ATP binding site [chemical binding]; other site 434922003030 Walker B motif; other site 434922003031 arginine finger; other site 434922003032 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 434922003033 Walker A motif; other site 434922003034 ATP binding site [chemical binding]; other site 434922003035 Walker B motif; other site 434922003036 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 434922003037 isocitrate dehydrogenase; Validated; Region: PRK07362 434922003038 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 434922003039 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 434922003040 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 434922003041 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 434922003042 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 434922003043 active site 434922003044 FMN binding site [chemical binding]; other site 434922003045 substrate binding site [chemical binding]; other site 434922003046 3Fe-4S cluster binding site [ion binding]; other site 434922003047 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 434922003048 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 434922003049 NAD(P) binding site [chemical binding]; other site 434922003050 catalytic residues [active] 434922003051 Phospholipid methyltransferase; Region: PEMT; cl00763 434922003052 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 434922003053 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003054 putative substrate translocation pore; other site 434922003055 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 434922003056 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 434922003057 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 434922003058 ATP binding site [chemical binding]; other site 434922003059 active site 434922003060 substrate binding site [chemical binding]; other site 434922003061 Nucleoporin subcomplex protein binding to Pom34; Region: Nup188; pfam10487 434922003062 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 434922003063 dihydrodipicolinate synthase; Region: dapA; TIGR00674 434922003064 dimer interface [polypeptide binding]; other site 434922003065 active site 434922003066 catalytic residue [active] 434922003067 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 434922003068 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 434922003069 substrate binding site [chemical binding]; other site 434922003070 ATP binding site [chemical binding]; other site 434922003071 RmuC family; Region: RmuC; pfam02646 434922003072 haloalkane dehalogenase; Provisional; Region: PRK03592 434922003073 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 434922003074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003075 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 434922003076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922003077 active site 434922003078 phosphorylation site [posttranslational modification] 434922003079 intermolecular recognition site; other site 434922003080 dimerization interface [polypeptide binding]; other site 434922003081 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 434922003082 DNA binding site [nucleotide binding] 434922003083 sensor protein QseC; Provisional; Region: PRK10337 434922003084 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 434922003085 dimer interface [polypeptide binding]; other site 434922003086 phosphorylation site [posttranslational modification] 434922003087 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922003088 ATP binding site [chemical binding]; other site 434922003089 Mg2+ binding site [ion binding]; other site 434922003090 G-X-G motif; other site 434922003091 probable DNA repair protein; Region: TIGR03623 434922003092 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 434922003093 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 434922003094 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 434922003095 Family description; Region: UvrD_C_2; cl15862 434922003096 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 434922003097 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 434922003098 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922003099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003100 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 434922003101 catalytic site [active] 434922003102 putative active site [active] 434922003103 putative substrate binding site [chemical binding]; other site 434922003104 dimer interface [polypeptide binding]; other site 434922003105 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 434922003106 oligomeric interface; other site 434922003107 homodimer interface [polypeptide binding]; other site 434922003108 putative active site [active] 434922003109 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 434922003110 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 434922003111 UGMP family protein; Validated; Region: PRK09604 434922003112 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 434922003113 malate dehydrogenase; Provisional; Region: PRK05442 434922003114 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 434922003115 NAD(P) binding site [chemical binding]; other site 434922003116 dimer interface [polypeptide binding]; other site 434922003117 malate binding site [chemical binding]; other site 434922003118 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 434922003119 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 434922003120 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 434922003121 generic binding surface II; other site 434922003122 generic binding surface I; other site 434922003123 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 434922003124 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 434922003125 putative substrate translocation pore; other site 434922003126 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 434922003127 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 434922003128 G1 box; other site 434922003129 GTP/Mg2+ binding site [chemical binding]; other site 434922003130 Switch I region; other site 434922003131 G2 box; other site 434922003132 Switch II region; other site 434922003133 G3 box; other site 434922003134 G4 box; other site 434922003135 G5 box; other site 434922003136 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 434922003137 G1 box; other site 434922003138 GTP/Mg2+ binding site [chemical binding]; other site 434922003139 Switch I region; other site 434922003140 G2 box; other site 434922003141 G3 box; other site 434922003142 Switch II region; other site 434922003143 G4 box; other site 434922003144 G5 box; other site 434922003145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 434922003146 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 434922003147 histidyl-tRNA synthetase; Region: hisS; TIGR00442 434922003148 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 434922003149 dimer interface [polypeptide binding]; other site 434922003150 motif 1; other site 434922003151 active site 434922003152 motif 2; other site 434922003153 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 434922003154 anticodon binding site; other site 434922003155 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 434922003156 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 434922003157 Fic family protein [Function unknown]; Region: COG3177 434922003158 Fic/DOC family; Region: Fic; cl00960 434922003159 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 434922003160 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 434922003161 FeS/SAM binding site; other site 434922003162 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 434922003163 substrate binding pocket [chemical binding]; other site 434922003164 chain length determination region; other site 434922003165 substrate-Mg2+ binding site; other site 434922003166 catalytic residues [active] 434922003167 aspartate-rich region 1; other site 434922003168 active site lid residues [active] 434922003169 aspartate-rich region 2; other site 434922003170 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 434922003171 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 434922003172 active site 434922003173 multimer interface [polypeptide binding]; other site 434922003174 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 434922003175 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 434922003176 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 434922003177 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 434922003178 Protein of unknown function (DUF493); Region: DUF493; cl01102 434922003179 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 434922003180 lipoyl synthase; Provisional; Region: PRK05481 434922003181 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 434922003182 FeS/SAM binding site; other site 434922003183 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 434922003184 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 434922003185 active site 434922003186 LssY C-terminus; Region: LssY_C; pfam14067 434922003187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 434922003188 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 434922003189 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 434922003190 active site 434922003191 ADP/pyrophosphate binding site [chemical binding]; other site 434922003192 dimerization interface [polypeptide binding]; other site 434922003193 allosteric effector site; other site 434922003194 fructose-1,6-bisphosphate binding site; other site 434922003195 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 434922003196 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 434922003197 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 434922003198 metal binding site [ion binding]; metal-binding site 434922003199 substrate binding pocket [chemical binding]; other site 434922003200 classical (c) SDRs; Region: SDR_c; cd05233 434922003201 NAD(P) binding site [chemical binding]; other site 434922003202 active site 434922003203 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 434922003204 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 434922003205 active site 434922003206 intersubunit interface [polypeptide binding]; other site 434922003207 catalytic residue [active] 434922003208 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 434922003209 putative catalytic residue [active] 434922003210 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 434922003211 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003212 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 434922003213 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 434922003214 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 434922003215 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 434922003216 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922003217 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922003218 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 434922003219 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922003220 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922003221 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 434922003222 IMP binding site; other site 434922003223 dimer interface [polypeptide binding]; other site 434922003224 interdomain contacts; other site 434922003225 partial ornithine binding site; other site 434922003226 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 434922003227 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 434922003228 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 434922003229 catalytic site [active] 434922003230 subunit interface [polypeptide binding]; other site 434922003231 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 434922003232 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 434922003233 putative substrate translocation pore; other site 434922003234 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 434922003235 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922003236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003237 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 434922003238 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 434922003239 putative substrate translocation pore; other site 434922003240 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922003241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003242 chaperone protein DnaJ; Provisional; Region: PRK10767 434922003243 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 434922003244 HSP70 interaction site [polypeptide binding]; other site 434922003245 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 434922003246 Zn binding sites [ion binding]; other site 434922003247 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 434922003248 dimer interface [polypeptide binding]; other site 434922003249 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 434922003250 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 434922003251 carboxyltransferase (CT) interaction site; other site 434922003252 biotinylation site [posttranslational modification]; other site 434922003253 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 434922003254 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922003255 heat shock protein GrpE; Provisional; Region: PRK14154 434922003256 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 434922003257 dimer interface [polypeptide binding]; other site 434922003258 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 434922003259 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 434922003260 oligomeric interface; other site 434922003261 putative active site [active] 434922003262 homodimer interface [polypeptide binding]; other site 434922003263 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 434922003264 recombination and repair protein; Provisional; Region: PRK10869 434922003265 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 434922003266 Walker A/P-loop; other site 434922003267 ATP binding site [chemical binding]; other site 434922003268 Q-loop/lid; other site 434922003269 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 434922003270 ABC transporter signature motif; other site 434922003271 Walker B; other site 434922003272 D-loop; other site 434922003273 H-loop/switch region; other site 434922003274 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 434922003275 metal binding site 2 [ion binding]; metal-binding site 434922003276 putative DNA binding helix; other site 434922003277 metal binding site 1 [ion binding]; metal-binding site 434922003278 dimer interface [polypeptide binding]; other site 434922003279 structural Zn2+ binding site [ion binding]; other site 434922003280 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 434922003281 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 434922003282 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 434922003283 putative coenzyme Q binding site [chemical binding]; other site 434922003284 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 434922003285 SmpB-tmRNA interface; other site 434922003286 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 434922003287 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 434922003288 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 434922003289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 434922003290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003291 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 434922003292 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 434922003293 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 434922003294 DNA binding residues [nucleotide binding] 434922003295 