-- dump date 20140619_053321 -- 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; pfam02661 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 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 434922000016 putative active site [active] 434922000017 catalytic site [active] 434922000018 Catalytic domain, repeat 2, of phospholipase D from Streptomyces Sp. Strain PMF and similar proteins; Region: PLDc_PMFPLD_like_2; cd09109 434922000019 domain interface [polypeptide binding]; other site 434922000020 putative active site [active] 434922000021 catalytic site [active] 434922000022 multiple promoter invertase; Provisional; Region: mpi; PRK13413 434922000023 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 434922000024 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 434922000025 HSP70 interaction site [polypeptide binding]; other site 434922000026 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 434922000027 classical (c) SDRs; Region: SDR_c; cd05233 434922000028 NAD(P) binding site [chemical binding]; other site 434922000029 active site 434922000030 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 434922000031 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 434922000032 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 434922000033 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922000034 Sel1-like repeats; Region: SEL1; smart00671 434922000035 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 434922000036 Resolvase, N terminal domain; Region: Resolvase; pfam00239 434922000037 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000038 AAA domain; Region: AAA_14; pfam13173 434922000039 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 434922000040 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 434922000041 MPN+ (JAMM) motif; other site 434922000042 Zinc-binding site [ion binding]; other site 434922000043 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 434922000044 NlpC/P60 family; Region: NLPC_P60; pfam00877 434922000045 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 434922000046 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 434922000047 Int/Topo IB signature motif; other site 434922000048 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 434922000049 Coxiella burnetii protein of unknown function (DUF807); Region: DUF807; pfam05660 434922000050 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 434922000051 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 434922000052 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 434922000053 Predicted transcriptional regulator [Transcription]; Region: COG2944 434922000054 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 434922000055 Predicted transcriptional regulator [Transcription]; Region: COG2944 434922000056 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 434922000057 non-specific DNA binding site [nucleotide binding]; other site 434922000058 salt bridge; other site 434922000059 sequence-specific DNA binding site [nucleotide binding]; other site 434922000060 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 434922000061 Toprim domain; Region: Toprim_3; pfam13362 434922000062 active site 434922000063 metal binding site [ion binding]; metal-binding site 434922000064 AAA domain; Region: AAA_30; pfam13604 434922000065 Family description; Region: UvrD_C_2; pfam13538 434922000066 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 434922000067 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 434922000068 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434922000069 active site 434922000070 metal binding site [ion binding]; metal-binding site 434922000071 hexamer interface [polypeptide binding]; other site 434922000072 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 434922000073 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 434922000074 trimer interface [polypeptide binding]; other site 434922000075 putative metal binding site [ion binding]; other site 434922000076 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 434922000077 ParB-like nuclease domain; Region: ParBc; pfam02195 434922000078 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 434922000079 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 434922000080 P-loop; other site 434922000081 Magnesium ion binding site [ion binding]; other site 434922000082 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 434922000083 Magnesium ion binding site [ion binding]; other site 434922000084 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 434922000085 ParB-like nuclease domain; Region: ParBc; pfam02195 434922000086 Initiator Replication protein; Region: Rep_3; pfam01051 434922000087 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 434922000088 DnaA N-terminal domain; Region: DnaA_N; pfam11638 434922000089 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 434922000090 Walker A motif; other site 434922000091 ATP binding site [chemical binding]; other site 434922000092 Walker B motif; other site 434922000093 arginine finger; other site 434922000094 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 434922000095 DnaA box-binding interface [nucleotide binding]; other site 434922000096 DNA polymerase III subunit beta; Validated; Region: PRK05643 434922000097 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 434922000098 putative DNA binding surface [nucleotide binding]; other site 434922000099 dimer interface [polypeptide binding]; other site 434922000100 beta-clamp/clamp loader binding surface; other site 434922000101 beta-clamp/translesion DNA polymerase binding surface; other site 434922000102 recombination protein F; Reviewed; Region: recF; PRK00064 434922000103 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922000104 Walker A/P-loop; other site 434922000105 ATP binding site [chemical binding]; other site 434922000106 Q-loop/lid; other site 434922000107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922000108 ABC transporter signature motif; other site 434922000109 Walker B; other site 434922000110 D-loop; other site 434922000111 H-loop/switch region; other site 434922000112 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 434922000113 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922000114 ATP binding site [chemical binding]; other site 434922000115 Mg2+ binding site [ion binding]; other site 434922000116 G-X-G motif; other site 434922000117 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 434922000118 anchoring element; other site 434922000119 dimer interface [polypeptide binding]; other site 434922000120 ATP binding site [chemical binding]; other site 434922000121 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 434922000122 active site 434922000123 putative metal-binding site [ion binding]; other site 434922000124 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 434922000125 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 434922000126 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 434922000127 glutaminase active site [active] 434922000128 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 434922000129 dimer interface [polypeptide binding]; other site 434922000130 active site 434922000131 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 434922000132 dimer interface [polypeptide binding]; other site 434922000133 active site 434922000134 ORF6N domain; Region: ORF6N; pfam10543 434922000135 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 434922000136 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 434922000137 DNA polymerase I; Provisional; Region: PRK05755 434922000138 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 434922000139 active site 434922000140 metal binding site 1 [ion binding]; metal-binding site 434922000141 putative 5' ssDNA interaction site; other site 434922000142 metal binding site 3; metal-binding site 434922000143 metal binding site 2 [ion binding]; metal-binding site 434922000144 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 434922000145 putative DNA binding site [nucleotide binding]; other site 434922000146 putative metal binding site [ion binding]; other site 434922000147 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 434922000148 active site 434922000149 catalytic site [active] 434922000150 substrate binding site [chemical binding]; other site 434922000151 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 434922000152 active site 434922000153 DNA binding site [nucleotide binding] 434922000154 catalytic site [active] 434922000155 amino acid transporter; Region: 2A0306; TIGR00909 434922000156 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 434922000157 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 434922000158 K+ potassium transporter; Region: K_trans; cl15781 434922000159 YCF9; Region: Ycf9; cl09269 434922000160 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 434922000161 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 434922000162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434922000163 Coenzyme A binding pocket [chemical binding]; other site 434922000164 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 434922000165 acetylornithine transaminase; Region: PLN00144 434922000166 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 434922000167 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 434922000168 DNA binding residues [nucleotide binding] 434922000169 dimerization interface [polypeptide binding]; other site 434922000170 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 434922000171 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 434922000172 DNA binding residues [nucleotide binding] 434922000173 dimerization interface [polypeptide binding]; other site 434922000174 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434922000175 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 434922000176 FtsX-like permease family; Region: FtsX; pfam02687 434922000177 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 434922000178 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 434922000179 Walker A/P-loop; other site 434922000180 ATP binding site [chemical binding]; other site 434922000181 Q-loop/lid; other site 434922000182 ABC transporter signature motif; other site 434922000183 Walker B; other site 434922000184 D-loop; other site 434922000185 H-loop/switch region; other site 434922000186 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922000187 HlyD family secretion protein; Region: HlyD_3; pfam13437 434922000188 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 434922000189 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 434922000190 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 434922000191 ligand binding site [chemical binding]; other site 434922000192 NAD binding site [chemical binding]; other site 434922000193 catalytic site [active] 434922000194 homodimer interface [polypeptide binding]; other site 434922000195 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 434922000196 primosome assembly protein PriA; Validated; Region: PRK05580 434922000197 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 434922000198 ATP binding site [chemical binding]; other site 434922000199 putative Mg++ binding site [ion binding]; other site 434922000200 helicase superfamily c-terminal domain; Region: HELICc; smart00490 434922000201 elongation factor P; Validated; Region: PRK00529 434922000202 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 434922000203 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 434922000204 RNA binding site [nucleotide binding]; other site 434922000205 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 434922000206 RNA binding site [nucleotide binding]; other site 434922000207 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 434922000208 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 434922000209 motif 1; other site 434922000210 dimer interface [polypeptide binding]; other site 434922000211 active site 434922000212 motif 2; other site 434922000213 motif 3; other site 434922000214 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 434922000215 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 434922000216 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 434922000217 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 434922000218 active site 434922000219 NTP binding site [chemical binding]; other site 434922000220 metal binding triad [ion binding]; metal-binding site 434922000221 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 434922000222 Uncharacterized conserved protein [Function unknown]; Region: COG1565 434922000223 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 434922000224 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 434922000225 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 434922000226 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 434922000227 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922000228 active site 434922000229 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 434922000230 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 434922000231 active site 434922000232 GIY-YIG motif/motif A; other site 434922000233 catalytic site [active] 434922000234 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 434922000235 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 434922000236 substrate binding site; other site 434922000237 tetramer interface; other site 434922000238 hypothetical protein; Provisional; Region: PRK07208 434922000239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 434922000240 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 434922000241 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 434922000242 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 434922000243 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922000244 extended (e) SDRs; Region: SDR_e; cd08946 434922000245 NAD(P) binding site [chemical binding]; other site 434922000246 active site 434922000247 substrate binding site [chemical binding]; other site 434922000248 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 434922000249 hydroxyglutarate oxidase; Provisional; Region: PRK11728 434922000250 Predicted dehydrogenase [General function prediction only]; Region: COG0579 434922000251 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 434922000252 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 434922000253 5S rRNA interface [nucleotide binding]; other site 434922000254 CTC domain interface [polypeptide binding]; other site 434922000255 L16 interface [polypeptide binding]; other site 434922000256 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 434922000257 putative active site [active] 434922000258 catalytic residue [active] 434922000259 GTP-binding protein YchF; Reviewed; Region: PRK09601 434922000260 YchF GTPase; Region: YchF; cd01900 434922000261 G1 box; other site 434922000262 GTP/Mg2+ binding site [chemical binding]; other site 434922000263 Switch I region; other site 434922000264 G2 box; other site 434922000265 Switch II region; other site 434922000266 G3 box; other site 434922000267 G4 box; other site 434922000268 G5 box; other site 434922000269 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 434922000270 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 434922000271 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 434922000272 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 434922000273 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 434922000274 Predicted membrane protein [Function unknown]; Region: COG2246 434922000275 GtrA-like protein; Region: GtrA; pfam04138 434922000276 TPR repeat; Region: TPR_11; pfam13414 434922000277 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 434922000278 binding surface 434922000279 TPR motif; other site 434922000280 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 434922000281 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 434922000282 substrate binding site [chemical binding]; other site 434922000283 oxyanion hole (OAH) forming residues; other site 434922000284 trimer interface [polypeptide binding]; other site 434922000285 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 434922000286 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 434922000287 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434922000288 Walker A/P-loop; other site 434922000289 ATP binding site [chemical binding]; other site 434922000290 Q-loop/lid; other site 434922000291 ABC transporter signature motif; other site 434922000292 Walker B; other site 434922000293 D-loop; other site 434922000294 H-loop/switch region; other site 434922000295 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434922000296 Walker A/P-loop; other site 434922000297 ATP binding site [chemical binding]; other site 434922000298 Q-loop/lid; other site 434922000299 ABC transporter signature motif; other site 434922000300 Walker B; other site 434922000301 D-loop; other site 434922000302 H-loop/switch region; other site 434922000303 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 434922000304 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 434922000305 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 434922000306 dimer interface [polypeptide binding]; other site 434922000307 conserved gate region; other site 434922000308 putative PBP binding loops; other site 434922000309 ABC-ATPase subunit interface; other site 434922000310 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 434922000311 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 434922000312 Radical SAM superfamily; Region: Radical_SAM; pfam04055 434922000313 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 434922000314 FeS/SAM binding site; other site 434922000315 Bacterial PH domain; Region: DUF304; pfam03703 434922000316 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 434922000317 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 434922000318 CAP-like domain; other site 434922000319 active site 434922000320 primary dimer interface [polypeptide binding]; other site 434922000321 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 434922000322 diiron binding motif [ion binding]; other site 434922000323 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 434922000324 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 434922000325 glutamine binding [chemical binding]; other site 434922000326 catalytic triad [active] 434922000327 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 434922000328 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 434922000329 substrate binding site [chemical binding]; other site 434922000330 hexamer interface [polypeptide binding]; other site 434922000331 metal binding site [ion binding]; metal-binding site 434922000332 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 434922000333 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 434922000334 putative metal binding site [ion binding]; other site 434922000335 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 434922000336 HSP70 interaction site [polypeptide binding]; other site 434922000337 Glutamate-cysteine ligase; Region: GshA; pfam08886 434922000338 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 434922000339 glutathione synthetase; Provisional; Region: PRK05246 434922000340 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 434922000341 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 434922000342 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 434922000343 S-adenosylmethionine binding site [chemical binding]; other site 434922000344 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 434922000345 Walker A motif; other site 434922000346 ATP binding site [chemical binding]; other site 434922000347 Walker B motif; other site 434922000348 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922000349 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 434922000350 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 434922000351 active site 434922000352 catalytic residues [active] 434922000353 metal binding site [ion binding]; metal-binding site 434922000354 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 434922000355 Rubredoxin [Energy production and conversion]; Region: COG1773 434922000356 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 434922000357 iron binding site [ion binding]; other site 434922000358 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 434922000359 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 434922000360 inhibitor-cofactor binding pocket; inhibition site 434922000361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922000362 catalytic residue [active] 434922000363 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 434922000364 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 434922000365 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 434922000366 Transglycosylase; Region: Transgly; pfam00912 434922000367 Src Homology 3 domain superfamily; Region: SH3; cl17036 434922000368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 434922000369 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 434922000370 shikimate kinase; Reviewed; Region: aroK; PRK00131 434922000371 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 434922000372 ADP binding site [chemical binding]; other site 434922000373 magnesium binding site [ion binding]; other site 434922000374 putative shikimate binding site; other site 434922000375 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 434922000376 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 434922000377 active site 434922000378 dimer interface [polypeptide binding]; other site 434922000379 metal binding site [ion binding]; metal-binding site 434922000380 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000381 H+ Antiporter protein; Region: 2A0121; TIGR00900 434922000382 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 434922000383 putative substrate translocation pore; other site 434922000384 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 434922000385 Protein of unknown function (DUF497); Region: DUF497; pfam04365 434922000386 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 434922000387 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 434922000388 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 434922000389 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 434922000390 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 434922000391 shikimate binding site; other site 434922000392 NAD(P) binding site [chemical binding]; other site 434922000393 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 434922000394 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 434922000395 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 434922000396 purine nucleoside phosphorylase; Provisional; Region: PRK08202 434922000397 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 434922000398 intersubunit interface [polypeptide binding]; other site 434922000399 active site 434922000400 catalytic residue [active] 434922000401 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 434922000402 30S subunit binding site; other site 434922000403 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 434922000404 DNA-binding site [nucleotide binding]; DNA binding site 434922000405 RNA-binding motif; other site 434922000406 carbon storage regulator; Provisional; Region: PRK01712 434922000407 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 434922000408 tetramer (dimer of dimers) interface [polypeptide binding]; other site 434922000409 active site 434922000410 dimer interface [polypeptide binding]; other site 434922000411 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 434922000412 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 434922000413 putative acyl-acceptor binding pocket; other site 434922000414 helix swapped region; other site 434922000415 Hydroxymethylglutaryl-coenzyme A reductase; Region: HMG-CoA_red; pfam00368 434922000416 homodimer interface [polypeptide binding]; other site 434922000417 catalytic residues [active] 434922000418 substrate binding pocket [chemical binding]; other site 434922000419 NADH/NADPH cofactor binding site [chemical binding]; other site 434922000420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922000421 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000422 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000423 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 434922000424 acyl carrier protein; Provisional; Region: acpP; PRK00982 434922000425 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 434922000426 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 434922000427 dimer interface [polypeptide binding]; other site 434922000428 active site 434922000429 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 434922000430 active site 2 [active] 434922000431 active site 1 [active] 434922000432 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 434922000433 active site 2 [active] 434922000434 active site 1 [active] 434922000435 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 434922000436 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 434922000437 dimer interface [polypeptide binding]; other site 434922000438 active site 434922000439 CoA binding pocket [chemical binding]; other site 434922000440 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 434922000441 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 434922000442 active site 434922000443 Zn binding site [ion binding]; other site 434922000444 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 434922000445 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 434922000446 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 434922000447 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 434922000448 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 434922000449 ligand binding site [chemical binding]; other site 434922000450 homodimer interface [polypeptide binding]; other site 434922000451 NAD(P) binding site [chemical binding]; other site 434922000452 trimer interface B [polypeptide binding]; other site 434922000453 trimer interface A [polypeptide binding]; other site 434922000454 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 434922000455 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 434922000456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434922000457 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434922000458 ABC transporter; Region: ABC_tran_2; pfam12848 434922000459 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434922000460 AAA domain; Region: AAA_22; pfam13401 434922000461 AAA domain; Region: AAA_14; pfam13173 434922000462 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922000463 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000464 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 434922000465 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 434922000466 Substrate binding site; other site 434922000467 Mg++ binding site; other site 434922000468 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 434922000469 active site 434922000470 substrate binding site [chemical binding]; other site 434922000471 CoA binding site [chemical binding]; other site 434922000472 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 434922000473 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 434922000474 gamma subunit interface [polypeptide binding]; other site 434922000475 epsilon subunit interface [polypeptide binding]; other site 434922000476 LBP interface [polypeptide binding]; other site 434922000477 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 434922000478 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 434922000479 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 434922000480 alpha subunit interaction interface [polypeptide binding]; other site 434922000481 Walker A motif; other site 434922000482 ATP binding site [chemical binding]; other site 434922000483 Walker B motif; other site 434922000484 inhibitor binding site; inhibition site 434922000485 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 434922000486 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 434922000487 core domain interface [polypeptide binding]; other site 434922000488 delta subunit interface [polypeptide binding]; other site 434922000489 epsilon subunit interface [polypeptide binding]; other site 434922000490 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 434922000491 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 434922000492 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 434922000493 beta subunit interaction interface [polypeptide binding]; other site 434922000494 Walker A motif; other site 434922000495 ATP binding site [chemical binding]; other site 434922000496 Walker B motif; other site 434922000497 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 434922000498 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 434922000499 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 434922000500 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 434922000501 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 434922000502 ATP synthase subunit C; Region: ATP-synt_C; cl00466 434922000503 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 434922000504 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 434922000505 ATP synthase I chain; Region: ATP_synt_I; cl09170 434922000506 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000507 AAA domain; Region: AAA_14; pfam13173 434922000508 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000509 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000510 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000511 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 434922000512 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 434922000513 putative DNA binding site [nucleotide binding]; other site 434922000514 putative homodimer interface [polypeptide binding]; other site 434922000515 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 434922000516 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 434922000517 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 434922000518 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 434922000519 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 434922000520 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 434922000521 acyl-activating enzyme (AAE) consensus motif; other site 434922000522 active site 434922000523 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 434922000524 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 434922000525 putative acyl-acceptor binding pocket; other site 434922000526 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 434922000527 ParB-like nuclease domain; Region: ParB; smart00470 434922000528 KorB domain; Region: KorB; pfam08535 434922000529 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 434922000530 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 434922000531 P-loop; other site 434922000532 Magnesium ion binding site [ion binding]; other site 434922000533 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 434922000534 Magnesium ion binding site [ion binding]; other site 434922000535 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 434922000536 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 434922000537 S-adenosylmethionine binding site [chemical binding]; other site 434922000538 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 434922000539 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 434922000540 NAD binding site [chemical binding]; other site 434922000541 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 434922000542 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 434922000543 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 434922000544 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 434922000545 trmE is a tRNA modification GTPase; Region: trmE; cd04164 434922000546 G1 box; other site 434922000547 GTP/Mg2+ binding site [chemical binding]; other site 434922000548 Switch I region; other site 434922000549 G2 box; other site 434922000550 Switch II region; other site 434922000551 G3 box; other site 434922000552 G4 box; other site 434922000553 G5 box; other site 434922000554 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 434922000555 membrane protein insertase; Provisional; Region: PRK01318 434922000556 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 434922000557 hypothetical protein; Provisional; Region: PRK14384 434922000558 Ribonuclease P; Region: Ribonuclease_P; cl00457 434922000559 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 434922000560 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 434922000561 Ligand Binding Site [chemical binding]; other site 434922000562 16S rRNA methyltransferase B; Provisional; Region: PRK10901 434922000563 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 434922000564 putative RNA binding site [nucleotide binding]; other site 434922000565 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 434922000566 S-adenosylmethionine binding site [chemical binding]; other site 434922000567 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 434922000568 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 434922000569 DALR