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 434922003296 IHF dimer interface [polypeptide binding]; other site 434922003297 IHF - DNA interface [nucleotide binding]; other site 434922003298 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 434922003299 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 434922003300 putative tRNA-binding site [nucleotide binding]; other site 434922003301 B3/4 domain; Region: B3_4; cl11458 434922003302 tRNA synthetase B5 domain; Region: B5; cl08394 434922003303 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 434922003304 dimer interface [polypeptide binding]; other site 434922003305 motif 1; other site 434922003306 motif 3; other site 434922003307 motif 2; other site 434922003308 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 434922003309 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 434922003310 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 434922003311 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 434922003312 dimer interface [polypeptide binding]; other site 434922003313 motif 1; other site 434922003314 active site 434922003315 motif 2; other site 434922003316 motif 3; other site 434922003317 ribosomal protein L20; Region: rpl20; CHL00068 434922003318 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 434922003319 23S rRNA binding site [nucleotide binding]; other site 434922003320 L21 binding site [polypeptide binding]; other site 434922003321 L13 binding site [polypeptide binding]; other site 434922003322 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003323 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 434922003324 translation initiation factor IF-3; Region: infC; TIGR00168 434922003325 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 434922003326 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 434922003327 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 434922003328 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 434922003329 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 434922003330 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 434922003331 active site 434922003332 dimer interface [polypeptide binding]; other site 434922003333 motif 1; other site 434922003334 motif 2; other site 434922003335 motif 3; other site 434922003336 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 434922003337 anticodon binding site; other site 434922003338 probable polyamine oxidase; Region: PLN02268 434922003339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003342 FOG: CBS domain [General function prediction only]; Region: COG0517 434922003343 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 434922003344 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 434922003345 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 434922003346 Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB...; Region: CYCLIN; cl00050 434922003347 EamA-like transporter family; Region: EamA; cl01037 434922003348 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 434922003349 EamA-like transporter family; Region: EamA; cl01037 434922003350 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 434922003351 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 434922003352 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 434922003353 generic binding surface II; other site 434922003354 generic binding surface I; other site 434922003355 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 434922003356 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 434922003357 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922003358 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 434922003359 RNA/DNA hybrid binding site [nucleotide binding]; other site 434922003360 active site 434922003361 GMP synthase; Reviewed; Region: guaA; PRK00074 434922003362 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 434922003363 AMP/PPi binding site [chemical binding]; other site 434922003364 candidate oxyanion hole; other site 434922003365 catalytic triad [active] 434922003366 potential glutamine specificity residues [chemical binding]; other site 434922003367 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 434922003368 ATP Binding subdomain [chemical binding]; other site 434922003369 Ligand Binding sites [chemical binding]; other site 434922003370 Dimerization subdomain; other site 434922003371 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 434922003372 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 434922003373 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 434922003374 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 434922003375 active site 434922003376 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 434922003377 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003378 putative substrate translocation pore; other site 434922003379 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 434922003380 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 434922003381 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 434922003382 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 434922003383 active site 434922003384 substrate binding site [chemical binding]; other site 434922003385 metal binding site [ion binding]; metal-binding site 434922003386 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 434922003387 dihydropteroate synthase; Region: DHPS; TIGR01496 434922003388 substrate binding pocket [chemical binding]; other site 434922003389 dimer interface [polypeptide binding]; other site 434922003390 inhibitor binding site; inhibition site 434922003391 FtsH Extracellular; Region: FtsH_ext; pfam06480 434922003392 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 434922003393 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 434922003394 Walker A motif; other site 434922003395 ATP binding site [chemical binding]; other site 434922003396 Walker B motif; other site 434922003397 arginine finger; other site 434922003398 Peptidase family M41; Region: Peptidase_M41; pfam01434 434922003399 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 434922003400 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 434922003401 Domain of unknown function DUF59; Region: DUF59; cl00941 434922003402 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 434922003403 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 434922003404 trimerization site [polypeptide binding]; other site 434922003405 active site 434922003406 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 434922003407 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 434922003408 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922003409 catalytic residue [active] 434922003410 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 434922003411 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 434922003412 FeS assembly ATPase SufC; Region: sufC; TIGR01978 434922003413 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 434922003414 Walker A/P-loop; other site 434922003415 ATP binding site [chemical binding]; other site 434922003416 Q-loop/lid; other site 434922003417 ABC transporter signature motif; other site 434922003418 Walker B; other site 434922003419 D-loop; other site 434922003420 H-loop/switch region; other site 434922003421 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 434922003422 putative ABC transporter; Region: ycf24; CHL00085 434922003423 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 434922003424 Helix-turn-helix domains; Region: HTH; cl00088 434922003425 Helix-turn-helix domains; Region: HTH; cl00088 434922003426 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 434922003427 Cation efflux family; Region: Cation_efflux; cl00316 434922003428 exonuclease I; Provisional; Region: sbcB; PRK11779 434922003429 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 434922003430 active site 434922003431 catalytic site [active] 434922003432 substrate binding site [chemical binding]; other site 434922003433 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 434922003434 Tetratricopeptide repeat; Region: TPR_12; pfam13424 434922003435 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 434922003436 binding surface 434922003437 TPR motif; other site 434922003438 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 434922003439 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 434922003440 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 434922003441 chorismate binding enzyme; Region: Chorismate_bind; cl10555 434922003442 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 434922003443 nucleoside/Zn binding site; other site 434922003444 dimer interface [polypeptide binding]; other site 434922003445 catalytic motif [active] 434922003446 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 434922003447 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 434922003448 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 434922003449 synthetase active site [active] 434922003450 NTP binding site [chemical binding]; other site 434922003451 metal binding site [ion binding]; metal-binding site 434922003452 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 434922003453 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 434922003454 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 434922003455 active site 434922003456 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 434922003457 protein binding site [polypeptide binding]; other site 434922003458 zinc metallopeptidase RseP; Provisional; Region: PRK10779 434922003459 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 434922003460 putative substrate binding region [chemical binding]; other site 434922003461 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 434922003462 active site 434922003463 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 434922003464 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 434922003465 dimer interface [polypeptide binding]; other site 434922003466 ADP-ribose binding site [chemical binding]; other site 434922003467 active site 434922003468 nudix motif; other site 434922003469 metal binding site [ion binding]; metal-binding site 434922003470 HemN family oxidoreductase; Provisional; Region: PRK05660 434922003471 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 434922003472 FeS/SAM binding site; other site 434922003473 HemN C-terminal domain; Region: HemN_C; pfam06969 434922003474 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 434922003475 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 434922003476 ligand binding site [chemical binding]; other site 434922003477 CAAX protease self-immunity; Region: Abi; cl00558 434922003478 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 434922003479 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 434922003480 dimer interface [polypeptide binding]; other site 434922003481 [2Fe-2S] cluster binding site [ion binding]; other site 434922003482 Quinolinate synthetase A protein; Region: NadA; cl00420 434922003483 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 434922003484 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 434922003485 FAD binding pocket [chemical binding]; other site 434922003486 FAD binding motif [chemical binding]; other site 434922003487 phosphate binding motif [ion binding]; other site 434922003488 beta-alpha-beta structure motif; other site 434922003489 NAD binding pocket [chemical binding]; other site 434922003490 Iron coordination center [ion binding]; other site 434922003491 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 434922003492 putative GSH binding site [chemical binding]; other site 434922003493 catalytic residues [active] 434922003494 BolA-like protein; Region: BolA; cl00386 434922003495 Ferredoxin [Energy production and conversion]; Region: COG1146 434922003496 4Fe-4S binding domain; Region: Fer4; cl02805 434922003497 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 434922003498 YdjC-like protein; Region: YdjC; cl01344 434922003499 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 434922003500 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 434922003501 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 434922003502 Ligand binding site; other site 434922003503 Putative Catalytic site; other site 434922003504 DXD motif; other site 434922003505 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 434922003506 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 434922003507 substrate binding site [chemical binding]; other site 434922003508 oxyanion hole (OAH) forming residues; other site 434922003509 trimer interface [polypeptide binding]; other site 434922003510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003511 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 434922003512 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 434922003513 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 434922003514 dimer interface [polypeptide binding]; other site 434922003515 active site 434922003516 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 434922003517 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 434922003518 active site 434922003519 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 434922003520 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 434922003521 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 434922003522 interface (dimer of trimers) [polypeptide binding]; other site 434922003523 Substrate-binding/catalytic site; other site 434922003524 Zn-binding sites [ion binding]; other site 434922003525 amino acid transporter; Region: 2A0306; TIGR00909 434922003526 Spore germination protein; Region: Spore_permease; cl15802 434922003527 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 434922003528 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 434922003529 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 434922003530 FeS/SAM binding site; other site 434922003531 TRAM domain; Region: TRAM; cl01282 434922003532 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 434922003533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003534 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 434922003535 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 434922003536 putative substrate translocation pore; other site 434922003537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003538 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 434922003539 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 434922003540 Transporter associated domain; Region: CorC_HlyC; cl08393 434922003541 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 434922003542 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 434922003543 putative active site [active] 434922003544 catalytic triad [active] 434922003545 putative dimer interface [polypeptide binding]; other site 434922003546 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922003547 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003548 Phytochelatin synthase; Region: Phytochelatin; pfam05023 434922003549 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 434922003550 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 434922003551 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 434922003552 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 434922003553 HIGH motif; other site 434922003554 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434922003555 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 434922003556 active site 434922003557 KMSKS motif; other site 434922003558 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 434922003559 tRNA binding surface [nucleotide binding]; other site 434922003560 Lipopolysaccharide-assembly; Region: LptE; cl01125 434922003561 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 434922003562 DNA polymerase III, delta subunit; Region: holA; TIGR01128 434922003563 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 434922003564 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 434922003565 active site 434922003566 (T/H)XGH motif; other site 434922003567 Oligomerisation domain; Region: Oligomerisation; cl00519 434922003568 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 434922003569 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 434922003570 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 434922003571 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 434922003572 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 434922003573 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 434922003574 Transglycosylase SLT domain; Region: SLT_2; pfam13406 434922003575 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 434922003576 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922003577 Tetratricopeptide repeat; Region: TPR_16; pfam13432 434922003578 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 434922003579 binding surface 434922003580 TPR motif; other site 434922003581 TPR repeat; Region: TPR_11; pfam13414 434922003582 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 434922003583 binding surface 434922003584 TPR motif; other site 434922003585 Tetratricopeptide repeat; Region: TPR_12; pfam13424 434922003586 TPR repeat; Region: TPR_11; pfam13414 434922003587 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 434922003588 binding surface 434922003589 TPR motif; other site 434922003590 TPR repeat; Region: TPR_11; pfam13414 434922003591 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 434922003592 binding surface 434922003593 TPR motif; other site 434922003594 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 434922003595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003596 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 434922003597 S-adenosylmethionine binding site [chemical binding]; other site 434922003598 Peptidase family M48; Region: Peptidase_M48; cl12018 434922003599 LemA family; Region: LemA; cl00742 434922003600 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 434922003601 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 434922003602 nucleotide binding pocket [chemical binding]; other site 434922003603 K-X-D-G motif; other site 434922003604 catalytic site [active] 434922003605 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 434922003606 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 434922003607 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 434922003608 Dimer interface [polypeptide binding]; other site 434922003609 BRCT sequence motif; other site 434922003610 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 434922003611 FtsZ protein binding site [polypeptide binding]; other site 434922003612 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 434922003613 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 434922003614 Walker A/P-loop; other site 434922003615 ATP binding site [chemical binding]; other site 434922003616 Q-loop/lid; other site 434922003617 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 434922003618 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 434922003619 ABC transporter signature motif; other site 434922003620 Walker B; other site 434922003621 D-loop; other site 434922003622 H-loop/switch region; other site 434922003623 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 434922003624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 434922003625 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922003626 Sel1 repeat; Region: Sel1; cl02723 434922003627 hypothetical protein; Reviewed; Region: PRK11901 434922003628 Sporulation related domain; Region: SPOR; cl10051 434922003629 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 434922003630 Mg++ binding site [ion binding]; other site 434922003631 putative catalytic motif [active] 434922003632 substrate binding site [chemical binding]; other site 434922003633 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 434922003634 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 434922003635 active site 434922003636 dimer interface [polypeptide binding]; other site 434922003637 tetratricopeptide repeat protein; Provisional; Region: PRK11788 434922003638 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 434922003639 binding surface 434922003640 TPR motif; other site 434922003641 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 434922003642 binding surface 434922003643 TPR motif; other site 434922003644 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 434922003645 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 434922003646 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 434922003647 RNA binding site [nucleotide binding]; other site 434922003648 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 434922003649 RNA binding site [nucleotide binding]; other site 434922003650 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 434922003651 RNA binding site [nucleotide binding]; other site 434922003652 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 434922003653 RNA binding site [nucleotide binding]; other site 434922003654 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 434922003655 RNA binding site [nucleotide binding]; other site 434922003656 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 434922003657 RNA binding site [nucleotide binding]; other site 434922003658 cytidylate kinase; Provisional; Region: cmk; PRK00023 434922003659 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 434922003660 CMP-binding site; other site 434922003661 The sites determining sugar specificity; other site 434922003662 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 434922003663 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 434922003664 hinge; other site 434922003665 active site 434922003666 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 434922003667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922003668 catalytic residue [active] 434922003669 DNA gyrase subunit A; Validated; Region: PRK05560 434922003670 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 434922003671 CAP-like domain; other site 434922003672 active site 434922003673 primary dimer interface [polypeptide binding]; other site 434922003674 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003675 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003676 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003677 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003678 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003679 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003680 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 434922003681 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 434922003682 active site 434922003683 putative substrate binding pocket [chemical binding]; other site 434922003684 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 434922003685 active site 434922003686 catalytic residues [active] 434922003687 metal binding site [ion binding]; metal-binding site 434922003688 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 434922003689 excinuclease ABC subunit B; Provisional; Region: PRK05298 434922003690 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 434922003691 ATP binding site [chemical binding]; other site 434922003692 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 434922003693 nucleotide binding region [chemical binding]; other site 434922003694 ATP-binding site [chemical binding]; other site 434922003695 Ultra-violet resistance protein B; Region: UvrB; pfam12344 434922003696 UvrB/uvrC motif; Region: UVR; pfam02151 434922003697 aspartate aminotransferase; Provisional; Region: PRK05764 434922003698 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 434922003699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922003700 homodimer interface [polypeptide binding]; other site 434922003701 catalytic residue [active] 434922003702 Condensation domain; Region: Condensation; pfam00668 434922003703 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 434922003704 active site 434922003705 metal binding site [ion binding]; metal-binding site 434922003706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003707 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 434922003708 Walker A/P-loop; other site 434922003709 ATP binding site [chemical binding]; other site 434922003710 Q-loop/lid; other site 434922003711 ABC transporter signature motif; other site 434922003712 Walker B; other site 434922003713 D-loop; other site 434922003714 H-loop/switch region; other site 434922003715 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 434922003716 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 434922003717 putative substrate translocation pore; other site 434922003718 Ceramidase; Region: Ceramidase; pfam05875 434922003719 Fructose-1,6-bisphosphatase; Region: FBPase_3; cl00862 434922003720 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 434922003721 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 434922003722 putative active site [active] 434922003723 Zn binding site [ion binding]; other site 434922003724 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 434922003725 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003726 putative substrate translocation pore; other site 434922003727 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003728 Helix-turn-helix domains; Region: HTH; cl00088 434922003729 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 434922003730 DHH family; Region: DHH; pfam01368 434922003731 DHHA1 domain; Region: DHHA1; pfam02272 434922003732 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 434922003733 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 434922003734 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 434922003735 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 434922003736 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 434922003737 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 434922003738 glutamine synthetase; Region: PLN02284 434922003739 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 434922003740 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 434922003741 active site 434922003742 DNA polymerase III subunit delta'; Validated; Region: PRK05707 434922003743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003744 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 434922003745 thymidylate kinase; Validated; Region: tmk; PRK00698 434922003746 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 434922003747 TMP-binding site; other site 434922003748 ATP-binding site [chemical binding]; other site 434922003749 YceG-like family; Region: YceG; pfam02618 434922003750 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 434922003751 dimerization interface [polypeptide binding]; other site 434922003752 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 434922003753 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 434922003754 dimer interface [polypeptide binding]; other site 434922003755 active site 434922003756 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922003757 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 434922003758 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 434922003759 NAD(P) binding site [chemical binding]; other site 434922003760 homotetramer interface [polypeptide binding]; other site 434922003761 homodimer interface [polypeptide binding]; other site 434922003762 active site 434922003763 Acyl transferase domain; Region: Acyl_transf_1; cl08282 434922003764 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 434922003765 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 434922003766 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 434922003767 dimer interface [polypeptide binding]; other site 434922003768 active site 434922003769 CoA binding pocket [chemical binding]; other site 434922003770 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 434922003771 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 434922003772 hypothetical protein; Provisional; Region: PRK08609 434922003773 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 434922003774 active site 434922003775 primer binding site [nucleotide binding]; other site 434922003776 NTP binding site [chemical binding]; other site 434922003777 metal binding triad [ion binding]; metal-binding site 434922003778 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 434922003779 dimerization interface [polypeptide binding]; other site 434922003780 substrate binding site [chemical binding]; other site 434922003781 active site 434922003782 calcium binding site [ion binding]; other site 434922003783 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434922003784 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 434922003785 active site 434922003786 metal binding site [ion binding]; metal-binding site 434922003787 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 434922003788 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 434922003789 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 434922003790 active site 434922003791 ribonuclease E; Reviewed; Region: rne; PRK10811 434922003792 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 434922003793 homodimer interface [polypeptide binding]; other site 434922003794 oligonucleotide binding site [chemical binding]; other site 434922003795 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434922003796 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 434922003797 dimer interface [polypeptide binding]; other site 434922003798 conserved gate region; other site 434922003799 putative PBP binding loops; other site 434922003800 ABC-ATPase subunit interface; other site 434922003801 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434922003802 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 434922003803 dimer interface [polypeptide binding]; other site 434922003804 conserved gate region; other site 434922003805 putative PBP binding loops; other site 434922003806 ABC-ATPase subunit interface; other site 434922003807 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 434922003808 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 434922003809 substrate binding pocket [chemical binding]; other site 434922003810 membrane-bound complex binding site; other site 434922003811 hinge residues; other site 434922003812 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 434922003813 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922003814 Walker A/P-loop; other site 434922003815 ATP binding site [chemical binding]; other site 434922003816 Q-loop/lid; other site 434922003817 ABC transporter signature motif; other site 434922003818 Walker B; other site 434922003819 D-loop; other site 434922003820 H-loop/switch region; other site 434922003821 arginine repressor; Provisional; Region: PRK05066 434922003822 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 434922003823 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 434922003824 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 434922003825 Ligand binding site; other site 434922003826 oligomer interface; other site 434922003827 Trm112p-like protein; Region: Trm112p; cl01066 434922003828 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 434922003829 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 434922003830 IHF dimer interface [polypeptide binding]; other site 434922003831 IHF - DNA interface [nucleotide binding]; other