anticodon binding domain; Region: DALR_1; pfam05746 434922000570 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 434922000571 dimer interface [polypeptide binding]; other site 434922000572 motif 1; other site 434922000573 active site 434922000574 motif 2; other site 434922000575 motif 3; other site 434922000576 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922000577 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 434922000578 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 434922000579 catalytic residues [active] 434922000580 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 434922000581 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 434922000582 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434922000583 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 434922000584 DNA binding residues [nucleotide binding] 434922000585 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 434922000586 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 434922000587 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 434922000588 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 434922000589 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 434922000590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922000591 Walker A/P-loop; other site 434922000592 ATP binding site [chemical binding]; other site 434922000593 Q-loop/lid; other site 434922000594 ABC transporter signature motif; other site 434922000595 Walker B; other site 434922000596 D-loop; other site 434922000597 H-loop/switch region; other site 434922000598 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 434922000599 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 434922000600 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 434922000601 P loop; other site 434922000602 GTP binding site [chemical binding]; other site 434922000603 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 434922000604 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 434922000605 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 434922000606 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 434922000607 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 434922000608 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 434922000609 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 434922000610 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 434922000611 S-adenosylmethionine binding site [chemical binding]; other site 434922000612 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922000613 Helix-turn-helix domain; Region: HTH_38; pfam13936 434922000614 Integrase core domain; Region: rve; pfam00665 434922000615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 434922000616 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922000617 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922000618 transketolase; Reviewed; Region: PRK12753 434922000619 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 434922000620 TPP-binding site [chemical binding]; other site 434922000621 dimer interface [polypeptide binding]; other site 434922000622 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 434922000623 PYR/PP interface [polypeptide binding]; other site 434922000624 dimer interface [polypeptide binding]; other site 434922000625 TPP binding site [chemical binding]; other site 434922000626 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922000627 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 434922000628 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 434922000629 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 434922000630 Phosphoglycerate kinase; Region: PGK; pfam00162 434922000631 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 434922000632 substrate binding site [chemical binding]; other site 434922000633 hinge regions; other site 434922000634 ADP binding site [chemical binding]; other site 434922000635 catalytic site [active] 434922000636 pyruvate kinase; Provisional; Region: PRK05826 434922000637 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 434922000638 domain interfaces; other site 434922000639 active site 434922000640 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 434922000641 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 434922000642 intersubunit interface [polypeptide binding]; other site 434922000643 active site 434922000644 zinc binding site [ion binding]; other site 434922000645 Na+ binding site [ion binding]; other site 434922000646 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922000647 Sel1-like repeats; Region: SEL1; smart00671 434922000648 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 434922000649 G1 box; other site 434922000650 GTP/Mg2+ binding site [chemical binding]; other site 434922000651 Switch I region; other site 434922000652 G2 box; other site 434922000653 G3 box; other site 434922000654 Switch II region; other site 434922000655 G4 box; other site 434922000656 G5 box; other site 434922000657 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 434922000658 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 434922000659 dimer interface [polypeptide binding]; other site 434922000660 conserved gate region; other site 434922000661 putative PBP binding loops; other site 434922000662 ABC-ATPase subunit interface; other site 434922000663 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 434922000664 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 434922000665 Walker A/P-loop; other site 434922000666 ATP binding site [chemical binding]; other site 434922000667 Q-loop/lid; other site 434922000668 ABC transporter signature motif; other site 434922000669 Walker B; other site 434922000670 D-loop; other site 434922000671 H-loop/switch region; other site 434922000672 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 434922000673 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 434922000674 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 434922000675 FeoA domain; Region: FeoA; pfam04023 434922000676 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 434922000677 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 434922000678 G1 box; other site 434922000679 GTP/Mg2+ binding site [chemical binding]; other site 434922000680 Switch I region; other site 434922000681 G2 box; other site 434922000682 G3 box; other site 434922000683 Switch II region; other site 434922000684 G4 box; other site 434922000685 G5 box; other site 434922000686 Nucleoside recognition; Region: Gate; pfam07670 434922000687 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 434922000688 Nucleoside recognition; Region: Gate; pfam07670 434922000689 FeoC like transcriptional regulator; Region: FeoC; pfam09012 434922000690 AAA domain; Region: AAA_14; pfam13173 434922000691 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922000692 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 434922000693 PAS fold; Region: PAS_4; pfam08448 434922000694 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 434922000695 putative active site [active] 434922000696 heme pocket [chemical binding]; other site 434922000697 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 434922000698 dimer interface [polypeptide binding]; other site 434922000699 phosphorylation site [posttranslational modification] 434922000700 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922000701 ATP binding site [chemical binding]; other site 434922000702 Mg2+ binding site [ion binding]; other site 434922000703 G-X-G motif; other site 434922000704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922000705 active site 434922000706 phosphorylation site [posttranslational modification] 434922000707 intermolecular recognition site; other site 434922000708 dimerization interface [polypeptide binding]; other site 434922000709 Hpt domain; Region: Hpt; pfam01627 434922000710 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 434922000711 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 434922000712 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000713 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 434922000714 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922000715 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000716 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 434922000717 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 434922000718 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 434922000719 IHF dimer interface [polypeptide binding]; other site 434922000720 IHF - DNA interface [nucleotide binding]; other site 434922000721 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 434922000722 23S rRNA interface [nucleotide binding]; other site 434922000723 L3 interface [polypeptide binding]; other site 434922000724 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 434922000725 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 434922000726 C-terminal domain interface [polypeptide binding]; other site 434922000727 putative GSH binding site (G-site) [chemical binding]; other site 434922000728 dimer interface [polypeptide binding]; other site 434922000729 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 434922000730 dimer interface [polypeptide binding]; other site 434922000731 N-terminal domain interface [polypeptide binding]; other site 434922000732 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 434922000733 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 434922000734 Peptidase family M50; Region: Peptidase_M50; pfam02163 434922000735 active site 434922000736 putative substrate binding region [chemical binding]; other site 434922000737 BON domain; Region: BON; pfam04972 434922000738 BON domain; Region: BON; pfam04972 434922000739 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 434922000740 dimer interface [polypeptide binding]; other site 434922000741 active site 434922000742 hypothetical protein; Provisional; Region: PRK14684 434922000743 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 434922000744 putative ligand binding site [chemical binding]; other site 434922000745 Predicted methyltransferases [General function prediction only]; Region: COG0313 434922000746 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 434922000747 putative SAM binding site [chemical binding]; other site 434922000748 putative homodimer interface [polypeptide binding]; other site 434922000749 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 434922000750 IHF dimer interface [polypeptide binding]; other site 434922000751 IHF - DNA interface [nucleotide binding]; other site 434922000752 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 434922000753 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 434922000754 active site 434922000755 substrate binding site [chemical binding]; other site 434922000756 cosubstrate binding site; other site 434922000757 catalytic site [active] 434922000758 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 434922000759 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 434922000760 dimerization interface [polypeptide binding]; other site 434922000761 putative ATP binding site [chemical binding]; other site 434922000762 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 434922000763 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 434922000764 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 434922000765 Walker A motif; other site 434922000766 ATP binding site [chemical binding]; other site 434922000767 Walker B motif; other site 434922000768 arginine finger; other site 434922000769 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 434922000770 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 434922000771 putative ligand binding site [chemical binding]; other site 434922000772 putative NAD binding site [chemical binding]; other site 434922000773 putative catalytic site [active] 434922000774 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 434922000775 L-serine binding site [chemical binding]; other site 434922000776 ACT domain interface; other site 434922000777 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 434922000778 putative substrate binding site 1 [chemical binding]; other site 434922000779 Na binding site 1 [ion binding]; other site 434922000780 putative substrate binding site 2 [chemical binding]; other site 434922000781 Na2 binding site [ion binding]; other site 434922000782 phosphoserine phosphatase SerB; Region: serB; TIGR00338 434922000783 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 434922000784 active site 434922000785 motif I; other site 434922000786 motif II; other site 434922000787 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 434922000788 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 434922000789 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 434922000790 ornithine cyclodeaminase; Validated; Region: PRK07589 434922000791 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 434922000792 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 434922000793 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922000794 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 434922000795 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 434922000796 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 434922000797 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 434922000798 carboxyltransferase (CT) interaction site; other site 434922000799 biotinylation site [posttranslational modification]; other site 434922000800 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 434922000801 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 434922000802 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 434922000803 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 434922000804 DsbD alpha interface [polypeptide binding]; other site 434922000805 catalytic residues [active] 434922000806 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 434922000807 aconitate hydratase; Validated; Region: PRK09277 434922000808 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 434922000809 substrate binding site [chemical binding]; other site 434922000810 ligand binding site [chemical binding]; other site 434922000811 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 434922000812 substrate binding site [chemical binding]; other site 434922000813 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 434922000814 oligomerisation interface [polypeptide binding]; other site 434922000815 mobile loop; other site 434922000816 roof hairpin; other site 434922000817 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 434922000818 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 434922000819 ring oligomerisation interface [polypeptide binding]; other site 434922000820 ATP/Mg binding site [chemical binding]; other site 434922000821 stacking interactions; other site 434922000822 hinge regions; other site 434922000823 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 434922000824 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 434922000825 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 434922000826 lipoyl attachment site [posttranslational modification]; other site 434922000827 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 434922000828 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 434922000829 tetramer interface [polypeptide binding]; other site 434922000830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922000831 catalytic residue [active] 434922000832 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 434922000833 tetramer interface [polypeptide binding]; other site 434922000834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922000835 catalytic residue [active] 434922000836 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 434922000837 GIY-YIG motif/motif A; other site 434922000838 putative active site [active] 434922000839 putative metal binding site [ion binding]; other site 434922000840 dihydrodipicolinate reductase; Provisional; Region: PRK00048 434922000841 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 434922000842 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 434922000843 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 434922000844 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 434922000845 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 434922000846 peroxidase; Provisional; Region: PRK15000 434922000847 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 434922000848 dimer interface [polypeptide binding]; other site 434922000849 decamer (pentamer of dimers) interface [polypeptide binding]; other site 434922000850 catalytic triad [active] 434922000851 peroxidatic and resolving cysteines [active] 434922000852 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 434922000853 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 434922000854 dimer interface [polypeptide binding]; other site 434922000855 catalytic site [active] 434922000856 putative active site [active] 434922000857 putative substrate binding site [chemical binding]; other site 434922000858 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 434922000859 active site 434922000860 substrate binding pocket [chemical binding]; other site 434922000861 dimer interface [polypeptide binding]; other site 434922000862 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 434922000863 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922000864 AAA domain; Region: AAA_14; pfam13173 434922000865 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 434922000866 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 434922000867 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 434922000868 minor groove reading motif; other site 434922000869 helix-hairpin-helix signature motif; other site 434922000870 substrate binding pocket [chemical binding]; other site 434922000871 active site 434922000872 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 434922000873 ferredoxin; Provisional; Region: PRK08764 434922000874 Putative Fe-S cluster; Region: FeS; pfam04060 434922000875 4Fe-4S binding domain; Region: Fer4; pfam00037 434922000876 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 434922000877 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 434922000878 active site 434922000879 HIGH motif; other site 434922000880 KMSKS motif; other site 434922000881 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 434922000882 tRNA binding surface [nucleotide binding]; other site 434922000883 anticodon binding site; other site 434922000884 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 434922000885 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 434922000886 non-specific DNA binding site [nucleotide binding]; other site 434922000887 salt bridge; other site 434922000888 sequence-specific DNA binding site [nucleotide binding]; other site 434922000889 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 434922000890 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 434922000891 Walker A motif; other site 434922000892 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 434922000893 trimer interface [polypeptide binding]; other site 434922000894 active site 434922000895 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 434922000896 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922000897 Helix-turn-helix domain; Region: HTH_38; pfam13936 434922000898 Integrase core domain; Region: rve; pfam00665 434922000899 CTP synthetase; Validated; Region: pyrG; PRK05380 434922000900 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 434922000901 Catalytic site [active] 434922000902 active site 434922000903 UTP binding site [chemical binding]; other site 434922000904 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 434922000905 active site 434922000906 putative oxyanion hole; other site 434922000907 catalytic triad [active] 434922000908 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 434922000909 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 434922000910 Hemerythrin-like domain; Region: Hr-like; cd12108 434922000911 Fe binding site [ion binding]; other site 434922000912 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 434922000913 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 434922000914 enolase; Provisional; Region: eno; PRK00077 434922000915 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 434922000916 dimer interface [polypeptide binding]; other site 434922000917 metal binding site [ion binding]; metal-binding site 434922000918 substrate binding pocket [chemical binding]; other site 434922000919 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 434922000920 Septum formation initiator; Region: DivIC; cl17659 434922000921 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 434922000922 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434922000923 Peptidase family M23; Region: Peptidase_M23; pfam01551 434922000924 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 434922000925 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 434922000926 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434922000927 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 434922000928 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 434922000929 DNA binding residues [nucleotide binding] 434922000930 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 434922000931 FOG: CBS domain [General function prediction only]; Region: COG0517 434922000932 Zinc-finger domain; Region: zf-CHCC; cl01821 434922000933 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434922000934 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 434922000935 putative active site [active] 434922000936 Uncharacterized conserved protein [Function unknown]; Region: COG5495 434922000937 Rossmann-like domain; Region: Rossmann-like; pfam10727 434922000938 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 434922000939 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 434922000940 O-Antigen ligase; Region: Wzy_C; pfam04932 434922000941 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922000942 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 434922000943 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 434922000944 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 434922000945 putative metal binding site; other site 434922000946 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 434922000947 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 434922000948 putative ribose interaction site [chemical binding]; other site 434922000949 putative ADP binding site [chemical binding]; other site 434922000950 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 434922000951 active site 434922000952 nucleotide binding site [chemical binding]; other site 434922000953 HIGH motif; other site 434922000954 KMSKS motif; other site 434922000955 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 434922000956 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 434922000957 BCCT family transporter; Region: BCCT; cl00569 434922000958 BCCT family transporter; Region: BCCT; cl00569 434922000959 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 434922000960 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 434922000961 Walker A motif; other site 434922000962 ATP binding site [chemical binding]; other site 434922000963 Walker B motif; other site 434922000964 Protein of unknown function (DUF3773); Region: DUF3773; pfam12608 434922000965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 434922000966 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922000967 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922000968 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 434922000969 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 434922000970 Walker A motif; other site 434922000971 ATP binding site [chemical binding]; other site 434922000972 Walker B motif; other site 434922000973 CRISPR/Cas system-associated transcriptional regulator CasRa; Region: CasRa_I-A; cd09655 434922000974 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922000975 Dot/Icm secretion system protein IcmQ; Region: dot_icm_IcmQ; TIGR02527 434922000976 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 434922000977 Walker A motif; other site 434922000978 ATP binding site [chemical binding]; other site 434922000979 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 434922000980 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 434922000981 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434922000982 ligand binding site [chemical binding]; other site 434922000983 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 434922000984 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 434922000985 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 434922000986 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000987 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000988 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000989 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000990 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 434922000991 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 434922000992 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 434922000993 HNH nucleases; Region: HNHc; smart00507 434922000994 AAA-like domain; Region: AAA_10; pfam12846 434922000995 DivIVA protein; Region: DivIVA; pfam05103 434922000996 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 434922000997 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922000998 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 434922000999 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 434922001000 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922001001 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 434922001002 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922001003 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922001004 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 434922001005 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922001006 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 434922001007 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434922001008 Predicted deacylase [General function prediction only]; Region: COG3608 434922001009 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 434922001010 putative active site [active] 434922001011 Zn binding site [ion binding]; other site 434922001012 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 434922001013 RimK-like ATP-grasp domain; Region: RimK; pfam08443 434922001014 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 434922001015 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 434922001016 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 434922001017 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 434922001018 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 434922001019 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 434922001020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434922001021 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 434922001022 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 434922001023 DNA binding residues [nucleotide binding] 434922001024 DNA primase; Validated; Region: dnaG; PRK05667 434922001025 CHC2 zinc finger; Region: zf-CHC2; pfam01807 434922001026 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 434922001027 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 434922001028 active site 434922001029 metal binding site [ion binding]; metal-binding site 434922001030 interdomain interaction site; other site 434922001031 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 434922001032 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 434922001033 Yqey-like protein; Region: YqeY; pfam09424 434922001034 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 434922001035 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 434922001036 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 434922001037 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 434922001038 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 434922001039 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 434922001040 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 434922001041 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 434922001042 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 434922001043 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 434922001044 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 434922001045 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 434922001046 Predicted ATPase [General function prediction only]; Region: COG1485 434922001047 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 434922001048 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 434922001049 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 434922001050 L,D-transpeptidase; Provisional; Region: PRK10190 434922001051 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434922001052 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434922001053 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 434922001054 TolR protein; Region: tolR; TIGR02801 434922001055 TolQ protein; Region: tolQ; TIGR02796 434922001056 putative MFS family transporter protein; Provisional; Region: PRK03633 434922001057 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 434922001058 putative substrate translocation pore; other site 434922001059 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 434922001060 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 434922001061 Walker A motif; other site 434922001062 ATP binding site [chemical binding]; other site 434922001063 Walker B motif; other site 434922001064 arginine finger; other site 434922001065 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 434922001066 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 434922001067 RuvA N terminal domain; Region: RuvA_N; pfam01330 434922001068 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 434922001069 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 434922001070 active site 434922001071 putative DNA-binding cleft [nucleotide binding]; other site 434922001072 dimer interface [polypeptide binding]; other site 434922001073 hypothetical protein; Validated; Region: PRK00110 434922001074 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 434922001075 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 434922001076 dimer interface [polypeptide binding]; other site 434922001077 anticodon binding site; other site 434922001078 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 434922001079 homodimer interface [polypeptide binding]; other site 434922001080 motif 1; other site 434922001081 active site 434922001082 motif 2; other site 434922001083 GAD domain; Region: GAD; pfam02938 434922001084 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 434922001085 active site 434922001086 motif 3; other site 434922001087 Uncharacterized conserved protein [Function unknown]; Region: COG2928 434922001088 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 434922001089 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 434922001090 dimer interface [polypeptide binding]; other site 434922001091 putative radical transfer pathway; other site 434922001092 diiron center [ion binding]; other site 434922001093 tyrosyl radical; other site 434922001094 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 434922001095 ATP cone domain; Region: ATP-cone; pfam03477 434922001096 Class I ribonucleotide reductase; Region: RNR_I; cd01679 434922001097 active site 434922001098 dimer interface [polypeptide binding]; other site 434922001099 catalytic residues [active] 434922001100 effector binding site; other site 434922001101 R2 peptide binding site; other site 434922001102 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 434922001103 GAF domain; Region: GAF; pfam01590 434922001104 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 434922001105 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 434922001106 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 434922001107 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 434922001108 thymidylate synthase; Reviewed; Region: thyA; PRK01827 434922001109 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 434922001110 dimerization interface [polypeptide binding]; other site 434922001111 active site 434922001112 Insulin-induced protein (INSIG); Region: INSIG; pfam07281 434922001113 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 434922001114 aromatic amino acid transport protein; Region: araaP; TIGR00837 434922001115 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 434922001116 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 434922001117 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 434922001118 protein binding site [polypeptide binding]; other site 434922001119 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 434922001120 Catalytic dyad [active] 434922001121 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 434922001122 Peptidase family M23; Region: Peptidase_M23; pfam01551 434922001123 phosphoglyceromutase; Provisional; Region: PRK05434 434922001124 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 434922001125 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 434922001126 