site 434922003832 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 434922003833 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 434922003834 ATP binding site [chemical binding]; other site 434922003835 putative Mg++ binding site [ion binding]; other site 434922003836 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 434922003837 nucleotide binding region [chemical binding]; other site 434922003838 ATP-binding site [chemical binding]; other site 434922003839 RQC domain; Region: RQC; cl09632 434922003840 HRDC domain; Region: HRDC; cl02578 434922003841 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922003842 active site 434922003843 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 434922003844 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 434922003845 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 434922003846 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 434922003847 S-adenosylmethionine binding site [chemical binding]; other site 434922003848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003849 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 434922003850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003851 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434922003852 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 434922003853 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 434922003854 E3 interaction surface; other site 434922003855 lipoyl attachment site [posttranslational modification]; other site 434922003856 e3 binding domain; Region: E3_binding; pfam02817 434922003857 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 434922003858 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 434922003859 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 434922003860 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 434922003861 dimer interface [polypeptide binding]; other site 434922003862 TPP-binding site [chemical binding]; other site 434922003863 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 434922003864 CobD/Cbib protein; Region: CobD_Cbib; cl00561 434922003865 CobD/Cbib protein; Region: CobD_Cbib; cl00561 434922003866 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 434922003867 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 434922003868 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 434922003869 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 434922003870 catalytic residues [active] 434922003871 adenylate kinase; Reviewed; Region: adk; PRK00279 434922003872 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 434922003873 AMP-binding site [chemical binding]; other site 434922003874 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 434922003875 Type II transport protein GspH; Region: GspH; pfam12019 434922003876 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 434922003877 Domain of unknown function DUF21; Region: DUF21; pfam01595 434922003878 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 434922003879 Transporter associated domain; Region: CorC_HlyC; cl08393 434922003880 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 434922003881 signal recognition particle protein; Provisional; Region: PRK10867 434922003882 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 434922003883 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 434922003884 P loop; other site 434922003885 GTP binding site [chemical binding]; other site 434922003886 Signal peptide binding domain; Region: SRP_SPB; pfam02978 434922003887 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 434922003888 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922003889 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 434922003890 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922003891 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922003892 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 434922003893 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 434922003894 RimM N-terminal domain; Region: RimM; pfam01782 434922003895 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 434922003896 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 434922003897 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 434922003898 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 434922003899 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 434922003900 DNA binding site [nucleotide binding] 434922003901 active site 434922003902 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003903 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434922003904 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003905 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 434922003906 putative substrate translocation pore; other site 434922003907 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 434922003908 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 434922003909 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 434922003910 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 434922003911 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 434922003912 dimer interface [polypeptide binding]; other site 434922003913 putative anticodon binding site; other site 434922003914 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 434922003915 motif 1; other site 434922003916 active site 434922003917 motif 2; other site 434922003918 motif 3; other site 434922003919 RF-1 domain; Region: RF-1; cl02875 434922003920 RF-1 domain; Region: RF-1; cl02875 434922003921 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 434922003922 RF-1 domain; Region: RF-1; cl02875 434922003923 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 434922003924 oligomerization interface [polypeptide binding]; other site 434922003925 active site 434922003926 metal binding site [ion binding]; metal-binding site 434922003927 pantoate--beta-alanine ligase; Region: panC; TIGR00018 434922003928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434922003929 active site 434922003930 nucleotide binding site [chemical binding]; other site 434922003931 HIGH motif; other site 434922003932 KMSKS motif; other site 434922003933 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 434922003934 tetramerization interface [polypeptide binding]; other site 434922003935 active site 434922003936 IucA / IucC family; Region: IucA_IucC; pfam04183 434922003937 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 434922003938 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 434922003939 NodB motif; other site 434922003940 putative active site [active] 434922003941 putative catalytic site [active] 434922003942 putative Zn binding site [ion binding]; other site 434922003943 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 434922003944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922003945 catalytic residue [active] 434922003946 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 434922003947 nucleoside/Zn binding site; other site 434922003948 dimer interface [polypeptide binding]; other site 434922003949 catalytic motif [active] 434922003950 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 434922003951 Fic/DOC family; Region: Fic; cl00960 434922003952 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 434922003953 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922003954 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922003955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434922003956 Coenzyme A binding pocket [chemical binding]; other site 434922003957 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 434922003958 lipoprotein signal peptidase; Provisional; Region: PRK14787 434922003959 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 434922003960 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434922003961 active site 434922003962 HIGH motif; other site 434922003963 nucleotide binding site [chemical binding]; other site 434922003964 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434922003965 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 434922003966 active site 434922003967 KMSKS motif; other site 434922003968 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 434922003969 tRNA binding surface [nucleotide binding]; other site 434922003970 anticodon binding site; other site 434922003971 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 434922003972 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 434922003973 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 434922003974 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 434922003975 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 434922003976 active site 434922003977 Riboflavin kinase; Region: Flavokinase; cl03312 434922003978 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 434922003979 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 434922003980 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 434922003981 GTP1/OBG; Region: GTP1_OBG; pfam01018 434922003982 Obg GTPase; Region: Obg; cd01898 434922003983 G1 box; other site 434922003984 GTP/Mg2+ binding site [chemical binding]; other site 434922003985 Switch I region; other site 434922003986 G2 box; other site 434922003987 G3 box; other site 434922003988 Switch II region; other site 434922003989 G4 box; other site 434922003990 G5 box; other site 434922003991 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 434922003992 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 434922003993 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922003994 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922003995 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 434922003996 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 434922003997 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 434922003998 substrate binding pocket [chemical binding]; other site 434922003999 chain length determination region; other site 434922004000 substrate-Mg2+ binding site; other site 434922004001 catalytic residues [active] 434922004002 aspartate-rich region 1; other site 434922004003 active site lid residues [active] 434922004004 aspartate-rich region 2; other site 434922004005 Transposase IS200 like; Region: Y1_Tnp; cl00848 434922004006 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 434922004007 RHS Repeat; Region: RHS_repeat; cl11982 434922004008 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 434922004009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922004010 active site 434922004011 phosphorylation site [posttranslational modification] 434922004012 intermolecular recognition site; other site 434922004013 dimerization interface [polypeptide binding]; other site 434922004014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004015 ATP binding site [chemical binding]; other site 434922004016 Mg2+ binding site [ion binding]; other site 434922004017 G-X-G motif; other site 434922004018 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 434922004019 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 434922004020 amidase catalytic site [active] 434922004021 Zn binding residues [ion binding]; other site 434922004022 substrate binding site [chemical binding]; other site 434922004023 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 434922004024 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 434922004025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004026 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 434922004027 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 434922004028 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922004029 catalytic residue [active] 434922004030 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 434922004031 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 434922004032 putative active site [active] 434922004033 putative catalytic site [active] 434922004034 Fic family protein [Function unknown]; Region: COG3177 434922004035 Fic/DOC family; Region: Fic; cl00960 434922004036 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 434922004037 putative substrate translocation pore; other site 434922004038 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 434922004039 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 434922004040 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 434922004041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922004042 active site 434922004043 phosphorylation site [posttranslational modification] 434922004044 intermolecular recognition site; other site 434922004045 dimerization interface [polypeptide binding]; other site 434922004046 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 434922004047 DNA binding site [nucleotide binding] 434922004048 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 434922004049 dimer interface [polypeptide binding]; other site 434922004050 phosphorylation site [posttranslational modification] 434922004051 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004052 ATP binding site [chemical binding]; other site 434922004053 Mg2+ binding site [ion binding]; other site 434922004054 G-X-G motif; other site 434922004055 phosphate:H+ symporter; Region: 2A0109; TIGR00887 434922004056 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 434922004057 putative substrate translocation pore; other site 434922004058 Peptidase family U32; Region: Peptidase_U32; cl03113 434922004059 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 434922004060 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 434922004061 metal binding site [ion binding]; metal-binding site 434922004062 dimer interface [polypeptide binding]; other site 434922004063 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 434922004064 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 434922004065 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004066 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 434922004067 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004068 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 434922004069 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004070 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004071 amino acid transporter; Region: 2A0306; TIGR00909 434922004072 Spore germination protein; Region: Spore_permease; cl15802 434922004073 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 434922004074 putative inner membrane peptidase; Provisional; Region: PRK11778 434922004075 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 434922004076 tandem repeat interface [polypeptide binding]; other site 434922004077 oligomer interface [polypeptide binding]; other site 434922004078 active site residues [active] 434922004079 Cation efflux family; Region: Cation_efflux; cl00316 434922004080 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 434922004081 putative binding surface; other site 434922004082 active site 434922004083 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 434922004084 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 434922004085 S-adenosylmethionine binding site [chemical binding]; other site 434922004086 phosphoglycolate phosphatase; Provisional; Region: PRK13222 434922004087 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 434922004088 motif II; other site 434922004089 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 434922004090 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 434922004091 putative substrate translocation pore; other site 434922004092 xylulokinase; Provisional; Region: PRK15027 434922004093 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 434922004094 N- and C-terminal domain interface [polypeptide binding]; other site 434922004095 active site 434922004096 catalytic site [active] 434922004097 metal binding