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 434922001127 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 434922001128 Tropomyosin like; Region: Tropomyosin_1; pfam12718 434922001129 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 434922001130 active site residue [active] 434922001131 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 434922001132 GSH binding site [chemical binding]; other site 434922001133 catalytic residues [active] 434922001134 preprotein translocase subunit SecB; Validated; Region: PRK05751 434922001135 SecA binding site; other site 434922001136 Preprotein binding site; other site 434922001137 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 434922001138 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 434922001139 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 434922001140 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 434922001141 Transposase [DNA replication, recombination, and repair]; Region: COG5421 434922001142 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 434922001143 classical (c) SDRs; Region: SDR_c; cd05233 434922001144 NAD(P) binding site [chemical binding]; other site 434922001145 active site 434922001146 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 434922001147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001148 NAD(P) binding site [chemical binding]; other site 434922001149 active site 434922001150 rhodanese superfamily protein; Provisional; Region: PRK05320 434922001151 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 434922001152 active site residue [active] 434922001153 ZIP Zinc transporter; Region: Zip; pfam02535 434922001154 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 434922001155 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 434922001156 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 434922001157 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 434922001158 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 434922001159 Ligand Binding Site [chemical binding]; other site 434922001160 TilS substrate binding domain; Region: TilS; pfam09179 434922001161 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 434922001162 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922001163 AAA domain; Region: AAA_14; pfam13173 434922001164 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922001165 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 434922001166 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 434922001167 metal-binding site [ion binding] 434922001168 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 434922001169 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 434922001170 motif II; other site 434922001171 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 434922001172 active site 434922001173 GTP-binding protein LepA; Provisional; Region: PRK05433 434922001174 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 434922001175 G1 box; other site 434922001176 putative GEF interaction site [polypeptide binding]; other site 434922001177 GTP/Mg2+ binding site [chemical binding]; other site 434922001178 Switch I region; other site 434922001179 G2 box; other site 434922001180 G3 box; other site 434922001181 Switch II region; other site 434922001182 G4 box; other site 434922001183 G5 box; other site 434922001184 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 434922001185 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 434922001186 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 434922001187 signal peptidase I; Provisional; Region: PRK10861 434922001188 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 434922001189 Catalytic site [active] 434922001190 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 434922001191 ribonuclease III; Reviewed; Region: rnc; PRK00102 434922001192 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 434922001193 dimerization interface [polypeptide binding]; other site 434922001194 active site 434922001195 metal binding site [ion binding]; metal-binding site 434922001196 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 434922001197 dsRNA binding site [nucleotide binding]; other site 434922001198 GTPase Era; Reviewed; Region: era; PRK00089 434922001199 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 434922001200 G1 box; other site 434922001201 GTP/Mg2+ binding site [chemical binding]; other site 434922001202 Switch I region; other site 434922001203 G2 box; other site 434922001204 Switch II region; other site 434922001205 G3 box; other site 434922001206 G4 box; other site 434922001207 G5 box; other site 434922001208 KH domain; Region: KH_2; pfam07650 434922001209 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 434922001210 Recombination protein O N terminal; Region: RecO_N; pfam11967 434922001211 Recombination protein O C terminal; Region: RecO_C; pfam02565 434922001212 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 434922001213 active site 434922001214 hydrophilic channel; other site 434922001215 dimerization interface [polypeptide binding]; other site 434922001216 catalytic residues [active] 434922001217 active site lid [active] 434922001218 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 434922001219 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922001220 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922001221 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922001222 Sel1-like repeats; Region: SEL1; smart00671 434922001223 Sel1-like repeats; Region: SEL1; smart00671 434922001224 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922001225 AAA domain; Region: AAA_14; pfam13173 434922001226 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 434922001227 IHF dimer interface [polypeptide binding]; other site 434922001228 IHF - DNA interface [nucleotide binding]; other site 434922001229 EVE domain; Region: EVE; cl00728 434922001230 protease TldD; Provisional; Region: tldD; PRK10735 434922001231 Protein of unknown function; Region: DUF3971; pfam13116 434922001232 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 434922001233 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 434922001234 rod shape-determining protein MreC; Provisional; Region: PRK13922 434922001235 rod shape-determining protein MreC; Region: MreC; pfam04085 434922001236 rod shape-determining protein MreB; Provisional; Region: PRK13927 434922001237 MreB and similar proteins; Region: MreB_like; cd10225 434922001238 nucleotide binding site [chemical binding]; other site 434922001239 Mg binding site [ion binding]; other site 434922001240 putative protofilament interaction site [polypeptide binding]; other site 434922001241 RodZ interaction site [polypeptide binding]; other site 434922001242 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 434922001243 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 434922001244 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 434922001245 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 434922001246 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 434922001247 GatB domain; Region: GatB_Yqey; smart00845 434922001248 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 434922001249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434922001250 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 434922001251 dimerization interface [polypeptide binding]; other site 434922001252 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 434922001253 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 434922001254 dimer interface [polypeptide binding]; other site 434922001255 decamer (pentamer of dimers) interface [polypeptide binding]; other site 434922001256 catalytic triad [active] 434922001257 peroxidatic and resolving cysteines [active] 434922001258 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 434922001259 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 434922001260 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 434922001261 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 434922001262 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 434922001263 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 434922001264 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 434922001265 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 434922001266 dimer interface [polypeptide binding]; other site 434922001267 active site residues [active] 434922001268 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 434922001269 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 434922001270 D-galactonate transporter; Region: 2A0114; TIGR00893 434922001271 putative substrate translocation pore; other site 434922001272 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 434922001273 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 434922001274 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 434922001275 active site 434922001276 HIGH motif; other site 434922001277 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 434922001278 KMSKS motif; other site 434922001279 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 434922001280 tRNA binding surface [nucleotide binding]; other site 434922001281 anticodon binding site; other site 434922001282 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 434922001283 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922001284 HIGH motif; other site 434922001285 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922001286 active site 434922001287 KMSKS motif; other site 434922001288 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 434922001289 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434922001290 putative active site [active] 434922001291 putative metal binding site [ion binding]; other site 434922001292 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 434922001293 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 434922001294 sequence-specific DNA binding site [nucleotide binding]; other site 434922001295 salt bridge; other site 434922001296 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 434922001297 SurA N-terminal domain; Region: SurA_N_3; cl07813 434922001298 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 434922001299 triosephosphate isomerase; Provisional; Region: PRK14567 434922001300 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 434922001301 substrate binding site [chemical binding]; other site 434922001302 dimer interface [polypeptide binding]; other site 434922001303 catalytic triad [active] 434922001304 Preprotein translocase SecG subunit; Region: SecG; pfam03840 434922001305 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 434922001306 NADH dehydrogenase subunit B; Validated; Region: PRK06411 434922001307 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 434922001308 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 434922001309 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 434922001310 NADH dehydrogenase subunit D; Validated; Region: PRK06075 434922001311 NADH dehydrogenase subunit E; Validated; Region: PRK07539 434922001312 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 434922001313 putative dimer interface [polypeptide binding]; other site 434922001314 [2Fe-2S] cluster binding site [ion binding]; other site 434922001315 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 434922001316 SLBB domain; Region: SLBB; pfam10531 434922001317 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 434922001318 NADH dehydrogenase subunit G; Validated; Region: PRK09129 434922001319 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 434922001320 catalytic loop [active] 434922001321 iron binding site [ion binding]; other site 434922001322 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 434922001323 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 434922001324 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 434922001325 molybdopterin cofactor binding site; other site 434922001326 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 434922001327 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 434922001328 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 434922001329 4Fe-4S binding domain; Region: Fer4; pfam00037 434922001330 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 434922001331 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 434922001332 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 434922001333 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 434922001334 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 434922001335 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 434922001336 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 434922001337 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 434922001338 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 434922001339 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 434922001340 ribosome maturation protein RimP; Reviewed; Region: PRK00092 434922001341 Sm and related proteins; Region: Sm_like; cl00259 434922001342 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 434922001343 putative oligomer interface [polypeptide binding]; other site 434922001344 putative RNA binding site [nucleotide binding]; other site 434922001345 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 434922001346 NusA N-terminal domain; Region: NusA_N; pfam08529 434922001347 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 434922001348 RNA binding site [nucleotide binding]; other site 434922001349 homodimer interface [polypeptide binding]; other site 434922001350 NusA-like KH domain; Region: KH_5; pfam13184 434922001351 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 434922001352 G-X-X-G motif; other site 434922001353 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 434922001354 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 434922001355 translation initiation factor IF-2; Validated; Region: infB; PRK05306 434922001356 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 434922001357 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 434922001358 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 434922001359 G1 box; other site 434922001360 putative GEF interaction site [polypeptide binding]; other site 434922001361 GTP/Mg2+ binding site [chemical binding]; other site 434922001362 Switch I region; other site 434922001363 G2 box; other site 434922001364 G3 box; other site 434922001365 Switch II region; other site 434922001366 G4 box; other site 434922001367 G5 box; other site 434922001368 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 434922001369 Translation-initiation factor 2; Region: IF-2; pfam11987 434922001370 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 434922001371 ribosome-binding factor A; Provisional; Region: PRK13817 434922001372 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 434922001373 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 434922001374 RNA binding site [nucleotide binding]; other site 434922001375 active site 434922001376 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 434922001377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 434922001378 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922001379 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922001380 Protein of unknown function (DUF962); Region: DUF962; cl01879 434922001381 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 434922001382 Walker A motif; other site 434922001383 ATP binding site [chemical binding]; other site 434922001384 Walker B motif; other site 434922001385 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 434922001386 Walker A motif; other site 434922001387 ATP binding site [chemical binding]; other site 434922001388 Walker B motif; other site 434922001389 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 434922001390 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 434922001391 dimer interface [polypeptide binding]; other site 434922001392 active site 434922001393 Schiff base residues; other site 434922001394 DNA repair protein RadA; Provisional; Region: PRK11823 434922001395 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 434922001396 Walker A motif/ATP binding site; other site 434922001397 ATP binding site [chemical binding]; other site 434922001398 Walker B motif; other site 434922001399 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 434922001400 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 434922001401 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 434922001402 dimer interface [polypeptide binding]; other site 434922001403 active site 434922001404 glycine-pyridoxal phosphate binding site [chemical binding]; other site 434922001405 folate binding site [chemical binding]; other site 434922001406 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 434922001407 ATP cone domain; Region: ATP-cone; pfam03477 434922001408 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 434922001409 putative RNA binding site [nucleotide binding]; other site 434922001410 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 434922001411 non-specific DNA binding site [nucleotide binding]; other site 434922001412 salt bridge; other site 434922001413 sequence-specific DNA binding site [nucleotide binding]; other site 434922001414 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 434922001415 Catalytic site [active] 434922001416 thiamine monophosphate kinase; Provisional; Region: PRK05731 434922001417 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 434922001418 ATP binding site [chemical binding]; other site 434922001419 dimerization interface [polypeptide binding]; other site 434922001420 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 434922001421 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 434922001422 dimer interface [polypeptide binding]; other site 434922001423 active site 434922001424 citrylCoA binding site [chemical binding]; other site 434922001425 NADH binding [chemical binding]; other site 434922001426 cationic pore residues; other site 434922001427 oxalacetate/citrate binding site [chemical binding]; other site 434922001428 coenzyme A binding site [chemical binding]; other site 434922001429 catalytic triad [active] 434922001430 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 434922001431 Iron-sulfur protein interface; other site 434922001432 proximal quinone binding site [chemical binding]; other site 434922001433 SdhD (CybS) interface [polypeptide binding]; other site 434922001434 proximal heme binding site [chemical binding]; other site 434922001435 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 434922001436 SdhC subunit interface [polypeptide binding]; other site 434922001437 proximal heme binding site [chemical binding]; other site 434922001438 cardiolipin binding site; other site 434922001439 Iron-sulfur protein interface; other site 434922001440 proximal quinone binding site [chemical binding]; other site 434922001441 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 434922001442 L-aspartate oxidase; Provisional; Region: PRK06175 434922001443 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 434922001444 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 434922001445 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 434922001446 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 434922001447 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 434922001448 TPP-binding site [chemical binding]; other site 434922001449 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 434922001450 dimer interface [polypeptide binding]; other site 434922001451 PYR/PP interface [polypeptide binding]; other site 434922001452 TPP binding site [chemical binding]; other site 434922001453 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 434922001454 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 434922001455 E3 interaction surface; other site 434922001456 lipoyl attachment site [posttranslational modification]; other site 434922001457 e3 binding domain; Region: E3_binding; pfam02817 434922001458 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 434922001459 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 434922001460 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 434922001461 CoA-ligase; Region: Ligase_CoA; pfam00549 434922001462 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 434922001463 CoA binding domain; Region: CoA_binding; pfam02629 434922001464 CoA-ligase; Region: Ligase_CoA; pfam00549 434922001465 GtrA-like protein; Region: GtrA; pfam04138 434922001466 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434922001467 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 434922001468 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 434922001469 Active Sites [active] 434922001470 tyrosine decarboxylase; Region: PLN02880 434922001471 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 434922001472 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922001473 catalytic residue [active] 434922001474 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 434922001475 active site 434922001476 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 434922001477 rRNA interaction site [nucleotide binding]; other site 434922001478 S8 interaction site; other site 434922001479 putative laminin-1 binding site; other site 434922001480 elongation factor Ts; Provisional; Region: tsf; PRK09377 434922001481 UBA/TS-N domain; Region: UBA; pfam00627 434922001482 Elongation factor TS; Region: EF_TS; pfam00889 434922001483 Elongation factor TS; Region: EF_TS; pfam00889 434922001484 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 434922001485 putative nucleotide binding site [chemical binding]; other site 434922001486 uridine monophosphate binding site [chemical binding]; other site 434922001487 homohexameric interface [polypeptide binding]; other site 434922001488 ribosome recycling factor; Reviewed; Region: frr; PRK00083 434922001489 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 434922001490 hinge region; other site 434922001491 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 434922001492 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 434922001493 catalytic residue [active] 434922001494 putative FPP diphosphate binding site; other site 434922001495 putative FPP binding hydrophobic cleft; other site 434922001496 dimer interface [polypeptide binding]; other site 434922001497 putative IPP diphosphate binding site; other site 434922001498 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 434922001499 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 434922001500 Predicted membrane protein [Function unknown]; Region: COG2259 434922001501 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 434922001502 diphosphomevalonate decarboxylase; Region: PLN02407 434922001503 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 434922001504 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 434922001505 active site 434922001506 metal binding site [ion binding]; metal-binding site 434922001507 nudix motif; other site 434922001508 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 434922001509 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 434922001510 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 434922001511 mevalonate kinase; Region: mevalon_kin; TIGR00549 434922001512 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 434922001513 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 434922001514 homodimer interface [polypeptide binding]; other site 434922001515 substrate binding pocket [chemical binding]; other site 434922001516 catalytic residues [active] 434922001517 NADH/NADPH cofactor binding site [chemical binding]; other site 434922001518 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 434922001519 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434922001520 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434922001521 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434922001522 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434922001523 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434922001524 Surface antigen; Region: Bac_surface_Ag; pfam01103 434922001525 periplasmic chaperone; Provisional; Region: PRK10780 434922001526 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 434922001527 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 434922001528 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 434922001529 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 434922001530 trimer interface [polypeptide binding]; other site 434922001531 active site 434922001532 UDP-GlcNAc binding site [chemical binding]; other site 434922001533 lipid binding site [chemical binding]; lipid-binding site 434922001534 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 434922001535 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 434922001536 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 434922001537 active site 434922001538 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 434922001539 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 434922001540 active site 434922001541 motif I; other site 434922001542 motif II; other site 434922001543 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 434922001544 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 434922001545 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 434922001546 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 434922001547 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 434922001548 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 434922001549 nucleoside/Zn binding site; other site 434922001550 dimer interface [polypeptide binding]; other site 434922001551 catalytic motif [active] 434922001552 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 434922001553 dimer interface [polypeptide binding]; other site 434922001554 substrate binding site [chemical binding]; other site 434922001555 metal binding sites [ion binding]; metal-binding site 434922001556 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 434922001557 Proline dehydrogenase; Region: Pro_dh; pfam01619 434922001558 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 434922001559 Glutamate binding site [chemical binding]; other site 434922001560 NAD binding site [chemical binding]; other site 434922001561 catalytic residues [active] 434922001562 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 434922001563 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 434922001564 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 434922001565 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 434922001566 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 434922001567 dimerization interface [polypeptide binding]; other site 434922001568 ATP binding site [chemical binding]; other site 434922001569 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 434922001570 dimerization interface [polypeptide binding]; other site 434922001571 ATP binding site [chemical binding]; other site 434922001572 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 434922001573 putative active site [active] 434922001574 catalytic triad [active] 434922001575 Uncharacterized conserved protein [Function unknown]; Region: COG3461 434922001576 PAS domain; Region: PAS; smart00091 434922001577 PAS domain; Region: PAS_9; pfam13426 434922001578 putative active site [active] 434922001579 heme pocket [chemical binding]; other site 434922001580 PAS fold; Region: PAS_4; pfam08448 434922001581 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 434922001582 putative active site [active] 434922001583 heme pocket [chemical binding]; other site 434922001584 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 434922001585 dimer interface [polypeptide binding]; other site 434922001586 phosphorylation site [posttranslational modification] 434922001587 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922001588 ATP binding site [chemical binding]; other site 434922001589 Mg2+ binding site [ion binding]; other site 434922001590 G-X-G motif; other site 434922001591 Response regulator receiver domain; Region: Response_reg; pfam00072 434922001592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001593 active site 434922001594 phosphorylation site [posttranslational modification] 434922001595 intermolecular recognition site; other site 434922001596 dimerization interface [polypeptide binding]; other site 434922001597 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 434922001598 EamA-like transporter family; Region: EamA; pfam00892 434922001599 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 434922001600 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 434922001601 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 434922001602 E3 interaction surface; other site 434922001603 lipoyl attachment site [posttranslational modification]; other site 434922001604 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 434922001605 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 434922001606 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 434922001607 alpha subunit interface [polypeptide binding]; other site 434922001608 TPP binding site [chemical binding]; other site 434922001609 heterodimer interface [polypeptide binding]; other site 434922001610 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922001611 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 434922001612 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 434922001613 TPP-binding site [chemical binding]; other site 434922001614 tetramer interface [polypeptide binding]; other site 434922001615 heterodimer interface [polypeptide binding]; other site 434922001616 phosphorylation loop region [posttranslational modification] 434922001617 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 434922001618 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 434922001619 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 434922001620 NAD binding site [chemical binding]; other site 434922001621 Phe binding site; other site 434922001622 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 434922001623 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 434922001624 putative active site [active] 434922001625 catalytic site [active] 434922001626 putative metal binding site [ion binding]; other site 434922001627 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 434922001628 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 434922001629 catalytic motif [active] 434922001630 Zn binding site [ion binding]; other site 434922001631 RibD C-terminal domain; Region: RibD_C; cl17279 434922001632 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 434922001633 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 434922001634 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 434922001635 Lumazine binding domain; Region: Lum_binding; pfam00677 434922001636 Lumazine binding domain; Region: Lum_binding; pfam00677 434922001637 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 434922001638 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 434922001639 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 434922001640 dimerization interface [polypeptide binding]; other site 434922001641 active site 434922001642 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 434922001643 homopentamer interface [polypeptide binding]; other site 434922001644 active site 434922001645 Domain of unknown function DUF20; Region: UPF0118; pfam01594 434922001646 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 434922001647 hypothetical protein; Validated; Region: PRK00153 434922001648 recombination protein RecR; Reviewed; Region: recR; PRK00076 434922001649 RecR protein; Region: RecR; pfam02132 434922001650 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 434922001651 putative active site [active] 434922001652 putative metal-binding site [ion binding]; other site 434922001653 tetramer interface [polypeptide binding]; other site 434922001654 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 434922001655 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14958 434922001656 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 434922001657 Walker A motif; other site 434922001658 ATP binding site [chemical binding]; other site 434922001659 Walker B motif; other site 434922001660 arginine finger; other site 434922001661 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 434922001662 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 434922001663 AAA domain; Region: AAA_14; pfam13173 434922001664 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922001665 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 434922001666 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 434922001667 metal binding site [ion binding]; metal-binding site 434922001668 dimer interface [polypeptide binding]; other site 434922001669 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 434922001670 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 434922001671 trimer interface [polypeptide binding]; other site 434922001672 active site 434922001673 substrate binding site [chemical binding]; other site 434922001674 CoA binding site [chemical binding]; other site 434922001675 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 434922001676 