site [ion binding]; metal-binding site 434922004098 xylulose binding site [chemical binding]; other site 434922004099 putative ATP binding site [chemical binding]; other site 434922004100 homodimer interface [polypeptide binding]; other site 434922004101 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 434922004102 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 434922004103 active site 434922004104 ADP/pyrophosphate binding site [chemical binding]; other site 434922004105 dimerization interface [polypeptide binding]; other site 434922004106 allosteric effector site; other site 434922004107 fructose-1,6-bisphosphate binding site; other site 434922004108 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 434922004109 aminopeptidase N; Provisional; Region: pepN; PRK14015 434922004110 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 434922004111 active site 434922004112 Zn binding site [ion binding]; other site 434922004113 Helix-turn-helix domains; Region: HTH; cl00088 434922004114 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 434922004115 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 434922004116 purine monophosphate binding site [chemical binding]; other site 434922004117 dimer interface [polypeptide binding]; other site 434922004118 putative catalytic residues [active] 434922004119 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 434922004120 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 434922004121 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 434922004122 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 434922004123 dimer interface [polypeptide binding]; other site 434922004124 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 434922004125 substrate binding site [chemical binding]; other site 434922004126 ATP binding site [chemical binding]; other site 434922004127 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 434922004128 thiamine phosphate binding site [chemical binding]; other site 434922004129 active site 434922004130 pyrophosphate binding site [ion binding]; other site 434922004131 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 434922004132 ThiS interaction site; other site 434922004133 putative active site [active] 434922004134 tetramer interface [polypeptide binding]; other site 434922004135 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 434922004136 thiS-thiF/thiG interaction site; other site 434922004137 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 434922004138 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 434922004139 ThiC-associated domain; Region: ThiC-associated; pfam13667 434922004140 ThiC family; Region: ThiC; cl08031 434922004141 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 434922004142 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 434922004143 ATP-grasp domain; Region: ATP-grasp_4; cl03087 434922004144 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 434922004145 acyl-CoA synthetase; Validated; Region: PRK05850 434922004146 AMP-binding enzyme; Region: AMP-binding; cl15778 434922004147 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922004148 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 434922004149 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 434922004150 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 434922004151 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922004152 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 434922004153 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 434922004154 active site 434922004155 catalytic site [active] 434922004156 substrate binding site [chemical binding]; other site 434922004157 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 434922004158 RNA/DNA hybrid binding site [nucleotide binding]; other site 434922004159 active site 434922004160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004162 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 434922004163 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 434922004164 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 434922004165 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922004166 catalytic residue [active] 434922004167 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 434922004168 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 434922004169 putative peptidoglycan binding site; other site 434922004170 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 434922004171 putative peptidoglycan binding site; other site 434922004172 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 434922004173 putative peptidoglycan binding site; other site 434922004174 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922004175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 434922004176 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 434922004177 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 434922004178 homodimer interface [polypeptide binding]; other site 434922004179 NADP binding site [chemical binding]; other site 434922004180 substrate binding site [chemical binding]; other site 434922004181 heat shock protein 90; Provisional; Region: PRK05218 434922004182 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004183 ATP binding site [chemical binding]; other site 434922004184 Mg2+ binding site [ion binding]; other site 434922004185 G-X-G motif; other site 434922004186 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 434922004187 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 434922004188 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 434922004189 generic binding surface II; other site 434922004190 ssDNA binding site; other site 434922004191 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 434922004192 ATP binding site [chemical binding]; other site 434922004193 putative Mg++ binding site [ion binding]; other site 434922004194 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 434922004195 nucleotide binding region [chemical binding]; other site 434922004196 ATP-binding site [chemical binding]; other site 434922004197 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 434922004198 homotrimer interaction site [polypeptide binding]; other site 434922004199 putative active site [active] 434922004200 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 434922004201 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 434922004202 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 434922004203 synthetase active site [active] 434922004204 NTP binding site [chemical binding]; other site 434922004205 metal binding site [ion binding]; metal-binding site 434922004206 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 434922004207 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 434922004208 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 434922004209 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 434922004210 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 434922004211 catalytic site [active] 434922004212 G-X2-G-X-G-K; other site 434922004213 hypothetical protein; Provisional; Region: PRK11820 434922004214 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 434922004215 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 434922004216 ribonuclease PH; Reviewed; Region: rph; PRK00173 434922004217 Ribonuclease PH; Region: RNase_PH_bact; cd11362 434922004218 hexamer interface [polypeptide binding]; other site 434922004219 active site 434922004220 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 434922004221 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 434922004222 putative active site [active] 434922004223 putative catalytic site [active] 434922004224 putative DNA binding site [nucleotide binding]; other site 434922004225 putative phosphate binding site [ion binding]; other site 434922004226 metal binding site A [ion binding]; metal-binding site 434922004227 putative AP binding site [nucleotide binding]; other site 434922004228 putative metal binding site B [ion binding]; other site 434922004229 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 434922004230 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922004231 active site 434922004232 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922004233 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 434922004234 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 434922004235 active site 434922004236 substrate binding site [chemical binding]; other site 434922004237 metal binding site [ion binding]; metal-binding site 434922004238 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 434922004239 trimer interface [polypeptide binding]; other site 434922004240 active site 434922004241 hypothetical protein; Reviewed; Region: PRK00024 434922004242 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 434922004243 MPN+ (JAMM) motif; other site 434922004244 Zinc-binding site [ion binding]; other site 434922004245 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 434922004246 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 434922004247 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 434922004248 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 434922004249 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 434922004250 active site 434922004251 (T/H)XGH motif; other site 434922004252 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 434922004253 catalytic center binding site [active] 434922004254 ATP binding site [chemical binding]; other site 434922004255 poly(A) polymerase; Region: pcnB; TIGR01942 434922004256 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 434922004257 active site 434922004258 NTP binding site [chemical binding]; other site 434922004259 metal binding triad [ion binding]; metal-binding site 434922004260 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 434922004261 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 434922004262 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 434922004263 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 434922004264 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 434922004265 Initiator Replication protein; Region: Rep_3; cl03080 434922004266 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 434922004267 Zn binding site [ion binding]; other site 434922004268 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 434922004269 catalytic motif [active] 434922004270 Catalytic residue [active] 434922004271 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922004272 Helix-turn-helix domains; Region: HTH; cl00088 434922004273 Integrase core domain; Region: rve; cl01316 434922004274 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 434922004275 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 434922004276 heme binding pocket [chemical binding]; other site 434922004277 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 434922004278 domain interactions; other site 434922004279 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 434922004280 Amidinotransferase; Region: Amidinotransf; cl12043 434922004281 MarC family integral membrane protein; Region: MarC; cl00919 434922004282 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 434922004283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434922004284 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 434922004285 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 434922004286 substrate binding site [chemical binding]; other site 434922004287 active site 434922004288 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 434922004289 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 434922004290 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 434922004291 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 434922004292 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 434922004293 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922004294 putative substrate translocation pore; other site 434922004295 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 434922004296 dimer interface [polypeptide binding]; other site 434922004297 ssDNA binding site [nucleotide binding]; other site 434922004298 tetramer (dimer of dimers) interface [polypeptide binding]; other site 434922004299 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 434922004300 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 434922004301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004302 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 434922004303 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 434922004304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 434922004305 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 434922004306 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 434922004307 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 434922004308 alphaNTD homodimer interface [polypeptide binding]; other site 434922004309 alphaNTD - beta interaction site [polypeptide binding]; other site 434922004310 alphaNTD - beta' interaction site [polypeptide binding]; other site 434922004311 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 434922004312 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 434922004313 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 434922004314 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 434922004315 RNA binding surface [nucleotide binding]; other site 434922004316 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 434922004317 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 434922004318 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 434922004319 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 434922004320 SecY translocase; Region: SecY; pfam00344 434922004321 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 434922004322 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 434922004323 23S rRNA binding site [nucleotide binding]; other site 434922004324 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 434922004325 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 434922004326 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 434922004327 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 434922004328 5S rRNA interface [nucleotide binding]; other site 434922004329 23S rRNA interface [nucleotide binding]; other site 434922004330 L5 interface [polypeptide binding]; other site 434922004331 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 434922004332 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 434922004333 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 434922004334 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 434922004335 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 434922004336 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 434922004337 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 434922004338 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 434922004339 KOW motif; Region: KOW; cl00354 434922004340 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 434922004341 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 434922004342 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 434922004343 L23 interface [polypeptide binding]; other site 434922004344 signal recognition particle (SRP54) interaction site; other site 434922004345 trigger factor interaction site; other site 434922004346 23S rRNA interface [nucleotide binding]; other site 434922004347 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 434922004348 23S rRNA interface [nucleotide binding]; other site 434922004349 5S rRNA interface [nucleotide binding]; other site 434922004350 putative antibiotic binding site [chemical binding]; other site 434922004351 L25 interface [polypeptide binding]; other