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 434922001677 ATP binding site [chemical binding]; other site 434922001678 Mg++ binding site [ion binding]; other site 434922001679 motif III; other site 434922001680 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 434922001681 nucleotide binding region [chemical binding]; other site 434922001682 ATP-binding site [chemical binding]; other site 434922001683 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 434922001684 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 434922001685 Substrate binding site; other site 434922001686 Cupin domain; Region: Cupin_2; cl17218 434922001687 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 434922001688 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 434922001689 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 434922001690 active site 434922001691 motif I; other site 434922001692 motif II; other site 434922001693 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 434922001694 dimer interface [polypeptide binding]; other site 434922001695 active site 434922001696 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 434922001697 active site 434922001698 intersubunit interactions; other site 434922001699 catalytic residue [active] 434922001700 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922001701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001702 NAD(P) binding site [chemical binding]; other site 434922001703 active site 434922001704 N-terminal domain of RfaE; Region: RfaE_N; cd02172 434922001705 putative active site [active] 434922001706 (T/H)XGH motif; other site 434922001707 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 434922001708 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 434922001709 putative ribose interaction site [chemical binding]; other site 434922001710 putative ADP binding site [chemical binding]; other site 434922001711 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 434922001712 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 434922001713 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 434922001714 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 434922001715 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 434922001716 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 434922001717 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 434922001718 extended (e) SDRs; Region: SDR_e; cd08946 434922001719 NAD(P) binding site [chemical binding]; other site 434922001720 active site 434922001721 substrate binding site [chemical binding]; other site 434922001722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001723 Methyltransferase domain; Region: Methyltransf_31; pfam13847 434922001724 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 434922001725 S-adenosylmethionine binding site [chemical binding]; other site 434922001726 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 434922001727 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 434922001728 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922001729 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 434922001730 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 434922001731 NADP binding site [chemical binding]; other site 434922001732 active site 434922001733 putative substrate binding site [chemical binding]; other site 434922001734 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 434922001735 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 434922001736 NADP-binding site; other site 434922001737 homotetramer interface [polypeptide binding]; other site 434922001738 substrate binding site [chemical binding]; other site 434922001739 homodimer interface [polypeptide binding]; other site 434922001740 active site 434922001741 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 434922001742 active site 434922001743 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 434922001744 Methyltransferase domain; Region: Methyltransf_23; pfam13489 434922001745 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 434922001746 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 434922001747 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 434922001748 alpha subunit interface [polypeptide binding]; other site 434922001749 TPP binding site [chemical binding]; other site 434922001750 heterodimer interface [polypeptide binding]; other site 434922001751 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434922001752 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 434922001753 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 434922001754 tetramer interface [polypeptide binding]; other site 434922001755 TPP-binding site [chemical binding]; other site 434922001756 heterodimer interface [polypeptide binding]; other site 434922001757 phosphorylation loop region [posttranslational modification] 434922001758 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 434922001759 active site 434922001760 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 434922001761 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 434922001762 inhibitor-cofactor binding pocket; inhibition site 434922001763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922001764 catalytic residue [active] 434922001765 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 434922001766 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 434922001767 inhibitor-cofactor binding pocket; inhibition site 434922001768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922001769 catalytic residue [active] 434922001770 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 434922001771 ATP-sulfurylase; Region: ATPS; cd00517 434922001772 active site 434922001773 HXXH motif; other site 434922001774 flexible loop; other site 434922001775 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 434922001776 ligand-binding site [chemical binding]; other site 434922001777 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 434922001778 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 434922001779 active site 434922001780 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 434922001781 classical (c) SDRs; Region: SDR_c; cd05233 434922001782 NAD(P) binding site [chemical binding]; other site 434922001783 active site 434922001784 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 434922001785 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 434922001786 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 434922001787 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 434922001788 Walker A/P-loop; other site 434922001789 ATP binding site [chemical binding]; other site 434922001790 Q-loop/lid; other site 434922001791 ABC transporter signature motif; other site 434922001792 Walker B; other site 434922001793 D-loop; other site 434922001794 H-loop/switch region; other site 434922001795 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 434922001796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 434922001797 response regulator; Provisional; Region: PRK09483 434922001798 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001799 active site 434922001800 phosphorylation site [posttranslational modification] 434922001801 intermolecular recognition site; other site 434922001802 dimerization interface [polypeptide binding]; other site 434922001803 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 434922001804 DNA binding residues [nucleotide binding] 434922001805 dimerization interface [polypeptide binding]; other site 434922001806 phosphate:H+ symporter; Region: 2A0109; TIGR00887 434922001807 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 434922001808 putative substrate translocation pore; other site 434922001809 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 434922001810 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 434922001811 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 434922001812 dimer interface [polypeptide binding]; other site 434922001813 active site 434922001814 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922001815 catalytic residues [active] 434922001816 substrate binding site [chemical binding]; other site 434922001817 deoxyhypusine synthase-like protein; Provisional; Region: PRK02492 434922001818 deoxyhypusine synthase; Region: dhys; TIGR00321 434922001819 agmatinase; Region: agmatinase; TIGR01230 434922001820 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 434922001821 putative active site [active] 434922001822 Mn binding site [ion binding]; other site 434922001823 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 434922001824 pyruvate dehydrogenase; Provisional; Region: PRK09124 434922001825 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 434922001826 PYR/PP interface [polypeptide binding]; other site 434922001827 tetramer interface [polypeptide binding]; other site 434922001828 dimer interface [polypeptide binding]; other site 434922001829 TPP binding site [chemical binding]; other site 434922001830 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 434922001831 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 434922001832 TPP-binding site [chemical binding]; other site 434922001833 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 434922001834 Beta-lactamase; Region: Beta-lactamase; cl17358 434922001835 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 434922001836 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 434922001837 anti sigma factor interaction site; other site 434922001838 regulatory phosphorylation site [posttranslational modification]; other site 434922001839 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 434922001840 Permease; Region: Permease; pfam02405 434922001841 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 434922001842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922001843 Walker A/P-loop; other site 434922001844 ATP binding site [chemical binding]; other site 434922001845 Q-loop/lid; other site 434922001846 ABC transporter signature motif; other site 434922001847 Walker B; other site 434922001848 D-loop; other site 434922001849 H-loop/switch region; other site 434922001850 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 434922001851 mce related protein; Region: MCE; pfam02470 434922001852 Protein of unknown function (DUF330); Region: DUF330; cl01135 434922001853 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 434922001854 trigger factor; Provisional; Region: tig; PRK01490 434922001855 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 434922001856 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 434922001857 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 434922001858 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 434922001859 oligomer interface [polypeptide binding]; other site 434922001860 active site residues [active] 434922001861 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 434922001862 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 434922001863 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 434922001864 Walker A motif; other site 434922001865 ATP binding site [chemical binding]; other site 434922001866 Walker B motif; other site 434922001867 arginine finger; other site 434922001868 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 434922001869 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 434922001870 Found in ATP-dependent protease La (LON); Region: LON; smart00464 434922001871 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 434922001872 Walker A motif; other site 434922001873 ATP binding site [chemical binding]; other site 434922001874 Walker B motif; other site 434922001875 arginine finger; other site 434922001876 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 434922001877 peptidase PmbA; Provisional; Region: PRK11040 434922001878 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 434922001879 dimerization domain swap beta strand [polypeptide binding]; other site 434922001880 regulatory protein interface [polypeptide binding]; other site 434922001881 active site 434922001882 regulatory phosphorylation site [posttranslational modification]; other site 434922001883 HPr kinase/phosphorylase; Provisional; Region: PRK05428 434922001884 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 434922001885 Hpr binding site; other site 434922001886 active site 434922001887 homohexamer subunit interaction site [polypeptide binding]; other site 434922001888 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 434922001889 30S subunit binding site; other site 434922001890 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 434922001891 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 434922001892 Walker A/P-loop; other site 434922001893 ATP binding site [chemical binding]; other site 434922001894 Q-loop/lid; other site 434922001895 ABC transporter signature motif; other site 434922001896 Walker B; other site 434922001897 D-loop; other site 434922001898 H-loop/switch region; other site 434922001899 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 434922001900 OstA-like protein; Region: OstA; pfam03968 434922001901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 434922001902 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 434922001903 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 434922001904 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 434922001905 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 434922001906 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 434922001907 putative active site [active] 434922001908 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 434922001909 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 434922001910 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 434922001911 hinge; other site 434922001912 active site 434922001913 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 434922001914 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 434922001915 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922001916 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434922001917 HlyD family secretion protein; Region: HlyD_3; pfam13437 434922001918 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 434922001919 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 434922001920 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 434922001921 protein binding site [polypeptide binding]; other site 434922001922 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 434922001923 protein binding site [polypeptide binding]; other site 434922001924 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 434922001925 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 434922001926 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 434922001927 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 434922001928 RNA binding surface [nucleotide binding]; other site 434922001929 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 434922001930 active site 434922001931 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 434922001932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922001933 Response regulator receiver domain; Region: Response_reg; pfam00072 434922001934 active site 434922001935 phosphorylation site [posttranslational modification] 434922001936 intermolecular recognition site; other site 434922001937 dimerization interface [polypeptide binding]; other site 434922001938 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 434922001939 non-specific DNA binding site [nucleotide binding]; other site 434922001940 salt bridge; other site 434922001941 sequence-specific DNA binding site [nucleotide binding]; other site 434922001942 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 434922001943 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 434922001944 acyl-activating enzyme (AAE) consensus motif; other site 434922001945 putative AMP binding site [chemical binding]; other site 434922001946 putative active site [active] 434922001947 putative CoA binding site [chemical binding]; other site 434922001948 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 434922001949 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 434922001950 putative substrate translocation pore; other site 434922001951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001952 Predicted transcriptional regulator [Transcription]; Region: COG3655 434922001953 salt bridge; other site 434922001954 non-specific DNA binding site [nucleotide binding]; other site 434922001955 sequence-specific DNA binding site [nucleotide binding]; other site 434922001956 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 434922001957 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 434922001958 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922001959 Sel1-like repeats; Region: SEL1; smart00671 434922001960 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 434922001961 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 434922001962 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 434922001963 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 434922001964 Multicopper oxidase; Region: Cu-oxidase; pfam00394 434922001965 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 434922001966 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 434922001967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922001968 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922001969 NAD(P) binding site [chemical binding]; other site 434922001970 active site 434922001971 Vitamin K epoxide reductase family in bacteria; Region: VKOR_2; cd12919 434922001972 putative active site [active] 434922001973 redox center [active] 434922001974 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 434922001975 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 434922001976 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922001977 putative substrate translocation pore; other site 434922001978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434922001979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434922001980 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 434922001981 putative effector binding pocket; other site 434922001982 dimerization interface [polypeptide binding]; other site 434922001983 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 434922001984 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 434922001985 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 434922001986 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 434922001987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434922001988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434922001989 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 434922001990 putative effector binding pocket; other site 434922001991 dimerization interface [polypeptide binding]; other site 434922001992 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 434922001993 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 434922001994 active site 434922001995 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 434922001996 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 434922001997 catalytic triad [active] 434922001998 AAA domain; Region: AAA_14; pfam13173 434922001999 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922002000 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 434922002001 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 434922002002 tetramer interface [polypeptide binding]; other site 434922002003 active site 434922002004 Mg2+/Mn2+ binding site [ion binding]; other site 434922002005 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 434922002006 dimer interface [polypeptide binding]; other site 434922002007 Citrate synthase; Region: Citrate_synt; pfam00285 434922002008 active site 434922002009 citrylCoA binding site [chemical binding]; other site 434922002010 oxalacetate/citrate binding site [chemical binding]; other site 434922002011 coenzyme A binding site [chemical binding]; other site 434922002012 catalytic triad [active] 434922002013 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 434922002014 putative dimer interface [polypeptide binding]; other site 434922002015 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 434922002016 PspC domain; Region: PspC; pfam04024 434922002017 Predicted transcriptional regulators [Transcription]; Region: COG1725 434922002018 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 434922002019 DNA-binding site [nucleotide binding]; DNA binding site 434922002020 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 434922002021 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 434922002022 Walker A/P-loop; other site 434922002023 ATP binding site [chemical binding]; other site 434922002024 Q-loop/lid; other site 434922002025 ABC transporter signature motif; other site 434922002026 Walker B; other site 434922002027 D-loop; other site 434922002028 H-loop/switch region; other site 434922002029 intracellular protease, PfpI family; Region: PfpI; TIGR01382 434922002030 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 434922002031 proposed catalytic triad [active] 434922002032 conserved cys residue [active] 434922002033 response regulator; Provisional; Region: PRK09483 434922002034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002035 active site 434922002036 phosphorylation site [posttranslational modification] 434922002037 intermolecular recognition site; other site 434922002038 dimerization interface [polypeptide binding]; other site 434922002039 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 434922002040 DNA binding residues [nucleotide binding] 434922002041 dimerization interface [polypeptide binding]; other site 434922002042 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 434922002043 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002044 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 434922002045 CoA-transferase family III; Region: CoA_transf_3; pfam02515 434922002046 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 434922002047 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 434922002048 acyl-activating enzyme (AAE) consensus motif; other site 434922002049 AMP binding site [chemical binding]; other site 434922002050 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 434922002051 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 434922002052 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 434922002053 active site 434922002054 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 434922002055 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 434922002056 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 434922002057 KR domain; Region: KR; pfam08659 434922002058 putative NADP binding site [chemical binding]; other site 434922002059 active site 434922002060 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 434922002061 PAS fold; Region: PAS_4; pfam08448 434922002062 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 434922002063 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 434922002064 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 434922002065 dimer interface [polypeptide binding]; other site 434922002066 phosphorylation site [posttranslational modification] 434922002067 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922002068 ATP binding site [chemical binding]; other site 434922002069 Mg2+ binding site [ion binding]; other site 434922002070 G-X-G motif; other site 434922002071 Response regulator receiver domain; Region: Response_reg; pfam00072 434922002072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002073 active site 434922002074 phosphorylation site [posttranslational modification] 434922002075 intermolecular recognition site; other site 434922002076 dimerization interface [polypeptide binding]; other site 434922002077 Uncharacterized conserved protein [Function unknown]; Region: COG1944 434922002078 YcaO-like family; Region: YcaO; pfam02624 434922002079 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 434922002080 YcaO-like family; Region: YcaO; pfam02624 434922002081 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 434922002082 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922002083 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 434922002084 putative substrate translocation pore; other site 434922002085 Pathogenicity locus; Region: Cdd1; pfam11731 434922002086 hypothetical protein; Provisional; Region: PRK06126 434922002087 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 434922002088 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 434922002089 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 434922002090 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 434922002091 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 434922002092 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 434922002093 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 434922002094 DNA binding site [nucleotide binding] 434922002095 active site 434922002096 SnoaL-like domain; Region: SnoaL_2; pfam12680 434922002097 Uncharacterized conserved protein [Function unknown]; Region: COG1359 434922002098 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 434922002099 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 434922002100 DNA binding residues [nucleotide binding] 434922002101 dimerization interface [polypeptide binding]; other site 434922002102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 434922002103 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 434922002104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 434922002105 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 434922002106 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 434922002107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922002108 Walker A/P-loop; other site 434922002109 ATP binding site [chemical binding]; other site 434922002110 Q-loop/lid; other site 434922002111 ABC transporter signature motif; other site 434922002112 Walker B; other site 434922002113 D-loop; other site 434922002114 H-loop/switch region; other site 434922002115 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434922002116 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 434922002117 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 434922002118 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 434922002119 active site 434922002120 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 434922002121 FAD binding domain; Region: FAD_binding_4; pfam01565 434922002122 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 434922002123 homodecamer interface [polypeptide binding]; other site 434922002124 GTP cyclohydrolase I; Provisional; Region: PLN03044 434922002125 active site 434922002126 putative catalytic site residues [active] 434922002127 zinc binding site [ion binding]; other site 434922002128 GTP-CH-I/GFRP interaction surface; other site 434922002129 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 434922002130 nucleotide binding site/active site [active] 434922002131 HIT family signature motif; other site 434922002132 catalytic residue [active] 434922002133 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 434922002134 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922002135 putative substrate translocation pore; other site 434922002136 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 434922002137 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434922002138 HlyD family secretion protein; Region: HlyD_3; pfam13437 434922002139 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 434922002140 active site 434922002141 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 434922002142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434922002143 Coenzyme A binding pocket [chemical binding]; other site 434922002144 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922002145 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434922002146 HlyD family secretion protein; Region: HlyD_3; pfam13437 434922002147 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 434922002148 Beta-lactamase; Region: Beta-lactamase; pfam00144 434922002149 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 434922002150 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 434922002151 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 434922002152 HIGH motif; other site 434922002153 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434922002154 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 434922002155 active site 434922002156 KMSKS motif; other site 434922002157 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 434922002158 tRNA binding surface [nucleotide binding]; other site 434922002159 anticodon binding site; other site 434922002160 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 434922002161 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 434922002162 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 434922002163 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 434922002164 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 434922002165 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 434922002166 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 434922002167 G1 box; other site 434922002168 putative GEF interaction site [polypeptide binding]; other site 434922002169 GTP/Mg2+ binding site [chemical binding]; other site 434922002170 Switch I region; other site 434922002171 G2 box; other site 434922002172 G3 box; other site 434922002173 Switch II region; other site 434922002174 G4 box; other site 434922002175 G5 box; other site 434922002176 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 434922002177 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 434922002178 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 434922002179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 434922002180 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 434922002181 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 434922002182 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 434922002183 C-terminal domain interface [polypeptide binding]; other site 434922002184 GSH binding site (G-site) [chemical binding]; other site 434922002185 dimer interface [polypeptide binding]; other site 434922002186 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 434922002187 N-terminal domain interface [polypeptide binding]; other site 434922002188 dimer interface [polypeptide binding]; other site 434922002189 substrate binding pocket (H-site) [chemical binding]; other site 434922002190 Leucine rich repeat; Region: LRR_8; pfam13855 434922002191 Leucine rich repeat; Region: LRR_8; pfam13855 434922002192 Fic family protein [Function unknown]; Region: COG3177 434922002193 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 434922002194 Fic/DOC family; Region: Fic; pfam02661 434922002195 malate dehydrogenase; Provisional; Region: PRK13529 434922002196 Malic enzyme, N-terminal domain; Region: malic; pfam00390 434922002197 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 434922002198 NAD(P) binding site [chemical binding]; other site 434922002199 adenylosuccinate lyase; Provisional; Region: PRK09285 434922002200 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 434922002201 tetramer interface [polypeptide binding]; other site 434922002202 active site 434922002203 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 434922002204 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 434922002205 inhibitor-cofactor binding pocket; inhibition site 434922002206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922002207 catalytic residue [active] 434922002208 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 434922002209 transcriptional activator RfaH; Region: RfaH; TIGR01955 434922002210 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 434922002211 heterodimer interface [polypeptide binding]; other site 434922002212 homodimer interface [polypeptide binding]; other site 434922002213 Transcriptional regulators [Transcription]; Region: MarR; COG1846 434922002214 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 434922002215 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 434922002216 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 434922002217 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 434922002218 putative trimer interface [polypeptide binding]; other site 434922002219 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 434922002220 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 434922002221 putative CoA binding site [chemical binding]; other site 434922002222 putative trimer interface [polypeptide binding]; other site 434922002223 putative active site [active] 434922002224 putative substrate binding site [chemical binding]; other site 434922002225 putative CoA binding site [chemical binding]; other site 434922002226 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922002227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922002228 NAD(P) binding site [chemical binding]; other site 434922002229 active site 434922002230 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 434922002231 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 434922002232 inhibitor-cofactor binding pocket; inhibition site 434922002233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922002234 catalytic residue [active] 434922002235 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 434922002236 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 434922002237 active site 434922002238 dimer interface [polypeptide binding]; other site 434922002239 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 434922002240 Ligand Binding Site [chemical binding]; other site 434922002241 Molecular Tunnel; other site 434922002242 maltose O-acetyltransferase; Provisional; Region: PRK10092 434922002243 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 434922002244 trimer interface [polypeptide binding]; other site 434922002245 active site 434922002246 substrate binding site [chemical binding]; other site 434922002247 CoA binding site [chemical binding]; other site 434922002248 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 434922002249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922002250 Walker A/P-loop; other site 434922002251 ATP binding site [chemical binding]; other site 434922002252 Q-loop/lid; other site 434922002253 ABC transporter signature motif; other site 434922002254 Walker B; other site 434922002255 D-loop; other site 434922002256 H-loop/switch region; other site 434922002257 Methyltransferase domain; Region: Methyltransf_31; pfam13847 434922002258 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 434922002259 S-adenosylmethionine binding site [chemical binding]; other site 434922002260 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 434922002261 Radical SAM superfamily; Region: Radical_SAM; pfam04055 434922002262 FeS/SAM binding site; other site 434922002263 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 434922002264 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 434922002265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002266 putative ADP-binding pocket [chemical binding]; other site 434922002267 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002268 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 434922002269 putative ADP-binding pocket [chemical binding]; other site 434922002270 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 434922002271 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 434922002272 active site 434922002273 dimer interface [polypeptide binding]; other site 434922002274 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 434922002275 Ligand Binding Site [chemical binding]; other site 434922002276 Molecular Tunnel; other site 434922002277 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 434922002278 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002279 putative ADP-binding pocket [chemical binding]; other site 434922002280 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 434922002281 active site 434922002282 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 434922002283 homodimer interface [polypeptide binding]; other site 434922002284 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434922002285 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 434922002286 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 434922002287 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 434922002288 putative NAD(P) binding site [chemical binding]; other site 434922002289 active site 434922002290 putative substrate binding site [chemical binding]; other site 434922002291 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 434922002292 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 434922002293 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 434922002294 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 434922002295 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 434922002296 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 434922002297 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 434922002298 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 434922002299 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 434922002300 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 434922002301 NAD binding site [chemical binding]; other site 434922002302 homodimer interface [polypeptide binding]; other site 434922002303 homotetramer interface [polypeptide binding]; other site 434922002304 active site 434922002305 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 434922002306 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 434922002307 active site 434922002308 dimer interface [polypeptide binding]; other site 434922002309 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 434922002310 dimer interface [polypeptide binding]; other site 434922002311 active site 434922002312 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 434922002313 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 434922002314 active site 434922002315 tetramer interface; other site 434922002316 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 434922002317 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 434922002318 16S/18S rRNA binding site [nucleotide binding]; other site 434922002319 S13e-L30e interaction site [polypeptide binding]; other site 434922002320 25S rRNA binding site [nucleotide binding]; other site 434922002321 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 434922002322 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 434922002323 RNase E interface [polypeptide binding]; other site 434922002324 trimer interface [polypeptide binding]; other site 434922002325 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 434922002326 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 434922002327 RNase E interface [polypeptide binding]; other site 434922002328 trimer interface [polypeptide binding]; other site 434922002329 active site 434922002330 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 434922002331 putative nucleic acid binding region [nucleotide binding]; other site 434922002332 G-X-X-G motif; other site 434922002333 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 434922002334 RNA binding site [nucleotide binding]; other site 434922002335 domain interface; other site 434922002336 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 434922002337 active site 434922002338 dimer interfaces [polypeptide binding]; other site 434922002339 catalytic residues [active] 434922002340 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 434922002341 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434922002342 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 434922002343 Walker A/P-loop; other site 434922002344 ATP binding site [chemical binding]; other site 434922002345 Q-loop/lid; other site 434922002346 ABC transporter signature motif; other site 434922002347 Walker B; other site 434922002348 D-loop; other site 434922002349 H-loop/switch region; other site 434922002350 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 434922002351 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 434922002352 NAD synthetase; Provisional; Region: PRK13981 434922002353 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 434922002354 multimer interface [polypeptide binding]; other site 434922002355 active site 434922002356 catalytic triad [active] 434922002357 protein interface 1 [polypeptide binding]; other site 434922002358 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 434922002359 homodimer interface [polypeptide binding]; other site 434922002360 NAD binding pocket [chemical binding]; other site 434922002361 ATP binding pocket [chemical binding]; other site 434922002362 Mg binding site [ion binding]; other site 434922002363 active-site loop [active] 434922002364 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 434922002365 ankyrin-like protein; Provisional; Region: PHA03095 434922002366 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 434922002367 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 434922002368 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 434922002369 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 434922002370 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 434922002371 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 434922002372 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 434922002373 AAA domain; Region: AAA_25; pfam13481 434922002374 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 434922002375 Walker A motif; other site 434922002376 ATP binding site [chemical binding]; other site 434922002377 Walker B motif; other site 434922002378 DNA binding loops [nucleotide binding] 434922002379 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 434922002380 protein-splicing catalytic site; other site 434922002381 thioester formation/cholesterol transfer; other site 434922002382 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 434922002383 alanine racemase; Reviewed; Region: alr; PRK00053 434922002384 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 434922002385 active site 434922002386 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922002387 substrate binding site [chemical binding]; other site 434922002388 catalytic residues [active] 434922002389 dimer interface [polypeptide binding]; other site 434922002390 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 434922002391 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 434922002392 putative deacylase active site [active] 434922002393 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 434922002394 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 434922002395 Sugar specificity; other site 434922002396 Pyrimidine base specificity; other site 434922002397 ATP-binding site [chemical binding]; other site 434922002398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 434922002399 Smr domain; Region: Smr; pfam01713 434922002400 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 434922002401 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 434922002402 Tetramer interface [polypeptide binding]; other site 434922002403 active site 434922002404 FMN-binding site [chemical binding]; other site 434922002405 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 434922002406 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 434922002407 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 434922002408 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 434922002409 ATP binding site [chemical binding]; other site 434922002410 substrate interface [chemical binding]; other site 434922002411 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 434922002412 active site residue [active] 434922002413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 434922002414 Integrase core domain; Region: rve; pfam00665 434922002415 Integrase core domain; Region: rve_3; pfam13683 434922002416 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 434922002417 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 434922002418 G1 box; other site 434922002419 putative GEF interaction site [polypeptide binding]; other site 434922002420 GTP/Mg2+ binding site [chemical binding]; other site 434922002421 Switch I region; other site 434922002422 G2 box; other site 434922002423 G3 box; other site 434922002424 Switch II region; other site 434922002425 G4 box; other site 434922002426 G5 box; other site 434922002427 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 434922002428 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 434922002429 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 434922002430 active site 434922002431 motif I; other site 434922002432 motif II; other site 434922002433 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 434922002434 Flavoprotein; Region: Flavoprotein; pfam02441 434922002435 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 434922002436 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 434922002437 active site 434922002438 nucleophile elbow; other site 434922002439 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 434922002440 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 434922002441 Thioredoxin; Region: Thioredoxin_4; pfam13462 434922002442 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 434922002443 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 434922002444 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 434922002445 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 434922002446 dimerization interface 3.5A [polypeptide binding]; other site 434922002447 active site 434922002448 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 434922002449 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 434922002450 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 434922002451 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922002452 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922002453 Sporulation related domain; Region: SPOR; pfam05036 434922002454 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 434922002455 Colicin V production protein; Region: Colicin_V; cl00567 434922002456 amidophosphoribosyltransferase; Provisional; Region: PRK09246 434922002457 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 434922002458 tetramer interface [polypeptide binding]; other site 434922002459 active site 434922002460 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922002461 active site 434922002462 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 434922002463 protease interaction site; other site 434922002464 Protein required for attachment to host cells; Region: Host_attach; pfam10116 434922002465 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922002466 Helix-turn-helix domain; Region: HTH_38; pfam13936 434922002467 Integrase core domain; Region: rve; pfam00665 434922002468 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 434922002469 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 434922002470 FMN binding site [chemical binding]; other site 434922002471 active site 434922002472 catalytic residues [active] 434922002473 substrate binding site [chemical binding]; other site 434922002474 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 434922002475 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 434922002476 putative substrate translocation pore; other site 434922002477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922002478 intracellular septation protein A; Reviewed; Region: PRK00259 434922002479 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 434922002480 Phosphotransferase enzyme family; Region: APH; pfam01636 434922002481 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 434922002482 active site 434922002483 ATP binding site [chemical binding]; other site 434922002484 substrate binding site [chemical binding]; other site 434922002485 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 434922002486 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 434922002487 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 434922002488 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 434922002489 RNA binding surface [nucleotide binding]; other site 434922002490 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 434922002491 probable active site [active] 434922002492 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 434922002493 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 434922002494 Ligand binding site; other site 434922002495 Putative Catalytic site; other site 434922002496 DXD motif; other site 434922002497 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 434922002498 MutS domain I; Region: MutS_I; pfam01624 434922002499 MutS domain II; Region: MutS_II; pfam05188 434922002500 MutS domain III; Region: MutS_III; pfam05192 434922002501 MutS domain V; Region: MutS_V; pfam00488 434922002502 Walker A/P-loop; other site 434922002503 ATP binding site [chemical binding]; other site 434922002504 Q-loop/lid; other site 434922002505 ABC transporter signature motif; other site 434922002506 Walker B; other site 434922002507 D-loop; other site 434922002508 H-loop/switch region; other site 434922002509 Competence-damaged protein; Region: CinA; pfam02464 434922002510 recombinase A; Provisional; Region: recA; PRK09354 434922002511 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 434922002512 hexamer interface [polypeptide binding]; other site 434922002513 Walker A motif; other site 434922002514 ATP binding site [chemical binding]; other site 434922002515 Walker B motif; other site 434922002516 recombination regulator RecX; Reviewed; Region: recX; PRK00117 434922002517 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 434922002518 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 434922002519 motif 1; other site 434922002520 active site 434922002521 motif 2; other site 434922002522 motif 3; other site 434922002523 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 434922002524 DHHA1 domain; Region: DHHA1; pfam02272 434922002525 aspartate kinase; Reviewed; Region: PRK06635 434922002526 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 434922002527 putative nucleotide binding site [chemical binding]; other site 434922002528 putative catalytic residues [active] 434922002529 putative Mg ion binding site [ion binding]; other site 434922002530 putative aspartate binding site [chemical binding]; other site 434922002531 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 434922002532 putative allosteric regulatory site; other site 434922002533 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 434922002534 putative allosteric regulatory residue; other site 434922002535 carbon storage regulator; Provisional; Region: PRK01712 434922002536 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002537 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002538 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002539 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002540 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002541 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002542 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002543 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002544 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002545 This domain is found in various eukaryotic species, particularly in apicomplexans; Region: RAP; smart00952 434922002546 response regulator; Provisional; Region: PRK09483 434922002547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002548 active site 434922002549 phosphorylation site [posttranslational modification] 434922002550 intermolecular recognition site; other site 434922002551 dimerization interface [polypeptide binding]; other site 434922002552 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 434922002553 DNA binding residues [nucleotide binding] 434922002554 dimerization interface [polypeptide binding]; other site 434922002555 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 434922002556 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 434922002557 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 434922002558 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 434922002559 D-pathway; other site 434922002560 Putative ubiquinol binding site [chemical binding]; other site 434922002561 Low-spin heme (heme b) binding site [chemical binding]; other site 434922002562 Putative water exit pathway; other site 434922002563 Binuclear center (heme o3/CuB) [ion binding]; other site 434922002564 K-pathway; other site 434922002565 Putative proton exit pathway; other site 434922002566 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 434922002567 Subunit I/III interface [polypeptide binding]; other site 434922002568 Subunit III/IV interface [polypeptide binding]; other site 434922002569 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 434922002570 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 434922002571 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 434922002572 MarR family; Region: MarR_2; pfam12802 434922002573 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 434922002574 Isochorismatase family; Region: Isochorismatase; pfam00857 434922002575 catalytic triad [active] 434922002576 metal binding site [ion binding]; metal-binding site 434922002577 conserved cis-peptide bond; other site 434922002578 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 434922002579 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 434922002580 active site 434922002581 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 434922002582 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 434922002583 catalytic residue [active] 434922002584 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 434922002585 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922002586 catalytic residue [active] 434922002587 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 434922002588 active site 434922002589 CoA binding site [chemical binding]; other site 434922002590 AMP binding site [chemical binding]; other site 434922002591 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 434922002592 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 434922002593 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 434922002594 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 434922002595 Walker A motif; other site 434922002596 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 434922002597 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002598 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002599 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 434922002600 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002601 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 434922002602 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002603 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 434922002604 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002605 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 434922002606 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002607 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002608 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 434922002609 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 434922002610 putative NAD(P) binding site [chemical binding]; other site 434922002611 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 434922002612 active site 434922002613 NTP binding site [chemical binding]; other site 434922002614 metal binding triad [ion binding]; metal-binding site 434922002615 antibiotic binding site [chemical binding]; other site 434922002616 AAA domain; Region: AAA_14; pfam13173 434922002617 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922002618 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 434922002619 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 434922002620 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 434922002621 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 434922002622 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 434922002623 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 434922002624 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 434922002625 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 434922002626 inhibitor-cofactor binding pocket; inhibition site 434922002627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922002628 catalytic residue [active] 434922002629 biotin synthase; Region: bioB; TIGR00433 434922002630 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 434922002631 FeS/SAM binding site; other site 434922002632 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 434922002633 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 434922002634 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 434922002635 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922002636 catalytic residue [active] 434922002637 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 434922002638 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 434922002639 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 434922002640 S-adenosylmethionine binding site [chemical binding]; other site 434922002641 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 434922002642 AAA domain; Region: AAA_26; pfam13500 434922002643 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 434922002644 Biotin operon repressor [Transcription]; Region: BirA; COG1654 434922002645 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 434922002646 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 434922002647 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 434922002648 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434922002649 FtsX-like permease family; Region: FtsX; pfam02687 434922002650 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 434922002651 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 434922002652 Walker A/P-loop; other site 434922002653 ATP binding site [chemical binding]; other site 434922002654 Q-loop/lid; other site 434922002655 ABC transporter signature motif; other site 434922002656 Walker B; other site 434922002657 D-loop; other site 434922002658 H-loop/switch region; other site 434922002659 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 434922002660 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 434922002661 HflX GTPase family; Region: HflX; cd01878 434922002662 G1 box; other site 434922002663 GTP/Mg2+ binding site [chemical binding]; other site 434922002664 Switch I region; other site 434922002665 G2 box; other site 434922002666 G3 box; other site 434922002667 Switch II region; other site 434922002668 G4 box; other site 434922002669 G5 box; other site 434922002670 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 434922002671 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 434922002672 GDP-binding site [chemical binding]; other site 434922002673 ACT binding site; other site 434922002674 IMP binding site; other site 434922002675 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 434922002676 UbiA prenyltransferase family; Region: UbiA; pfam01040 434922002677 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 434922002678 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 434922002679 active site 434922002680 catalytic residues [active] 434922002681 metal binding site [ion binding]; metal-binding site 434922002682 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 434922002683 active site 434922002684 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 434922002685 ligand binding site [chemical binding]; other site 434922002686 active site 434922002687 UGI interface [polypeptide binding]; other site 434922002688 catalytic site [active] 434922002689 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 434922002690 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 434922002691 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 434922002692 Sporulation related domain; Region: SPOR; pfam05036 434922002693 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 434922002694 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 434922002695 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 434922002696 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 434922002697 arogenate dehydrogenase; Region: PLN02256 434922002698 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 434922002699 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 434922002700 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 434922002701 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922002702 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 434922002703 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 434922002704 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 434922002705 carboxyltransferase (CT) interaction site; other site 434922002706 biotinylation site [posttranslational modification]; other site 434922002707 enoyl-CoA hydratase; Provisional; Region: PRK05995 434922002708 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 434922002709 substrate binding site [chemical binding]; other site 434922002710 oxyanion hole (OAH) forming residues; other site 434922002711 trimer interface [polypeptide binding]; other site 434922002712 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 434922002713 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 434922002714 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 434922002715 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 434922002716 dimer interface [polypeptide binding]; other site 434922002717 active site 434922002718 isovaleryl-CoA dehydrogenase; Region: PLN02519 434922002719 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 434922002720 substrate binding site [chemical binding]; other site 434922002721 FAD binding site [chemical binding]; other site 434922002722 catalytic base [active] 434922002723 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 434922002724 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 434922002725 quinone interaction residues [chemical binding]; other site 434922002726 active site 434922002727 catalytic residues [active] 434922002728 FMN binding site [chemical binding]; other site 434922002729 substrate binding site [chemical binding]; other site 434922002730 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 434922002731 PLD-like domain; Region: PLDc_2; pfam13091 434922002732 putative active site [active] 434922002733 catalytic site [active] 434922002734 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 434922002735 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 434922002736 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 434922002737 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 434922002738 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 434922002739 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 434922002740 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 434922002741 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 434922002742 catalytic triad [active] 434922002743 C factor cell-cell signaling protein; Provisional; Region: PRK09009 434922002744 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 434922002745 NADP binding site [chemical binding]; other site 434922002746 homodimer interface [polypeptide binding]; other site 434922002747 active site 434922002748 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 434922002749 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 434922002750 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 434922002751 non-specific DNA binding site [nucleotide binding]; other site 434922002752 salt bridge; other site 434922002753 sequence-specific DNA binding site [nucleotide binding]; other site 434922002754 Cupin domain; Region: Cupin_2; pfam07883 434922002755 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 434922002756 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922002757 putative substrate translocation pore; other site 434922002758 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 434922002759 response regulator; Provisional; Region: PRK09483 434922002760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002761 active site 434922002762 phosphorylation site [posttranslational modification] 434922002763 intermolecular recognition site; other site 434922002764 dimerization interface [polypeptide binding]; other site 434922002765 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 434922002766 DNA binding residues [nucleotide binding] 434922002767 dimerization interface [polypeptide binding]; other site 434922002768 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 434922002769 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 434922002770 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 434922002771 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 434922002772 putative NADH binding site [chemical binding]; other site 434922002773 putative active site [active] 434922002774 nudix motif; other site 434922002775 putative metal binding site [ion binding]; other site 434922002776 amino acid transporter; Region: 2A0306; TIGR00909 434922002777 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 434922002778 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 434922002779 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 434922002780 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 434922002781 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 434922002782 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 434922002783 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922002784 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002785 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 434922002786 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922002787 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 434922002788 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922002789 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002790 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002791 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002792 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002793 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002794 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002795 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002796 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002797 Protein of unknown function (DUF1601); Region: DUF1601; pfam07671 434922002798 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 