site 434922004352 L27 interface [polypeptide binding]; other site 434922004353 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 434922004354 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 434922004355 G-X-X-G motif; other site 434922004356 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 434922004357 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 434922004358 protein-rRNA interface [nucleotide binding]; other site 434922004359 putative translocon binding site; other site 434922004360 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 434922004361 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 434922004362 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 434922004363 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 434922004364 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 434922004365 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 434922004366 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 434922004367 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 434922004368 elongation factor Tu; Reviewed; Region: PRK00049 434922004369 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 434922004370 G1 box; other site 434922004371 GEF interaction site [polypeptide binding]; other site 434922004372 GTP/Mg2+ binding site [chemical binding]; other site 434922004373 Switch I region; other site 434922004374 G2 box; other site 434922004375 G3 box; other site 434922004376 Switch II region; other site 434922004377 G4 box; other site 434922004378 G5 box; other site 434922004379 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 434922004380 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 434922004381 Antibiotic Binding Site [chemical binding]; other site 434922004382 elongation factor G; Reviewed; Region: PRK00007 434922004383 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 434922004384 G1 box; other site 434922004385 putative GEF interaction site [polypeptide binding]; other site 434922004386 GTP/Mg2+ binding site [chemical binding]; other site 434922004387 Switch I region; other site 434922004388 G2 box; other site 434922004389 G3 box; other site 434922004390 Switch II region; other site 434922004391 G4 box; other site 434922004392 G5 box; other site 434922004393 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 434922004394 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 434922004395 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 434922004396 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 434922004397 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 434922004398 S17 interaction site [polypeptide binding]; other site 434922004399 S8 interaction site; other site 434922004400 16S rRNA interaction site [nucleotide binding]; other site 434922004401 streptomycin interaction site [chemical binding]; other site 434922004402 23S rRNA interaction site [nucleotide binding]; other site 434922004403 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 434922004404 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 434922004405 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 434922004406 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 434922004407 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 434922004408 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 434922004409 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 434922004410 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 434922004411 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 434922004412 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 434922004413 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 434922004414 DNA binding site [nucleotide binding] 434922004415 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 434922004416 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 434922004417 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 434922004418 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 434922004419 RPB12 interaction site [polypeptide binding]; other site 434922004420 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 434922004421 RPB11 interaction site [polypeptide binding]; other site 434922004422 RPB12 interaction site [polypeptide binding]; other site 434922004423 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 434922004424 RPB3 interaction site [polypeptide binding]; other site 434922004425 RPB1 interaction site [polypeptide binding]; other site 434922004426 RPB11 interaction site [polypeptide binding]; other site 434922004427 RPB10 interaction site [polypeptide binding]; other site 434922004428 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 434922004429 core dimer interface [polypeptide binding]; other site 434922004430 peripheral dimer interface [polypeptide binding]; other site 434922004431 L10 interface [polypeptide binding]; other site 434922004432 L11 interface [polypeptide binding]; other site 434922004433 putative EF-Tu interaction site [polypeptide binding]; other site 434922004434 putative EF-G interaction site [polypeptide binding]; other site 434922004435 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 434922004436 23S rRNA interface [nucleotide binding]; other site 434922004437 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 434922004438 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 434922004439 mRNA/rRNA interface [nucleotide binding]; other site 434922004440 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 434922004441 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 434922004442 23S rRNA interface [nucleotide binding]; other site 434922004443 L7/L12 interface [polypeptide binding]; other site 434922004444 putative thiostrepton binding site; other site 434922004445 L25 interface [polypeptide binding]; other site 434922004446 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 434922004447 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 434922004448 putative homodimer interface [polypeptide binding]; other site 434922004449 KOW motif; Region: KOW; cl00354 434922004450 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 434922004451 elongation factor Tu; Reviewed; Region: PRK00049 434922004452 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 434922004453 G1 box; other site 434922004454 GEF interaction site [polypeptide binding]; other site 434922004455 GTP/Mg2+ binding site [chemical binding]; other site 434922004456 Switch I region; other site 434922004457 G2 box; other site 434922004458 G3 box; other site 434922004459 Switch II region; other site 434922004460 G4 box; other site 434922004461 G5 box; other site 434922004462 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 434922004463 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 434922004464 Antibiotic Binding Site [chemical binding]; other site 434922004465 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 434922004466 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 434922004467 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 434922004468 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 434922004469 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 434922004470 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 434922004471 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 434922004472 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 434922004473 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 434922004474 NlpC/P60 family; Region: NLPC_P60; cl11438 434922004475 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 434922004476 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 434922004477 EamA-like transporter family; Region: EamA; cl01037 434922004478 EamA-like transporter family; Region: EamA; cl01037 434922004479 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 434922004480 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922004481 active site 434922004482 HIGH motif; other site 434922004483 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922004484 active site 434922004485 KMSKS motif; other site 434922004486 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 434922004487 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 434922004488 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 434922004489 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 434922004490 active site 434922004491 catalytic residues [active] 434922004492 pantothenate kinase; Provisional; Region: PRK05439 434922004493 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 434922004494 ATP-binding site [chemical binding]; other site 434922004495 CoA-binding site [chemical binding]; other site 434922004496 Mg2+-binding site [ion binding]; other site 434922004497 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 434922004498 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 434922004499 Surface antigen; Region: Bac_surface_Ag; cl03097 434922004500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 434922004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 434922004502 Family of unknown function (DUF490); Region: DUF490; pfam04357 434922004503 Family of unknown function (DUF490); Region: DUF490; pfam04357 434922004504 muropeptide transporter; Validated; Region: ampG; PRK11010 434922004505 muropeptide transporter; Reviewed; Region: ampG; PRK11902 434922004506 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 434922004507 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 434922004508 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 434922004509 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 434922004510 LAGLIDADG endonuclease; Region: LAGLIDADG_1; pfam00961 434922004511 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 434922004512 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 434922004513 active site 434922004514 HIGH motif; other site 434922004515 dimer interface [polypeptide binding]; other site 434922004516 KMSKS motif; other site 434922004517 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 434922004518 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 434922004519 putative peptidase; Provisional; Region: PRK11649 434922004520 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 434922004521 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 434922004522 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 434922004523 Walker A/P-loop; other site 434922004524 ATP binding site [chemical binding]; other site 434922004525 Q-loop/lid; other site 434922004526 ABC transporter signature motif; other site 434922004527 Walker B; other site 434922004528 D-loop; other site 434922004529 H-loop/switch region; other site 434922004530 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 434922004531 dimer interface [polypeptide binding]; other site 434922004532 conserved gate region; other site 434922004533 ABC-ATPase subunit interface; other site 434922004534 NMT1-like family; Region: NMT1_2; cl15260 434922004535 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 434922004536 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 434922004537 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922004538 active site 434922004539 ATP binding site [chemical binding]; other site 434922004540 substrate binding site [chemical binding]; other site 434922004541 Condensation domain; Region: Condensation; pfam00668 434922004542 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922004543 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 434922004544 substrate binding site [chemical binding]; other site 434922004545 oxyanion hole (OAH) forming residues; other site 434922004546 trimer interface [polypeptide binding]; other site 434922004547 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 434922004548 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 434922004549 dimer interface [polypeptide binding]; other site 434922004550 active site 434922004551 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 434922004552 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 434922004553 dimer interface [polypeptide binding]; other site 434922004554 active site 434922004555 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 434922004556 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 434922004557 active site 434922004558 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 434922004559 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922004560 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 434922004561 peptide synthase; Provisional; Region: PRK12467 434922004562 AMP-binding enzyme; Region: AMP-binding; cl15778 434922004563 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922004564 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; cl02529 434922004565 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 434922004566 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 434922004567 active site 434922004568 catalytic tetrad [active] 434922004569 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 434922004570 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 434922004571 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 434922004572 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09677 434922004573 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09674 434922004574 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 434922004575 putative major pilin subunit; Provisional; Region: PRK10574 434922004576 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 434922004577 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 434922004578 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922004579 Walker A motif; other site 434922004580 ATP binding site [chemical binding]; other site 434922004581 Walker B motif; other site 434922004582 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 434922004583 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 434922004584 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 434922004585 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 434922004586 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 434922004587 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 434922004588 CoA-binding site [chemical binding]; other site 434922004589 ATP-binding [chemical binding]; other site 434922004590 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 434922004591 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 434922004592 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 434922004593 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 434922004594 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922004595 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 434922004596 active site 434922004597 8-oxo-dGMP binding site [chemical binding]; other site 434922004598 nudix motif; other site 434922004599 metal binding site [ion binding]; metal-binding site 434922004600 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 434922004601 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 434922004602 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 434922004603 nucleotide binding region [chemical binding]; other site 434922004604 ATP-binding site [chemical binding]; other site 434922004605 hypothetical protein; Provisional; Region: PRK10396 434922004606 SEC-C motif; Region: SEC-C; pfam02810 434922004607 Protein of unknown function (DUF721); Region: DUF721; cl02324 434922004608 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 434922004609 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 434922004610 cell division protein FtsZ; Validated; Region: PRK09330 434922004611 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 434922004612 nucleotide binding site [chemical binding]; other