434922002799 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 434922002800 salt bridge; other site 434922002801 non-specific DNA binding site [nucleotide binding]; other site 434922002802 sequence-specific DNA binding site [nucleotide binding]; other site 434922002803 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; cd02106 434922002804 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 434922002805 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 434922002806 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 434922002807 DinB family; Region: DinB; cl17821 434922002808 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 434922002809 Fic/DOC family; Region: Fic; pfam02661 434922002810 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 434922002811 active site residue [active] 434922002812 oxidative damage protection protein; Provisional; Region: PRK05408 434922002813 adenine DNA glycosylase; Provisional; Region: PRK10880 434922002814 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 434922002815 minor groove reading motif; other site 434922002816 helix-hairpin-helix signature motif; other site 434922002817 substrate binding pocket [chemical binding]; other site 434922002818 active site 434922002819 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 434922002820 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 434922002821 DNA binding and oxoG recognition site [nucleotide binding] 434922002822 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 434922002823 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 434922002824 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 434922002825 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 434922002826 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 434922002827 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 434922002828 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 434922002829 Walker A/P-loop; other site 434922002830 ATP binding site [chemical binding]; other site 434922002831 Q-loop/lid; other site 434922002832 ABC transporter signature motif; other site 434922002833 Walker B; other site 434922002834 D-loop; other site 434922002835 H-loop/switch region; other site 434922002836 inner membrane transport permease; Provisional; Region: PRK15066 434922002837 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 434922002838 glycerol kinase; Provisional; Region: glpK; PRK00047 434922002839 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 434922002840 N- and C-terminal domain interface [polypeptide binding]; other site 434922002841 active site 434922002842 MgATP binding site [chemical binding]; other site 434922002843 catalytic site [active] 434922002844 metal binding site [ion binding]; metal-binding site 434922002845 glycerol binding site [chemical binding]; other site 434922002846 homotetramer interface [polypeptide binding]; other site 434922002847 homodimer interface [polypeptide binding]; other site 434922002848 FBP binding site [chemical binding]; other site 434922002849 protein IIAGlc interface [polypeptide binding]; other site 434922002850 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 434922002851 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 434922002852 active site 434922002853 DNA binding site [nucleotide binding] 434922002854 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 434922002855 classical (c) SDRs; Region: SDR_c; cd05233 434922002856 NAD(P) binding site [chemical binding]; other site 434922002857 active site 434922002858 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 434922002859 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 434922002860 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 434922002861 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 434922002862 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 434922002863 tetrameric interface [polypeptide binding]; other site 434922002864 NAD binding site [chemical binding]; other site 434922002865 catalytic residues [active] 434922002866 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 434922002867 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 434922002868 lytic murein transglycosylase; Region: MltB_2; TIGR02283 434922002869 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 434922002870 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922002871 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 434922002872 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 434922002873 S-adenosylmethionine binding site [chemical binding]; other site 434922002874 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 434922002875 Domain of unknown function DUF20; Region: UPF0118; pfam01594 434922002876 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 434922002877 putative substrate translocation pore; other site 434922002878 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922002879 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 434922002880 Fatty acid desaturase; Region: FA_desaturase; pfam00487 434922002881 Di-iron ligands [ion binding]; other site 434922002882 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 434922002883 putative catalytic site [active] 434922002884 putative metal binding site [ion binding]; other site 434922002885 putative phosphate binding site [ion binding]; other site 434922002886 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 434922002887 CoenzymeA binding site [chemical binding]; other site 434922002888 subunit interaction site [polypeptide binding]; other site 434922002889 PHB binding site; other site 434922002890 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 434922002891 2-methylcitrate dehydratase; Region: prpD; TIGR02330 434922002892 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 434922002893 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 434922002894 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 434922002895 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 434922002896 transmembrane helices; other site 434922002897 TrkA-C domain; Region: TrkA_C; pfam02080 434922002898 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 434922002899 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 434922002900 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 434922002901 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 434922002902 Ligand Binding Site [chemical binding]; other site 434922002903 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 434922002904 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 434922002905 cyclase homology domain; Region: CHD; cd07302 434922002906 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 434922002907 nucleotidyl binding site; other site 434922002908 metal binding site [ion binding]; metal-binding site 434922002909 dimer interface [polypeptide binding]; other site 434922002910 Predicted membrane protein [Function unknown]; Region: COG2259 434922002911 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 434922002912 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 434922002913 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 434922002914 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922002915 active site 434922002916 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 434922002917 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434922002918 beta-hexosaminidase; Provisional; Region: PRK05337 434922002919 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 434922002920 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 434922002921 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 434922002922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 434922002923 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434922002924 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 434922002925 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 434922002926 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 434922002927 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922002928 ATP binding site [chemical binding]; other site 434922002929 Mg2+ binding site [ion binding]; other site 434922002930 G-X-G motif; other site 434922002931 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 434922002932 ATP binding site [chemical binding]; other site 434922002933 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 434922002934 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 434922002935 PAS fold; Region: PAS_3; pfam08447 434922002936 putative active site [active] 434922002937 heme pocket [chemical binding]; other site 434922002938 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 434922002939 PAS fold; Region: PAS_3; pfam08447 434922002940 putative active site [active] 434922002941 heme pocket [chemical binding]; other site 434922002942 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 434922002943 dimer interface [polypeptide binding]; other site 434922002944 phosphorylation site [posttranslational modification] 434922002945 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922002946 ATP binding site [chemical binding]; other site 434922002947 Mg2+ binding site [ion binding]; other site 434922002948 G-X-G motif; other site 434922002949 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 434922002950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922002951 active site 434922002952 phosphorylation site [posttranslational modification] 434922002953 intermolecular recognition site; other site 434922002954 dimerization interface [polypeptide binding]; other site 434922002955 AMIN domain; Region: AMIN; pfam11741 434922002956 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 434922002957 active site 434922002958 metal binding site [ion binding]; metal-binding site 434922002959 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 434922002960 putative carbohydrate kinase; Provisional; Region: PRK10565 434922002961 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 434922002962 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 434922002963 putative substrate binding site [chemical binding]; other site 434922002964 putative ATP binding site [chemical binding]; other site 434922002965 ribonuclease R; Region: RNase_R; TIGR02063 434922002966 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 434922002967 RNB domain; Region: RNB; pfam00773 434922002968 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 434922002969 RNA binding site [nucleotide binding]; other site 434922002970 multidrug efflux protein; Reviewed; Region: PRK09579 434922002971 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434922002972 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434922002973 HlyD family secretion protein; Region: HlyD_3; pfam13437 434922002974 fumarate hydratase; Reviewed; Region: fumC; PRK00485 434922002975 Class II fumarases; Region: Fumarase_classII; cd01362 434922002976 active site 434922002977 tetramer interface [polypeptide binding]; other site 434922002978 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 434922002979 signal peptidase I; Provisional; Region: PRK10861 434922002980 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 434922002981 Catalytic site [active] 434922002982 Uncharacterized protein family (UPF0146); Region: UPF0146; cl00552 434922002983 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 434922002984 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922002985 catalytic residue [active] 434922002986 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434922002987 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 434922002988 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 434922002989 MltA specific insert domain; Region: MltA; smart00925 434922002990 3D domain; Region: 3D; pfam06725 434922002991 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 434922002992 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 434922002993 hexamer interface [polypeptide binding]; other site 434922002994 ligand binding site [chemical binding]; other site 434922002995 putative active site [active] 434922002996 NAD(P) binding site [chemical binding]; other site 434922002997 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 434922002998 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 434922002999 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 434922003000 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 434922003001 Electron transfer flavoprotein domain; Region: ETF; pfam01012 434922003002 Ligand binding site [chemical binding]; other site 434922003003 Dienelactone hydrolase family; Region: DLH; pfam01738 434922003004 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 434922003005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 434922003006 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 434922003007 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434922003008 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 434922003009 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 434922003010 HSP70 interaction site [polypeptide binding]; other site 434922003011 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 434922003012 substrate binding site [polypeptide binding]; other site 434922003013 dimer interface [polypeptide binding]; other site 434922003014 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 434922003015 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 434922003016 Glyco_18 domain; Region: Glyco_18; smart00636 434922003017 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 434922003018 active site 434922003019 HPP family; Region: HPP; pfam04982 434922003020 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 434922003021 trimerization site [polypeptide binding]; other site 434922003022 active site 434922003023 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 434922003024 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 434922003025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922003026 catalytic residue [active] 434922003027 OPT oligopeptide transporter protein; Region: OPT; cl14607 434922003028 putative oligopeptide transporter, OPT family; Region: TIGR00733 434922003029 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 434922003030 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 434922003031 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 434922003032 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 434922003033 active site 434922003034 dimerization interface [polypeptide binding]; other site 434922003035 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922003036 Sel1-like repeats; Region: SEL1; smart00671 434922003037 Sel1-like repeats; Region: SEL1; smart00671 434922003038 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922003039 Sel1-like repeats; Region: SEL1; smart00671 434922003040 Sel1-like repeats; Region: SEL1; smart00671 434922003041 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922003042 Sel1-like repeats; Region: SEL1; smart00671 434922003043 Sel1-like repeats; Region: SEL1; smart00671 434922003044 Sel1-like repeats; Region: SEL1; smart00671 434922003045 Sel1-like repeats; Region: SEL1; smart00671 434922003046 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434922003047 CAF1 family ribonuclease; Region: CAF1; cl17591 434922003048 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 434922003049 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 434922003050 Protein export membrane protein; Region: SecD_SecF; pfam02355 434922003051 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 434922003052 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 434922003053 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 434922003054 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 434922003055 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 434922003056 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 434922003057 active site 434922003058 zinc binding site [ion binding]; other site 434922003059 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 434922003060 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 434922003061 Ligand Binding Site [chemical binding]; other site 434922003062 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 434922003063 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 434922003064 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 434922003065 ATP binding site [chemical binding]; other site 434922003066 putative Mg++ binding site [ion binding]; other site 434922003067 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 434922003068 nucleotide binding region [chemical binding]; other site 434922003069 ATP-binding site [chemical binding]; other site 434922003070 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 434922003071 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 434922003072 Eukaryotic phosphomannomutase; Region: PMM; cl17107 434922003073 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 434922003074 motif II; other site 434922003075 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 434922003076 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 434922003077 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 434922003078 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 434922003079 active site 434922003080 ribulose/triose binding site [chemical binding]; other site 434922003081 phosphate binding site [ion binding]; other site 434922003082 substrate (anthranilate) binding pocket [chemical binding]; other site 434922003083 product (indole) binding pocket [chemical binding]; other site 434922003084 bifunctional phosphoribosylanthranilate isomerase/tryptophan synthase subunit beta; Provisional; Region: PRK13803 434922003085 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 434922003086 active site 434922003087 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 434922003088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922003089 catalytic residue [active] 434922003090 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 434922003091 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 434922003092 substrate binding site [chemical binding]; other site 434922003093 active site 434922003094 catalytic residues [active] 434922003095 heterodimer interface [polypeptide binding]; other site 434922003096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 434922003097 Ergosterol biosynthesis ERG4/ERG24 family; Region: ERG4_ERG24; pfam01222 434922003098 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 434922003099 TPR repeat; Region: TPR_11; pfam13414 434922003100 binding surface 434922003101 TPR motif; other site 434922003102 Catalytic domain of Protein Kinases; Region: PKc; cd00180 434922003103 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 434922003104 active site 434922003105 ATP binding site [chemical binding]; other site 434922003106 substrate binding site [chemical binding]; other site 434922003107 activation loop (A-loop); other site 434922003108 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 434922003109 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 434922003110 putative dimer interface [polypeptide binding]; other site 434922003111 Domain of unknown function (DUF378); Region: DUF378; cl00943 434922003112 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 434922003113 hypothetical protein; Reviewed; Region: PRK09588 434922003114 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 434922003115 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 434922003116 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 434922003117 DNA photolyase; Region: DNA_photolyase; pfam00875 434922003118 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003119 Ubiquitin C-terminal hydrolase 37 receptor binding site; Region: UCH37_bd; pfam13658 434922003120 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922003121 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 434922003122 putative substrate translocation pore; other site 434922003123 Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]; Region: ThiI; COG0301 434922003124 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 434922003125 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 434922003126 Ligand Binding Site [chemical binding]; other site 434922003127 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 434922003128 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 434922003129 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922003130 catalytic residue [active] 434922003131 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 434922003132 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 434922003133 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 434922003134 putative acyl-acceptor binding pocket; other site 434922003135 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 434922003136 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 434922003137 GIY-YIG motif/motif A; other site 434922003138 active site 434922003139 catalytic site [active] 434922003140 putative DNA binding site [nucleotide binding]; other site 434922003141 metal binding site [ion binding]; metal-binding site 434922003142 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 434922003143 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 434922003144 seryl-tRNA synthetase; Provisional; Region: PRK05431 434922003145 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 434922003146 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 434922003147 dimer interface [polypeptide binding]; other site 434922003148 active site 434922003149 motif 1; other site 434922003150 motif 2; other site 434922003151 motif 3; other site 434922003152 recombination factor protein RarA; Reviewed; Region: PRK13342 434922003153 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 434922003154 Walker A motif; other site 434922003155 ATP binding site [chemical binding]; other site 434922003156 Walker B motif; other site 434922003157 arginine finger; other site 434922003158 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 434922003159 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 434922003160 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 434922003161 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 434922003162 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 434922003163 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 434922003164 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 434922003165 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 434922003166 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434922003167 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 434922003168 rRNA binding site [nucleotide binding]; other site 434922003169 predicted 30S ribosome binding site; other site 434922003170 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 434922003171 Clp amino terminal domain; Region: Clp_N; pfam02861 434922003172 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 434922003173 Walker A motif; other site 434922003174 ATP binding site [chemical binding]; other site 434922003175 Walker B motif; other site 434922003176 arginine finger; other site 434922003177 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 434922003178 Walker A motif; other site 434922003179 ATP binding site [chemical binding]; other site 434922003180 Walker B motif; other site 434922003181 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 434922003182 isocitrate dehydrogenase; Validated; Region: PRK07362 434922003183 isocitrate dehydrogenase; Reviewed; Region: PRK07006 434922003184 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 434922003185 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 434922003186 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 434922003187 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 434922003188 active site 434922003189 FMN binding site [chemical binding]; other site 434922003190 substrate binding site [chemical binding]; other site 434922003191 3Fe-4S cluster binding site [ion binding]; other site 434922003192 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 434922003193 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 434922003194 NAD(P) binding site [chemical binding]; other site 434922003195 catalytic residues [active] 434922003196 Ergosterol biosynthesis ERG4/ERG24 family; Region: ERG4_ERG24; pfam01222 434922003197 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 434922003198 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003199 putative substrate translocation pore; other site 434922003200 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 434922003201 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 434922003202 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 434922003203 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 434922003204 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 434922003205 ATP binding site [chemical binding]; other site 434922003206 active site 434922003207 substrate binding site [chemical binding]; other site 434922003208 Nucleoporin subcomplex protein binding to Pom34; Region: Nup188; pfam10487 434922003209 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 434922003210 dihydrodipicolinate synthase; Region: dapA; TIGR00674 434922003211 dimer interface [polypeptide binding]; other site 434922003212 active site 434922003213 catalytic residue [active] 434922003214 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 434922003215 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 434922003216 substrate binding site [chemical binding]; other site 434922003217 ATP binding site [chemical binding]; other site 434922003218 RmuC family; Region: RmuC; pfam02646 434922003219 haloalkane dehalogenase; Provisional; Region: PRK03592 434922003220 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 434922003221 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 434922003222 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 434922003223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922003224 active site 434922003225 phosphorylation site [posttranslational modification] 434922003226 intermolecular recognition site; other site 434922003227 dimerization interface [polypeptide binding]; other site 434922003228 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 434922003229 DNA binding site [nucleotide binding] 434922003230 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 434922003231 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 434922003232 dimer interface [polypeptide binding]; other site 434922003233 phosphorylation site [posttranslational modification] 434922003234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922003235 ATP binding site [chemical binding]; other site 434922003236 Mg2+ binding site [ion binding]; other site 434922003237 G-X-G motif; other site 434922003238 probable DNA repair protein; Region: TIGR03623 434922003239 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 434922003240 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 434922003241 Part of AAA domain; Region: AAA_19; pfam13245 434922003242 Family description; Region: UvrD_C_2; pfam13538 434922003243 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 434922003244 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 434922003245 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922003246 AAA domain; Region: AAA_14; pfam13173 434922003247 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 434922003248 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 434922003249 catalytic site [active] 434922003250 putative active site [active] 434922003251 putative substrate binding site [chemical binding]; other site 434922003252 dimer interface [polypeptide binding]; other site 434922003253 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 434922003254 oligomeric interface; other site 434922003255 homodimer interface [polypeptide binding]; other site 434922003256 putative active site [active] 434922003257 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 434922003258 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 434922003259 UGMP family protein; Validated; Region: PRK09604 434922003260 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 434922003261 malate dehydrogenase; Provisional; Region: PRK05442 434922003262 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 434922003263 NAD(P) binding site [chemical binding]; other site 434922003264 dimer interface [polypeptide binding]; other site 434922003265 malate binding site [chemical binding]; other site 434922003266 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 434922003267 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 434922003268 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 434922003269 generic binding surface II; other site 434922003270 generic binding surface I; other site 434922003271 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 434922003272 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 434922003273 putative substrate translocation pore; other site 434922003274 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 434922003275 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 434922003276 G1 box; other site 434922003277 GTP/Mg2+ binding site [chemical binding]; other site 434922003278 Switch I region; other site 434922003279 G2 box; other site 434922003280 Switch II region; other site 434922003281 G3 box; other site 434922003282 G4 box; other site 434922003283 G5 box; other site 434922003284 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 434922003285 G1 box; other site 434922003286 GTP/Mg2+ binding site [chemical binding]; other site 434922003287 Switch I region; other site 434922003288 G2 box; other site 434922003289 G3 box; other site 434922003290 Switch II region; other site 434922003291 G4 box; other site 434922003292 G5 box; other site 434922003293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 434922003294 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 434922003295 histidyl-tRNA synthetase; Region: hisS; TIGR00442 434922003296 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 434922003297 dimer interface [polypeptide binding]; other site 434922003298 motif 1; other site 434922003299 active site 434922003300 motif 2; other site 434922003301 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 434922003302 anticodon binding site; other site 434922003303 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 434922003304 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 434922003305 non-specific DNA binding site [nucleotide binding]; other site 434922003306 salt bridge; other site 434922003307 sequence-specific DNA binding site [nucleotide binding]; other site 434922003308 Fic family protein [Function unknown]; Region: COG3177 434922003309 Fic/DOC family; Region: Fic; pfam02661 434922003310 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 434922003311 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 434922003312 FeS/SAM binding site; other site 434922003313 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 434922003314 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 434922003315 substrate binding pocket [chemical binding]; other site 434922003316 chain length determination region; other site 434922003317 substrate-Mg2+ binding site; other site 434922003318 catalytic residues [active] 434922003319 aspartate-rich region 1; other site 434922003320 active site lid residues [active] 434922003321 aspartate-rich region 2; other site 434922003322 SnoaL-like domain; Region: SnoaL_2; pfam12680 434922003323 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 434922003324 active site 434922003325 multimer interface [polypeptide binding]; other site 434922003326 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 434922003327 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 434922003328 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 434922003329 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 434922003330 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 434922003331 Protein of unknown function (DUF493); Region: DUF493; pfam04359 434922003332 lipoate-protein ligase B; Provisional; Region: PRK14342 434922003333 lipoyl synthase; Provisional; Region: PRK05481 434922003334 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 434922003335 FeS/SAM binding site; other site 434922003336 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 434922003337 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 434922003338 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 434922003339 active site 434922003340 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 434922003341 LssY C-terminus; Region: LssY_C; pfam14067 434922003342 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 434922003343 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 434922003344 6-phosphofructokinase; Provisional; Region: PRK14072 434922003345 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 434922003346 active site 434922003347 ADP/pyrophosphate binding site [chemical binding]; other site 434922003348 dimerization interface [polypeptide binding]; other site 434922003349 allosteric effector site; other site 434922003350 fructose-1,6-bisphosphate binding site; other site 434922003351 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 434922003352 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 434922003353 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 434922003354 metal binding site [ion binding]; metal-binding site 434922003355 substrate binding pocket [chemical binding]; other site 434922003356 short chain dehydrogenase; Provisional; Region: PRK07890 434922003357 classical (c) SDRs; Region: SDR_c; cd05233 434922003358 NAD(P) binding site [chemical binding]; other site 434922003359 active site 434922003360 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 434922003361 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 434922003362 active site 434922003363 intersubunit interface [polypeptide binding]; other site 434922003364 catalytic residue [active] 434922003365 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 434922003366 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 434922003367 putative catalytic residue [active] 434922003368 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 434922003369 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003370 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 434922003371 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 434922003372 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 434922003373 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 434922003374 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922003375 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 434922003376 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 434922003377 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434922003378 ATP-grasp domain; Region: ATP-grasp_4; cl17255 434922003379 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 434922003380 IMP binding site; other site 434922003381 dimer interface [polypeptide binding]; other site 434922003382 interdomain contacts; other site 434922003383 partial ornithine binding site; other site 434922003384 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 434922003385 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 434922003386 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 434922003387 catalytic site [active] 434922003388 subunit interface [polypeptide binding]; other site 434922003389 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 434922003390 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 434922003391 putative substrate translocation pore; other site 434922003392 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 434922003393 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922003394 AAA domain; Region: AAA_14; pfam13173 434922003395 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 434922003396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003397 putative substrate translocation pore; other site 434922003398 AAA domain; Region: AAA_14; pfam13173 434922003399 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922003400 chaperone protein DnaJ; Provisional; Region: PRK10767 434922003401 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 434922003402 HSP70 interaction site [polypeptide binding]; other site 434922003403 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 434922003404 Zn binding sites [ion binding]; other site 434922003405 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 434922003406 dimer interface [polypeptide binding]; other site 434922003407 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 434922003408 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 434922003409 nucleotide binding site [chemical binding]; other site 434922003410 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 434922003411 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 434922003412 carboxyltransferase (CT) interaction site; other site 434922003413 biotinylation site [posttranslational modification]; other site 434922003414 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 434922003415 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922003416 GrpE; Region: GrpE; pfam01025 434922003417 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 434922003418 dimer interface [polypeptide binding]; other site 434922003419 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 434922003420 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 434922003421 oligomeric interface; other site 434922003422 putative active site [active] 434922003423 homodimer interface [polypeptide binding]; other site 434922003424 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 434922003425 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 434922003426 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 434922003427 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 434922003428 Walker A/P-loop; other site 434922003429 ATP binding site [chemical binding]; other site 434922003430 Q-loop/lid; other site 434922003431 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 434922003432 ABC transporter signature motif; other site 434922003433 Walker B; other site 434922003434 D-loop; other site 434922003435 H-loop/switch region; other site 434922003436 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 434922003437 metal binding site 2 [ion binding]; metal-binding site 434922003438 putative DNA binding helix; other site 434922003439 metal binding site 1 [ion binding]; metal-binding site 434922003440 dimer interface [polypeptide binding]; other site 434922003441 structural Zn2+ binding site [ion binding]; other site 434922003442 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 434922003443 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 434922003444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 434922003445 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 434922003446 putative coenzyme Q binding site [chemical binding]; other site 434922003447 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 434922003448 SmpB-tmRNA interface; other site 434922003449 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 434922003450 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 434922003451 methionine sulfoxide reductase A; Provisional; Region: PRK14054 434922003452 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 434922003453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434922003454 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 434922003455 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 434922003456 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 434922003457 DNA binding residues [nucleotide binding] 434922003458 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 434922003459 IHF dimer interface [polypeptide binding]; other site 434922003460 IHF - DNA interface [nucleotide binding]; other site 434922003461 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 434922003462 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 434922003463 putative tRNA-binding site [nucleotide binding]; other site 434922003464 B3/4 domain; Region: B3_4; pfam03483 434922003465 tRNA synthetase B5 domain; Region: B5; smart00874 434922003466 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 434922003467 dimer interface [polypeptide binding]; other site 434922003468 motif 1; other site 434922003469 motif 3; other site 434922003470 motif 2; other site 434922003471 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 434922003472 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 434922003473 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 434922003474 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 434922003475 dimer interface [polypeptide binding]; other site 434922003476 motif 1; other site 434922003477 active site 434922003478 motif 2; other site 434922003479 motif 3; other site 434922003480 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 434922003481 23S rRNA binding site [nucleotide binding]; other site 434922003482 L21 binding site [polypeptide binding]; other site 434922003483 L13 binding site [polypeptide binding]; other site 434922003484 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003485 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 434922003486 translation initiation factor IF-3; Region: infC; TIGR00168 434922003487 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 434922003488 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 434922003489 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 434922003490 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 434922003491 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 434922003492 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 434922003493 active site 434922003494 dimer interface [polypeptide binding]; other site 434922003495 motif 1; other site 434922003496 motif 2; other site 434922003497 motif 3; other site 434922003498 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 434922003499 anticodon binding site; other site 434922003500 probable polyamine oxidase; Region: PLN02268 434922003501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 434922003502 FOG: CBS domain [General function prediction only]; Region: COG0517 434922003503 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 434922003504 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 434922003505 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 434922003506 Cyclin; Region: Cyclin; pfam08613 434922003507 EamA-like transporter family; Region: EamA; pfam00892 434922003508 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 434922003509 EamA-like transporter family; Region: EamA; pfam00892 434922003510 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 434922003511 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 434922003512 putative active site [active] 434922003513 putative PHP Thumb interface [polypeptide binding]; other site 434922003514 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 434922003515 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 434922003516 generic binding surface II; other site 434922003517 generic binding surface I; other site 434922003518 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 434922003519 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 434922003520 ATP-grasp domain; Region: ATP-grasp_4; cl17255 434922003521 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 434922003522 RNA/DNA hybrid binding site [nucleotide binding]; other site 434922003523 active site 434922003524 GMP synthase; Reviewed; Region: guaA; PRK00074 434922003525 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 434922003526 AMP/PPi binding site [chemical binding]; other site 434922003527 candidate oxyanion hole; other site 434922003528 catalytic triad [active] 434922003529 potential glutamine specificity residues [chemical binding]; other site 434922003530 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 434922003531 ATP Binding subdomain [chemical binding]; other site 434922003532 Ligand Binding sites [chemical binding]; other site 434922003533 Dimerization subdomain; other site 434922003534 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 434922003535 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 434922003536 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 434922003537 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 434922003538 active site 434922003539 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 434922003540 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003541 putative substrate translocation pore; other site 434922003542 Trehalase; Region: Trehalase; cl17346 434922003543 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 434922003544 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 434922003545 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 434922003546 active site 434922003547 substrate binding site [chemical binding]; other site 434922003548 metal binding site [ion binding]; metal-binding site 434922003549 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 434922003550 dihydropteroate synthase; Region: DHPS; TIGR01496 434922003551 substrate binding pocket [chemical binding]; other site 434922003552 dimer interface [polypeptide binding]; other site 434922003553 inhibitor binding site; inhibition site 434922003554 FtsH Extracellular; Region: FtsH_ext; pfam06480 434922003555 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 434922003556 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 434922003557 Walker A motif; other site 434922003558 ATP binding site [chemical binding]; other site 434922003559 Walker B motif; other site 434922003560 arginine finger; other site 434922003561 Peptidase family M41; Region: Peptidase_M41; pfam01434 434922003562 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 434922003563 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 434922003564 S-adenosylmethionine binding site [chemical binding]; other site 434922003565 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 434922003566 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 434922003567 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 434922003568 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 434922003569 trimerization site [polypeptide binding]; other site 434922003570 active site 434922003571 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 434922003572 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 434922003573 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922003574 catalytic residue [active] 434922003575 FeS assembly protein SufD; Region: sufD; TIGR01981 434922003576 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 434922003577 FeS assembly ATPase SufC; Region: sufC; TIGR01978 434922003578 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 434922003579 Walker A/P-loop; other site 434922003580 ATP binding site [chemical binding]; other site 434922003581 Q-loop/lid; other site 434922003582 ABC transporter signature motif; other site 434922003583 Walker B; other site 434922003584 D-loop; other site 434922003585 H-loop/switch region; other site 434922003586 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 434922003587 putative ABC transporter; Region: ycf24; CHL00085 434922003588 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 434922003589 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 434922003590 putative DNA binding site [nucleotide binding]; other site 434922003591 putative Zn2+ binding site [ion binding]; other site 434922003592 Transcriptional regulator; Region: Rrf2; cl17282 434922003593 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 434922003594 Cation efflux family; Region: Cation_efflux; pfam01545 434922003595 exonuclease I; Provisional; Region: sbcB; PRK11779 434922003596 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 434922003597 active site 434922003598 catalytic site [active] 434922003599 substrate binding site [chemical binding]; other site 434922003600 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 434922003601 Tetratricopeptide repeat; Region: TPR_12; pfam13424 434922003602 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 434922003603 binding surface 434922003604 TPR motif; other site 434922003605 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 434922003606 Glycoprotease family; Region: Peptidase_M22; pfam00814 434922003607 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 434922003608 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 434922003609 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 434922003610 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 434922003611 nucleoside/Zn binding site; other site 434922003612 dimer interface [polypeptide binding]; other site 434922003613 catalytic motif [active] 434922003614 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 434922003615 HD domain; Region: HD_4; pfam13328 434922003616 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 434922003617 synthetase active site [active] 434922003618 NTP binding site [chemical binding]; other site 434922003619 metal binding site [ion binding]; metal-binding site 434922003620 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 434922003621 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 434922003622 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 434922003623 active site 434922003624 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 434922003625 protein binding site [polypeptide binding]; other site 434922003626 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 434922003627 putative substrate binding region [chemical binding]; other site 434922003628 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 434922003629 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 434922003630 active site 434922003631 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 434922003632 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 434922003633 dimer interface [polypeptide binding]; other site 434922003634 ADP-ribose binding site [chemical binding]; other site 434922003635 active site 434922003636 nudix motif; other site 434922003637 metal binding site [ion binding]; metal-binding site 434922003638 HemN family oxidoreductase; Provisional; Region: PRK05660 434922003639 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 434922003640 FeS/SAM binding site; other site 434922003641 HemN C-terminal domain; Region: HemN_C; pfam06969 434922003642 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 434922003643 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 434922003644 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 434922003645 ligand binding site [chemical binding]; other site 434922003646 flexible hinge region; other site 434922003647 CAAX protease self-immunity; Region: Abi; pfam02517 434922003648 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 434922003649 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 434922003650 dimer interface [polypeptide binding]; other site 434922003651 [2Fe-2S] cluster binding site [ion binding]; other site 434922003652 quinolinate synthetase; Provisional; Region: PRK09375 434922003653 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 434922003654 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 434922003655 FAD binding pocket [chemical binding]; other site 434922003656 FAD binding motif [chemical binding]; other site 434922003657 phosphate binding motif [ion binding]; other site 434922003658 beta-alpha-beta structure motif; other site 434922003659 NAD binding pocket [chemical binding]; other site 434922003660 Iron coordination center [ion binding]; other site 434922003661 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 434922003662 putative GSH binding site [chemical binding]; other site 434922003663 catalytic residues [active] 434922003664 BolA-like protein; Region: BolA; pfam01722 434922003665 Ferredoxin [Energy production and conversion]; Region: COG1146 434922003666 4Fe-4S binding domain; Region: Fer4; pfam00037 434922003667 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 434922003668 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 434922003669 putative active site [active] 434922003670 YdjC motif; other site 434922003671 Mg binding site [ion binding]; other site 434922003672 putative homodimer interface [polypeptide binding]; other site 434922003673 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 434922003674 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 434922003675 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 434922003676 Ligand binding site; other site 434922003677 Putative Catalytic site; other site 434922003678 DXD motif; other site 434922003679 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 434922003680 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 434922003681 substrate binding site [chemical binding]; other site 434922003682 oxyanion hole (OAH) forming residues; other site 434922003683 trimer interface [polypeptide binding]; other site 434922003684 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 434922003685 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 434922003686 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 434922003687 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 434922003688 dimer interface [polypeptide binding]; other site 434922003689 active site 434922003690 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 434922003691 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 434922003692 active site 434922003693 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 434922003694 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 434922003695 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 434922003696 interface (dimer of trimers) [polypeptide binding]; other site 434922003697 Substrate-binding/catalytic site; other site 434922003698 Zn-binding sites [ion binding]; other site 434922003699 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 434922003700 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 434922003701 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 434922003702 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 434922003703 FeS/SAM binding site; other site 434922003704 TRAM domain; Region: TRAM; pfam01938 434922003705 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 434922003706 PhoH-like protein; Region: PhoH; pfam02562 434922003707 metal-binding heat shock protein; Provisional; Region: PRK00016 434922003708 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 434922003709 putative substrate translocation pore; other site 434922003710 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003711 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 434922003712 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 434922003713 Transporter associated domain; Region: CorC_HlyC; smart01091 434922003714 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 434922003715 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 434922003716 putative active site [active] 434922003717 catalytic triad [active] 434922003718 putative dimer interface [polypeptide binding]; other site 434922003719 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434922003720 AAA domain; Region: AAA_14; pfam13173 434922003721 Phytochelatin synthase; Region: Phytochelatin; pfam05023 434922003722 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 434922003723 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 434922003724 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 434922003725 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 434922003726 HIGH motif; other site 434922003727 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434922003728 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 434922003729 active site 434922003730 KMSKS motif; other site 434922003731 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 434922003732 tRNA binding surface [nucleotide binding]; other site 434922003733 Lipopolysaccharide-assembly; Region: LptE; cl01125 434922003734 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 434922003735 DNA polymerase III, delta subunit; Region: holA; TIGR01128 434922003736 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 434922003737 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 434922003738 active site 434922003739 (T/H)XGH motif; other site 434922003740 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 434922003741 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 434922003742 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 434922003743 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 434922003744 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 434922003745 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 434922003746 Transglycosylase SLT domain; Region: SLT_2; pfam13406 434922003747 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 434922003748 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922003749 Tetratricopeptide repeat; Region: TPR_16; pfam13432 434922003750 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 434922003751 binding surface 434922003752 TPR motif; other site 434922003753 TPR repeat; Region: TPR_11; pfam13414 434922003754 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 434922003755 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 434922003756 binding surface 434922003757 TPR motif; other site 434922003758 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 434922003759 binding surface 434922003760 TPR motif; other site 434922003761 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 434922003762 binding surface 434922003763 TPR motif; other site 434922003764 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 434922003765 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 434922003766 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 434922003767 S-adenosylmethionine binding site [chemical binding]; other site 434922003768 heat shock protein HtpX; Provisional; Region: PRK02870 434922003769 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 434922003770 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 434922003771 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 434922003772 nucleotide binding pocket [chemical binding]; other site 434922003773 K-X-D-G motif; other site 434922003774 catalytic site [active] 434922003775 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 434922003776 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 434922003777 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 434922003778 Dimer interface [polypeptide binding]; other site 434922003779 BRCT sequence motif; other site 434922003780 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 434922003781 FtsZ protein binding site [polypeptide binding]; other site 434922003782 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 434922003783 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 434922003784 Walker A/P-loop; other site 434922003785 ATP binding site [chemical binding]; other site 434922003786 Q-loop/lid; other site 434922003787 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 434922003788 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 434922003789 ABC transporter signature motif; other site 434922003790 Walker B; other site 434922003791 D-loop; other site 434922003792 H-loop/switch region; other site 434922003793 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 434922003794 POT family; Region: PTR2; cl17359 434922003795 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922003796 Sel1-like repeats; Region: SEL1; smart00671 434922003797 cell division protein DamX; Validated; Region: PRK10905 434922003798 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 434922003799 Mg++ binding site [ion binding]; other site 434922003800 putative catalytic motif [active] 434922003801 substrate binding site [chemical binding]; other site 434922003802 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 434922003803 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 434922003804 active site 434922003805 dimer interface [polypeptide binding]; other site 434922003806 tetratricopeptide repeat protein; Provisional; Region: PRK11788 434922003807 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 434922003808 binding surface 434922003809 TPR motif; other site 434922003810 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 434922003811 binding surface 434922003812 TPR motif; other site 434922003813 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 434922003814 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 434922003815 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 434922003816 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 434922003817 RNA binding site [nucleotide binding]; other site 434922003818 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 434922003819 RNA binding site [nucleotide binding]; other site 434922003820 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 434922003821 RNA binding site [nucleotide binding]; other site 434922003822 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 434922003823 RNA binding site [nucleotide binding]; other site 434922003824 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 434922003825 RNA binding site [nucleotide binding]; other site 434922003826 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...; Region: S1_RPS1_repeat_ec6; cd05691 434922003827 RNA binding site [nucleotide binding]; other site 434922003828 cytidylate kinase; Provisional; Region: cmk; PRK00023 434922003829 AAA domain; Region: AAA_17; pfam13207 434922003830 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 434922003831 CMP-binding site; other site 434922003832 The sites determining sugar specificity; other site 434922003833 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 434922003834 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 434922003835 hinge; other site 434922003836 active site 434922003837 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 434922003838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922003839 catalytic residue [active] 434922003840 DNA gyrase subunit A; Validated; Region: PRK05560 434922003841 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 434922003842 CAP-like domain; other site 434922003843 active site 434922003844 primary dimer interface [polypeptide binding]; other site 434922003845 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003846 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003847 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003848 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003849 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003850 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434922003851 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 434922003852 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 434922003853 active site 434922003854 putative substrate binding pocket [chemical binding]; other site 434922003855 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 434922003856 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 434922003857 active site 434922003858 catalytic residues [active] 434922003859 metal binding site [ion binding]; metal-binding site 434922003860 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 434922003861 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 434922003862 excinuclease ABC subunit B; Provisional; Region: PRK05298 434922003863 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 434922003864 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 434922003865 ATP-binding site [chemical binding]; other site 434922003866 ATP binding site [chemical binding]; other site 434922003867 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 434922003868 nucleotide binding region [chemical binding]; other site 434922003869 ATP-binding site [chemical binding]; other site 434922003870 Ultra-violet resistance protein B; Region: UvrB; pfam12344 434922003871 UvrB/uvrC motif; Region: UVR; pfam02151 434922003872 aspartate aminotransferase; Provisional; Region: PRK05764 434922003873 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 434922003874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922003875 homodimer interface [polypeptide binding]; other site 434922003876 catalytic residue [active] 434922003877 Condensation domain; Region: Condensation; pfam00668 434922003878 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 434922003879 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 434922003880 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 434922003881 active site 434922003882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922003883 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 434922003884 Walker A/P-loop; other site 434922003885 ATP binding site [chemical binding]; other site 434922003886 Q-loop/lid; other site 434922003887 ABC transporter signature motif; other site 434922003888 Walker B; other site 434922003889 D-loop; other site 434922003890 H-loop/switch region; other site 434922003891 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 434922003892 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 434922003893 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003894 putative substrate translocation pore; other site 434922003895 Ceramidase; Region: Ceramidase; pfam05875 434922003896 Fructose-1,6-bisphosphatase; Region: FBPase_3; cl00862 434922003897 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 434922003898 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 434922003899 putative active site [active] 434922003900 Zn binding site [ion binding]; other site 434922003901 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 434922003902 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922003903 putative substrate translocation pore; other site 434922003904 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922003905 Trp operon repressor; Provisional; Region: PRK01381 434922003906 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 434922003907 DHH family; Region: DHH; pfam01368 434922003908 DHHA1 domain; Region: DHHA1; pfam02272 434922003909 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 434922003910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 434922003911 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 434922003912 