site 434922004613 SulA interaction site; other site 434922004614 cell division protein FtsA; Region: ftsA; TIGR01174 434922004615 Cell division protein FtsA; Region: FtsA; cl11496 434922004616 Cell division protein FtsA; Region: FtsA; cl11496 434922004617 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 434922004618 active site clefts [active] 434922004619 zinc binding site [ion binding]; other site 434922004620 dimer interface [polypeptide binding]; other site 434922004621 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 434922004622 Cell division protein FtsQ; Region: FtsQ; pfam03799 434922004623 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 434922004624 FAD binding domain; Region: FAD_binding_4; pfam01565 434922004625 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 434922004626 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 434922004627 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434922004628 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004629 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004630 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 434922004631 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 434922004632 active site 434922004633 homodimer interface [polypeptide binding]; other site 434922004634 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 434922004635 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 434922004636 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004637 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004638 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 434922004639 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 434922004640 Mg++ binding site [ion binding]; other site 434922004641 putative catalytic motif [active] 434922004642 putative substrate binding site [chemical binding]; other site 434922004643 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434922004644 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 434922004645 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004646 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004647 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 434922004648 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434922004649 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004650 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004651 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 434922004652 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 434922004653 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 434922004654 Septum formation initiator; Region: DivIC; cl11433 434922004655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004656 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 434922004657 cell division protein MraZ; Reviewed; Region: PRK00326 434922004658 MraZ protein; Region: MraZ; pfam02381 434922004659 MraZ protein; Region: MraZ; pfam02381 434922004660 Protein of unknown function (DUF520); Region: DUF520; cl00723 434922004661 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 434922004662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004663 NAD(P) binding site [chemical binding]; other site 434922004664 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 434922004665 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 434922004666 substrate-cofactor binding pocket; other site 434922004667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922004668 catalytic residue [active] 434922004669 NMT1-like family; Region: NMT1_2; cl15260 434922004670 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 434922004671 ABC-ATPase subunit interface; other site 434922004672 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 434922004673 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 434922004674 Walker A/P-loop; other site 434922004675 ATP binding site [chemical binding]; other site 434922004676 Q-loop/lid; other site 434922004677 ABC transporter signature motif; other site 434922004678 Walker B; other site 434922004679 D-loop; other site 434922004680 H-loop/switch region; other site 434922004681 NIL domain; Region: NIL; cl09633 434922004682 Repeats found in Drosophila proteins; Region: DM9; smart00696 434922004683 Protein of unknown function (DUF3421); Region: DUF3421; pfam11901 434922004684 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 434922004685 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 434922004686 metal binding site [ion binding]; metal-binding site 434922004687 putative dimer interface [polypeptide binding]; other site 434922004688 L-aspartate oxidase; Provisional; Region: PRK09077 434922004689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004690 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 434922004691 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 434922004692 catalytic core [active] 434922004693 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 434922004694 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 434922004695 dimerization interface [polypeptide binding]; other site 434922004696 active site 434922004697 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 434922004698 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 434922004699 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 434922004700 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 434922004701 PLD-like domain; Region: PLDc_2; pfam13091 434922004702 putative active site [active] 434922004703 catalytic site [active] 434922004704 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 434922004705 PLD-like domain; Region: PLDc_2; pfam13091 434922004706 putative active site [active] 434922004707 catalytic site [active] 434922004708 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 434922004709 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 434922004710 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 434922004711 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 434922004712 Clp amino terminal domain; Region: Clp_N; pfam02861 434922004713 Clp amino terminal domain; Region: Clp_N; pfam02861 434922004714 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 434922004715 Walker A motif; other site 434922004716 ATP binding site [chemical binding]; other site 434922004717 Walker B motif; other site 434922004718 arginine finger; other site 434922004719 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 434922004720 Walker A motif; other site 434922004721 ATP binding site [chemical binding]; other site 434922004722 Walker B motif; other site 434922004723 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 434922004724 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 434922004725 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 434922004726 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 434922004727 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 434922004728 Tetratricopeptide repeat; Region: TPR_6; pfam13174 434922004729 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 434922004730 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434922004731 ligand binding site [chemical binding]; other site 434922004732 translocation protein TolB; Provisional; Region: tolB; PRK04922 434922004733 TolB amino-terminal domain; Region: TolB_N; cl00639 434922004734 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434922004735 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434922004736 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434922004737 Gram-negative bacterial tonB protein; Region: TonB; cl10048 434922004738 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 434922004739 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 434922004740 Sulfatase; Region: Sulfatase; cl10460 434922004741 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 434922004742 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 434922004743 active site 434922004744 Entericidin EcnA/B family; Region: Entericidin; cl02322 434922004745 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 434922004746 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 434922004747 Sulfatase; Region: Sulfatase; cl10460 434922004748 prolyl-tRNA synthetase; Provisional; Region: PRK09194 434922004749 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 434922004750 dimer interface [polypeptide binding]; other site 434922004751 motif 1; other site 434922004752 active site 434922004753 motif 2; other site 434922004754 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 434922004755 putative deacylase active site [active] 434922004756 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 434922004757 active site 434922004758 motif 3; other site 434922004759 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 434922004760 anticodon binding site; other site 434922004761 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 434922004762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004764 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 434922004765 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 434922004766 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 434922004767 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 434922004768 active site 434922004769 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004770 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 434922004771 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004772 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004773 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 434922004774 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004775 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 434922004776 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004777 TIGR02449 family protein; Region: TIGR02449 434922004778 Cell division protein ZapA; Region: ZapA; cl01146 434922004779 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 434922004780 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 434922004781 active site residue [active] 434922004782 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 434922004783 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004784 ATP binding site [chemical binding]; other site 434922004785 Mg2+ binding site [ion binding]; other site 434922004786 G-X-G motif; other site 434922004787 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 434922004788 anchoring element; other site 434922004789 dimer interface [polypeptide binding]; other site 434922004790 ATP binding site [chemical binding]; other site 434922004791 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 434922004792 active site 434922004793 metal binding site [ion binding]; metal-binding site 434922004794 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 434922004795 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 434922004796 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 434922004797 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 434922004798 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 434922004799 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 434922004800 HSP70 interaction site [polypeptide binding]; other site 434922004801 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922004802 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 434922004803 Sporulation related domain; Region: SPOR; cl10051 434922004804 UbiA prenyltransferase family; Region: UbiA; cl00337 434922004805 UTRA domain; Region: UTRA; cl01230 434922004806 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 434922004807 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 434922004808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 434922004809 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 434922004810 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 434922004811 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 434922004812 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 434922004813 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 434922004814 Walker A/P-loop; other site 434922004815 ATP binding site [chemical binding]; other site 434922004816 Q-loop/lid; other site 434922004817 ABC transporter signature motif; other site 434922004818 Walker B; other site 434922004819 D-loop; other site 434922004820 H-loop/switch region; other site 434922004821 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 434922004822 ABC-2 type transporter; Region: ABC2_membrane; cl11417 434922004823 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434922004824 ligand binding site [chemical binding]; other site 434922004825 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 434922004826 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 434922004827 active site 434922004828 dimerization interface [polypeptide binding]; other site 434922004829 ferrochelatase; Reviewed; Region: hemH; PRK00035 434922004830 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 434922004831 C-terminal domain interface [polypeptide binding]; other site 434922004832 active site 434922004833 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 434922004834 active site 434922004835 N-terminal domain interface [polypeptide binding]; other site 434922004836 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 434922004837 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 434922004838 S-adenosylmethionine binding site [chemical binding]; other site 434922004839 peptide chain release factor 1; Validated; Region: prfA; PRK00591 434922004840 RF-1 domain; Region: RF-1; cl02875 434922004841 RF-1 domain; Region: RF-1; cl02875 434922004842 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 434922004843 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 434922004844 tRNA; other site 434922004845 putative tRNA binding site [nucleotide binding]; other site 434922004846 putative NADP binding site [chemical binding]; other site 434922004847 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 434922004848 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 434922004849 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 434922004850 putative substrate translocation pore; other site 434922004851 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 434922004852 active site 434922004853 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 434922004854 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 434922004855 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 434922004856 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 434922004857 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 434922004858 Helix-turn-helix domains; Region: HTH; cl00088 434922004859 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 434922004860 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 434922004861 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 434922004862 Substrate binding site; other site 434922004863 metal-binding site 434922004864 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922004865 Phosphotransferase enzyme family; Region: APH; pfam01636 434922004866 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 434922004867 Organic solvent tolerance protein; Region: OstA_C; pfam04453 434922004868 SurA N-terminal domain; Region: SurA_N_3; cl07813 434922004869 PPIC-type PPIASE domain; Region: Rotamase; cl08278 434922004870 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 434922004871 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 434922004872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922004873 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 434922004874 Ligand Binding Site [chemical binding]; other site 434922004875 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 434922004876 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 434922004877 tandem repeat interface [polypeptide binding]; other site 434922004878 oligomer interface [polypeptide binding]; other site 434922004879 active site residues [active] 434922004880 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 434922004881 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 434922004882 active site 434922004883 metal binding site [ion binding]; metal-binding site 434922004884 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 434922004885 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 434922004886 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 434922004887 folate binding site [chemical binding]; other site 434922004888 NADP+ binding site [chemical binding]; other site 434922004889 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 434922004890 Acylphosphatase; Region: Acylphosphatase; cl00551 434922004891 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 434922004892 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 434922004893 active site 434922004894 motif I; other site 434922004895 motif II; other site 434922004896 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 434922004897 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 434922004898 putative active site [active] 434922004899 substrate binding site [chemical binding]; other site 434922004900 putative cosubstrate binding site; other site 434922004901 catalytic site [active] 434922004902 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 434922004903 substrate binding site [chemical binding]; other site 434922004904 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 434922004905 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 434922004906 Protein of unknown function (DUF494); Region: DUF494; cl01103 434922004907 DNA topoisomerase I; Validated; Region: PRK06599 434922004908 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 434922004909 active site 434922004910 interdomain interaction site; other site 434922004911 putative metal-binding site [ion binding]; other site 434922004912 nucleotide binding site [chemical binding]; other site 434922004913 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 434922004914 domain I; other site 434922004915 DNA binding groove [nucleotide binding] 434922004916 phosphate binding site [ion binding]; other site 434922004917 domain II; other site 434922004918 domain III; other site 434922004919 nucleotide binding site [chemical binding]; other site 434922004920 catalytic site [active] 434922004921 domain IV; other site 434922004922 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434922004923 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 434922004924 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434922004925 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434922004926 AIR carboxylase; Region: AIRC; cl00310 434922004927 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 434922004928 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434922004929 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 434922004930 putative active site [active] 434922004931 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 434922004932 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 434922004933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 434922004934 dimer interface [polypeptide binding]; other site 434922004935 phosphorylation site [posttranslational modification] 434922004936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004937 ATP binding site [chemical binding]; other site 434922004938 Mg2+ binding site [ion binding]; other site 434922004939 G-X-G motif; other site 434922004940 osmolarity response regulator; Provisional; Region: ompR; PRK09468 434922004941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922004942 active site 434922004943 phosphorylation site [posttranslational modification] 434922004944 intermolecular recognition site; other site 434922004945 dimerization interface [polypeptide binding]; other site 434922004946 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 434922004947 DNA binding site [nucleotide binding] 434922004948 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 434922004949 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 434922004950 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434922004951 active site 434922004952 HIGH motif; other site 434922004953 nucleotide binding site [chemical binding]; other site 434922004954 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 434922004955 KMSK motif region; other site 434922004956 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 434922004957 tRNA binding surface [nucleotide binding]; other site 434922004958 anticodon binding site; other site 434922004959 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 434922004960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 434922004961 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 434922004962 active site 434922004963 HslU subunit interaction site [polypeptide binding]; other site 434922004964 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 434922004965 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 434922004966 Walker A motif; other site 434922004967 ATP binding site [chemical binding]; other site 434922004968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922004969 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 434922004970 Protein of unknown function (DUF421); Region: DUF421; cl00990 434922004971 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 434922004972 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 434922004973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 434922004974 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 434922004975 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 434922004976 S-adenosylmethionine binding site [chemical binding]; other site 434922004977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 434922004978 SCP-2 sterol transfer family; Region: SCP2; cl01225 434922004979 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922004980 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 434922004981 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 434922004982 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922004983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922004984 Membrane fusogenic activity; Region: BMFP; cl01115 434922004985 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 434922004986 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 434922004987 dimer interface [polypeptide binding]; other site 434922004988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922004989 catalytic residue [active] 434922004990 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 434922004991 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 434922004992 homodimer interface [polypeptide binding]; other site 434922004993 substrate-cofactor binding pocket; other site 434922004994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922004995 catalytic residue [active] 434922004996 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 434922004997 S-adenosylmethionine synthetase; Validated; Region: PRK05250 434922004998 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 434922004999 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 434922005000 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 434922005001 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 434922005002 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 434922005003 oligomerization interface [polypeptide binding]; other site 434922005004 active site 434922005005 NAD+ binding site [chemical binding]; other site 434922005006 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 434922005007 GAF domain; Region: GAF; cl15785 434922005008 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 434922005009 metal binding site [ion binding]; metal-binding site 434922005010 active site 434922005011 I-site; other site 434922005012 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 434922005013 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 434922005014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922005015 Walker A/P-loop; other site 434922005016 ATP binding site [chemical binding]; other site 434922005017 Q-loop/lid; other site 434922005018 ABC transporter signature motif; other site 434922005019 Walker B; other site 434922005020 D-loop; other site 434922005021 H-loop/switch region; other site 434922005022 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 434922005023 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 434922005024 putative active site [active] 434922005025 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 434922005026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922005027 Walker A/P-loop; other site 434922005028 ATP binding site [chemical binding]; other site 434922005029 Q-loop/lid; other site 434922005030 ABC transporter signature motif; other site 434922005031 Walker B; other site 434922005032 D-loop; other site 434922005033 H-loop/switch region; other site 434922005034 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 434922005035 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 434922005036 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 434922005037 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 434922005038 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 434922005039 PAS domain; Region: PAS_9; pfam13426 434922005040 putative active site [active] 434922005041 heme pocket [chemical binding]; other site 434922005042 PAS domain; Region: PAS_9; pfam13426 434922005043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 434922005044 metal binding site [ion binding]; metal-binding site 434922005045 active site 434922005046 I-site; other site 434922005047 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 434922005048 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 434922005049 active site 434922005050 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 434922005051 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 434922005052 FAD binding site [chemical binding]; other site 434922005053 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 434922005054 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 434922005055 THF binding site; other site 434922005056 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 434922005057 substrate binding site [chemical binding]; other site 434922005058 THF binding site; other site 434922005059 zinc-binding site [ion binding]; other site 434922005060 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 434922005061 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 434922005062 active site 434922005063 HIGH motif; other site 434922005064 dimer interface [polypeptide binding]; other site 434922005065 KMSKS motif; other site 434922005066 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 434922005067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922005068 Family description; Region: UvrD_C_2; cl15862 434922005069 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 434922005070 metabolite-proton symporter; Region: 2A0106; TIGR00883 434922005071 putative substrate translocation pore; other site 434922005072 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 434922005073 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922005074 catalytic residue [active] 434922005075 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 434922005076 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922005077 putative substrate translocation pore; other site 434922005078 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 434922005079 putative substrate translocation pore; other site 434922005080 thymidine kinase; Provisional; Region: PRK04296 434922005081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 434922005082 ATP binding site [chemical binding]; other site 434922005083 Walker A motif; other site 434922005084 Walker B motif; other site 434922005085 Chorismate mutase type II; Region: CM_2; cl00693 434922005086 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922005087 Helix-turn-helix domains; Region: HTH; cl00088 434922005088 Integrase core domain; Region: rve; cl01316 434922005089 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 434922005090 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 434922005091 putative acyl-acceptor binding pocket; other site 434922005092 porphobilinogen deaminase; Region: hemC; TIGR00212 434922005093 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 434922005094 domain interfaces; other site 434922005095 active site 434922005096 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 434922005097 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 434922005098 active site 434922005099 catalytic residue [active] 434922005100 dimer interface [polypeptide binding]; other site 434922005101 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 434922005102 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 434922005103 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 434922005104 active site 434922005105 Fic family protein [Function unknown]; Region: COG3177 434922005106 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 434922005107 Fic/DOC family; Region: Fic; cl00960 434922005108 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 434922005109 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 434922005110 HemY protein N-terminus; Region: HemY_N; pfam07219 434922005111 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 434922005112 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 434922005113 Predicted periplasmic protein [Function unknown]; Region: COG3698 434922005114 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 434922005115 Ligand Binding Site [chemical binding]; other site 434922005116 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 434922005117 transcription termination factor Rho; Provisional; Region: rho; PRK09376 434922005118 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 434922005119 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 434922005120 RNA binding site [nucleotide binding]; other site 434922005121 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 434922005122 multimer interface [polypeptide binding]; other site 434922005123 Walker A motif; other site 434922005124 ATP binding site [chemical binding]; other site 434922005125 Walker B motif; other site 434922005126 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 434922005127 catalytic residues [active] 434922005128 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 434922005129 YGGT family; Region: YGGT; cl00508 434922005130 YGGT family; Region: YGGT; cl00508 434922005131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922005132 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 434922005133 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 434922005134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922005135 catalytic residue [active] 434922005136 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 434922005137 active site 434922005138 substrate-binding site [chemical binding]; other site 434922005139 metal-binding site [ion binding] 434922005140 ATP binding site [chemical binding]; other site 434922005141 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 434922005142 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 434922005143 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK13814 434922005144 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 434922005145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931