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 434922003913 POT family; Region: PTR2; cl17359 434922003914 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 434922003915 glutamine synthetase; Region: PLN02284 434922003916 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 434922003917 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 434922003918 active site 434922003919 DNA polymerase III subunit delta'; Validated; Region: PRK05707 434922003920 DNA polymerase III subunit delta'; Validated; Region: PRK08485 434922003921 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 434922003922 thymidylate kinase; Validated; Region: tmk; PRK00698 434922003923 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 434922003924 TMP-binding site; other site 434922003925 ATP-binding site [chemical binding]; other site 434922003926 YceG-like family; Region: YceG; pfam02618 434922003927 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 434922003928 dimerization interface [polypeptide binding]; other site 434922003929 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 434922003930 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 434922003931 dimer interface [polypeptide binding]; other site 434922003932 active site 434922003933 acyl carrier protein; Provisional; Region: acpP; PRK00982 434922003934 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 434922003935 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 434922003936 NAD(P) binding site [chemical binding]; other site 434922003937 homotetramer interface [polypeptide binding]; other site 434922003938 homodimer interface [polypeptide binding]; other site 434922003939 active site 434922003940 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 434922003941 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 434922003942 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 434922003943 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 434922003944 dimer interface [polypeptide binding]; other site 434922003945 active site 434922003946 CoA binding pocket [chemical binding]; other site 434922003947 putative phosphate acyltransferase; Provisional; Region: PRK05331 434922003948 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 434922003949 hypothetical protein; Provisional; Region: PRK08609 434922003950 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 434922003951 active site 434922003952 primer binding site [nucleotide binding]; other site 434922003953 NTP binding site [chemical binding]; other site 434922003954 metal binding triad [ion binding]; metal-binding site 434922003955 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 434922003956 active site 434922003957 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 434922003958 dimerization interface [polypeptide binding]; other site 434922003959 substrate binding site [chemical binding]; other site 434922003960 active site 434922003961 calcium binding site [ion binding]; other site 434922003962 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434922003963 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 434922003964 active site 434922003965 metal binding site [ion binding]; metal-binding site 434922003966 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 434922003967 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 434922003968 RNA binding surface [nucleotide binding]; other site 434922003969 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 434922003970 active site 434922003971 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 434922003972 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 434922003973 homodimer interface [polypeptide binding]; other site 434922003974 oligonucleotide binding site [chemical binding]; other site 434922003975 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434922003976 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 434922003977 dimer interface [polypeptide binding]; other site 434922003978 conserved gate region; other site 434922003979 putative PBP binding loops; other site 434922003980 ABC-ATPase subunit interface; other site 434922003981 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434922003982 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 434922003983 dimer interface [polypeptide binding]; other site 434922003984 conserved gate region; other site 434922003985 putative PBP binding loops; other site 434922003986 ABC-ATPase subunit interface; other site 434922003987 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 434922003988 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 434922003989 substrate binding pocket [chemical binding]; other site 434922003990 membrane-bound complex binding site; other site 434922003991 hinge residues; other site 434922003992 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 434922003993 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922003994 Walker A/P-loop; other site 434922003995 ATP binding site [chemical binding]; other site 434922003996 Q-loop/lid; other site 434922003997 ABC transporter signature motif; other site 434922003998 Walker B; other site 434922003999 D-loop; other site 434922004000 H-loop/switch region; other site 434922004001 arginine repressor; Provisional; Region: PRK05066 434922004002 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 434922004003 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 434922004004 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 434922004005 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 434922004006 Ligand binding site; other site 434922004007 oligomer interface; other site 434922004008 Uncharacterized conserved protein [Function unknown]; Region: COG2835 434922004009 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 434922004010 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 434922004011 IHF dimer interface [polypeptide binding]; other site 434922004012 IHF - DNA interface [nucleotide binding]; other site 434922004013 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 434922004014 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 434922004015 ATP binding site [chemical binding]; other site 434922004016 putative Mg++ binding site [ion binding]; other site 434922004017 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 434922004018 nucleotide binding region [chemical binding]; other site 434922004019 ATP-binding site [chemical binding]; other site 434922004020 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 434922004021 HRDC domain; Region: HRDC; pfam00570 434922004022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922004023 active site 434922004024 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 434922004025 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 434922004026 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 434922004027 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 434922004028 S-adenosylmethionine binding site [chemical binding]; other site 434922004029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 434922004030 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 434922004031 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 434922004032 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434922004033 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 434922004034 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 434922004035 E3 interaction surface; other site 434922004036 lipoyl attachment site [posttranslational modification]; other site 434922004037 e3 binding domain; Region: E3_binding; pfam02817 434922004038 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 434922004039 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 434922004040 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 434922004041 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 434922004042 dimer interface [polypeptide binding]; other site 434922004043 TPP-binding site [chemical binding]; other site 434922004044 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 434922004045 CobD/Cbib protein; Region: CobD_Cbib; cl00561 434922004046 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 434922004047 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 434922004048 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 434922004049 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 434922004050 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 434922004051 catalytic residues [active] 434922004052 adenylate kinase; Reviewed; Region: adk; PRK00279 434922004053 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 434922004054 AMP-binding site [chemical binding]; other site 434922004055 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 434922004056 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 434922004057 Type II transport protein GspH; Region: GspH; pfam12019 434922004058 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 434922004059 Domain of unknown function DUF21; Region: DUF21; pfam01595 434922004060 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 434922004061 Transporter associated domain; Region: CorC_HlyC; smart01091 434922004062 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 434922004063 signal recognition particle protein; Provisional; Region: PRK10867 434922004064 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 434922004065 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 434922004066 P loop; other site 434922004067 GTP binding site [chemical binding]; other site 434922004068 Signal peptide binding domain; Region: SRP_SPB; pfam02978 434922004069 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 434922004070 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004071 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 434922004072 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004073 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004074 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14523 434922004075 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 434922004076 RimM N-terminal domain; Region: RimM; pfam01782 434922004077 PRC-barrel domain; Region: PRC; pfam05239 434922004078 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 434922004079 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 434922004080 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 434922004081 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 434922004082 DNA binding site [nucleotide binding] 434922004083 active site 434922004084 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922004085 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 434922004086 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434922004087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922004088 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 434922004089 putative substrate translocation pore; other site 434922004090 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 434922004091 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 434922004092 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 434922004093 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 434922004094 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 434922004095 dimer interface [polypeptide binding]; other site 434922004096 putative anticodon binding site; other site 434922004097 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 434922004098 motif 1; other site 434922004099 active site 434922004100 motif 2; other site 434922004101 motif 3; other site 434922004102 hypothetical protein; Provisional; Region: PRK09256 434922004103 This domain is found in peptide chain release factors; Region: PCRF; smart00937 434922004104 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 434922004105 RF-1 domain; Region: RF-1; pfam00472 434922004106 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 434922004107 oligomerization interface [polypeptide binding]; other site 434922004108 active site 434922004109 metal binding site [ion binding]; metal-binding site 434922004110 pantoate--beta-alanine ligase; Region: panC; TIGR00018 434922004111 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434922004112 active site 434922004113 nucleotide binding site [chemical binding]; other site 434922004114 HIGH motif; other site 434922004115 KMSKS motif; other site 434922004116 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 434922004117 tetramerization interface [polypeptide binding]; other site 434922004118 active site 434922004119 IucA / IucC family; Region: IucA_IucC; pfam04183 434922004120 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 434922004121 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 434922004122 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 434922004123 NodB motif; other site 434922004124 putative active site [active] 434922004125 putative catalytic site [active] 434922004126 putative Zn binding site [ion binding]; other site 434922004127 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 434922004128 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 434922004129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922004130 catalytic residue [active] 434922004131 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 434922004132 nucleoside/Zn binding site; other site 434922004133 dimer interface [polypeptide binding]; other site 434922004134 catalytic motif [active] 434922004135 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 434922004136 Fic/DOC family; Region: Fic; pfam02661 434922004137 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 434922004138 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 434922004139 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 434922004140 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 434922004141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434922004142 Coenzyme A binding pocket [chemical binding]; other site 434922004143 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 434922004144 lipoprotein signal peptidase; Provisional; Region: PRK14787 434922004145 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 434922004146 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434922004147 active site 434922004148 HIGH motif; other site 434922004149 nucleotide binding site [chemical binding]; other site 434922004150 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434922004151 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 434922004152 active site 434922004153 KMSKS motif; other site 434922004154 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 434922004155 tRNA binding surface [nucleotide binding]; other site 434922004156 anticodon binding site; other site 434922004157 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 434922004158 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 434922004159 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 434922004160 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004161 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 434922004162 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 434922004163 active site 434922004164 Riboflavin kinase; Region: Flavokinase; smart00904 434922004165 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 434922004166 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 434922004167 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 434922004168 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 434922004169 GTP1/OBG; Region: GTP1_OBG; pfam01018 434922004170 Obg GTPase; Region: Obg; cd01898 434922004171 G1 box; other site 434922004172 GTP/Mg2+ binding site [chemical binding]; other site 434922004173 Switch I region; other site 434922004174 G2 box; other site 434922004175 G3 box; other site 434922004176 Switch II region; other site 434922004177 G4 box; other site 434922004178 G5 box; other site 434922004179 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 434922004180 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 434922004181 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 434922004182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 434922004183 Transposase; Region: DEDD_Tnp_IS110; pfam01548 434922004184 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 434922004185 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 434922004186 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 434922004187 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 434922004188 substrate binding pocket [chemical binding]; other site 434922004189 chain length determination region; other site 434922004190 substrate-Mg2+ binding site; other site 434922004191 catalytic residues [active] 434922004192 aspartate-rich region 1; other site 434922004193 active site lid residues [active] 434922004194 aspartate-rich region 2; other site 434922004195 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 434922004196 RHS Repeat; Region: RHS_repeat; pfam05593 434922004197 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 434922004198 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434922004199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922004200 active site 434922004201 phosphorylation site [posttranslational modification] 434922004202 intermolecular recognition site; other site 434922004203 dimerization interface [polypeptide binding]; other site 434922004204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004205 ATP binding site [chemical binding]; other site 434922004206 Mg2+ binding site [ion binding]; other site 434922004207 G-X-G motif; other site 434922004208 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 434922004209 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 434922004210 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 434922004211 amidase catalytic site [active] 434922004212 Zn binding residues [ion binding]; other site 434922004213 substrate binding site [chemical binding]; other site 434922004214 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 434922004215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922004216 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 434922004217 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 434922004218 hypothetical protein; Provisional; Region: PRK07505 434922004219 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 434922004220 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434922004221 catalytic residue [active] 434922004222 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 434922004223 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 434922004224 putative active site [active] 434922004225 putative catalytic site [active] 434922004226 Fic/DOC family; Region: Fic; pfam02661 434922004227 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 434922004228 putative substrate translocation pore; other site 434922004229 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 434922004230 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 434922004231 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 434922004232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922004233 active site 434922004234 phosphorylation site [posttranslational modification] 434922004235 intermolecular recognition site; other site 434922004236 dimerization interface [polypeptide binding]; other site 434922004237 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 434922004238 DNA binding site [nucleotide binding] 434922004239 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 434922004240 dimer interface [polypeptide binding]; other site 434922004241 phosphorylation site [posttranslational modification] 434922004242 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004243 ATP binding site [chemical binding]; other site 434922004244 Mg2+ binding site [ion binding]; other site 434922004245 G-X-G motif; other site 434922004246 phosphate:H+ symporter; Region: 2A0109; TIGR00887 434922004247 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 434922004248 putative substrate translocation pore; other site 434922004249 Peptidase family U32; Region: Peptidase_U32; cl03113 434922004250 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 434922004251 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 434922004252 metal binding site [ion binding]; metal-binding site 434922004253 dimer interface [polypeptide binding]; other site 434922004254 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 434922004255 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004256 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 434922004257 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004258 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 434922004259 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004260 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004261 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 434922004262 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004263 amino acid transporter; Region: 2A0306; TIGR00909 434922004264 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 434922004265 putative inner membrane peptidase; Provisional; Region: PRK11778 434922004266 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 434922004267 tandem repeat interface [polypeptide binding]; other site 434922004268 oligomer interface [polypeptide binding]; other site 434922004269 active site residues [active] 434922004270 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 434922004271 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 434922004272 putative binding surface; other site 434922004273 active site 434922004274 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 434922004275 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 434922004276 S-adenosylmethionine binding site [chemical binding]; other site 434922004277 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 434922004278 motif II; other site 434922004279 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 434922004280 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 434922004281 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 434922004282 putative substrate translocation pore; other site 434922004283 xylulokinase; Provisional; Region: PRK15027 434922004284 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 434922004285 N- and C-terminal domain interface [polypeptide binding]; other site 434922004286 active site 434922004287 MgATP binding site [chemical binding]; other site 434922004288 catalytic site [active] 434922004289 metal binding site [ion binding]; metal-binding site 434922004290 xylulose binding site [chemical binding]; other site 434922004291 homodimer interface [polypeptide binding]; other site 434922004292 xylose isomerase; Provisional; Region: PRK05474 434922004293 xylose isomerase; Region: xylose_isom_A; TIGR02630 434922004294 6-phosphofructokinase; Provisional; Region: PRK03202 434922004295 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 434922004296 active site 434922004297 ADP/pyrophosphate binding site [chemical binding]; other site 434922004298 dimerization interface [polypeptide binding]; other site 434922004299 allosteric effector site; other site 434922004300 fructose-1,6-bisphosphate binding site; other site 434922004301 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 434922004302 aminopeptidase N; Provisional; Region: pepN; PRK14015 434922004303 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 434922004304 active site 434922004305 Zn binding site [ion binding]; other site 434922004306 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 434922004307 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 434922004308 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 434922004309 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 434922004310 purine monophosphate binding site [chemical binding]; other site 434922004311 dimer interface [polypeptide binding]; other site 434922004312 putative catalytic residues [active] 434922004313 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 434922004314 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 434922004315 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; pfam03767 434922004316 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 434922004317 dimer interface [polypeptide binding]; other site 434922004318 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 434922004319 substrate binding site [chemical binding]; other site 434922004320 ATP binding site [chemical binding]; other site 434922004321 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 434922004322 thiamine phosphate binding site [chemical binding]; other site 434922004323 active site 434922004324 pyrophosphate binding site [ion binding]; other site 434922004325 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 434922004326 ThiS interaction site; other site 434922004327 putative active site [active] 434922004328 tetramer interface [polypeptide binding]; other site 434922004329 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 434922004330 thiS-thiF/thiG interaction site; other site 434922004331 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 434922004332 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 434922004333 ThiC-associated domain; Region: ThiC-associated; pfam13667 434922004334 ThiC family; Region: ThiC; pfam01964 434922004335 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 434922004336 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 434922004337 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 434922004338 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 434922004339 acyl-CoA synthetase; Validated; Region: PRK05850 434922004340 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 434922004341 acyl-activating enzyme (AAE) consensus motif; other site 434922004342 active site 434922004343 Phosphopantetheine attachment site; Region: PP-binding; cl09936 434922004344 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 434922004345 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 434922004346 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 434922004347 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434922004348 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 434922004349 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 434922004350 active site 434922004351 catalytic site [active] 434922004352 substrate binding site [chemical binding]; other site 434922004353 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 434922004354 RNA/DNA hybrid binding site [nucleotide binding]; other site 434922004355 active site 434922004356 Methyltransferase domain; Region: Methyltransf_23; pfam13489 434922004357 Methyltransferase domain; Region: Methyltransf_11; pfam08241 434922004358 DNA methylase; Region: N6_N4_Mtase; cl17433 434922004359 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 434922004360 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 434922004361 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 434922004362 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922004363 catalytic residue [active] 434922004364 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 434922004365 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434922004366 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434922004367 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434922004368 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922004369 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 434922004370 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 434922004371 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 434922004372 homodimer interface [polypeptide binding]; other site 434922004373 NADP binding site [chemical binding]; other site 434922004374 substrate binding site [chemical binding]; other site 434922004375 heat shock protein 90; Provisional; Region: PRK05218 434922004376 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004377 ATP binding site [chemical binding]; other site 434922004378 Mg2+ binding site [ion binding]; other site 434922004379 G-X-G motif; other site 434922004380 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 434922004381 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 434922004382 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 434922004383 generic binding surface II; other site 434922004384 ssDNA binding site; other site 434922004385 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 434922004386 ATP binding site [chemical binding]; other site 434922004387 putative Mg++ binding site [ion binding]; other site 434922004388 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 434922004389 nucleotide binding region [chemical binding]; other site 434922004390 ATP-binding site [chemical binding]; other site 434922004391 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 434922004392 homotrimer interaction site [polypeptide binding]; other site 434922004393 putative active site [active] 434922004394 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 434922004395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 434922004396 Zn2+ binding site [ion binding]; other site 434922004397 Mg2+ binding site [ion binding]; other site 434922004398 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 434922004399 synthetase active site [active] 434922004400 NTP binding site [chemical binding]; other site 434922004401 metal binding site [ion binding]; metal-binding site 434922004402 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 434922004403 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 434922004404 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 434922004405 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 434922004406 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 434922004407 catalytic site [active] 434922004408 G-X2-G-X-G-K; other site 434922004409 hypothetical protein; Provisional; Region: PRK11820 434922004410 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 434922004411 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 434922004412 ribonuclease PH; Reviewed; Region: rph; PRK00173 434922004413 Ribonuclease PH; Region: RNase_PH_bact; cd11362 434922004414 hexamer interface [polypeptide binding]; other site 434922004415 active site 434922004416 glutamate racemase; Provisional; Region: PRK00865 434922004417 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 434922004418 putative active site [active] 434922004419 putative catalytic site [active] 434922004420 putative DNA binding site [nucleotide binding]; other site 434922004421 putative phosphate binding site [ion binding]; other site 434922004422 metal binding site A [ion binding]; metal-binding site 434922004423 putative AP binding site [nucleotide binding]; other site 434922004424 putative metal binding site B [ion binding]; other site 434922004425 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434922004426 active site 434922004427 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 434922004428 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 434922004429 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 434922004430 active site 434922004431 substrate binding site [chemical binding]; other site 434922004432 metal binding site [ion binding]; metal-binding site 434922004433 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 434922004434 trimer interface [polypeptide binding]; other site 434922004435 active site 434922004436 hypothetical protein; Reviewed; Region: PRK00024 434922004437 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 434922004438 MPN+ (JAMM) motif; other site 434922004439 Zinc-binding site [ion binding]; other site 434922004440 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 434922004441 Ribosomal protein L33; Region: Ribosomal_L33; pfam00471 434922004442 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 434922004443 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 434922004444 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 434922004445 active site 434922004446 (T/H)XGH motif; other site 434922004447 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 434922004448 catalytic center binding site [active] 434922004449 ATP binding site [chemical binding]; other site 434922004450 poly(A) polymerase; Region: pcnB; TIGR01942 434922004451 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 434922004452 active site 434922004453 NTP binding site [chemical binding]; other site 434922004454 metal binding triad [ion binding]; metal-binding site 434922004455 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 434922004456 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 434922004457 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 434922004458 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 434922004459 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 434922004460 Initiator Replication protein; Region: Rep_3; pfam01051 434922004461 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 434922004462 Zn binding site [ion binding]; other site 434922004463 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 434922004464 catalytic motif [active] 434922004465 Catalytic residue [active] 434922004466 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922004467 Helix-turn-helix domain; Region: HTH_38; pfam13936 434922004468 Integrase core domain; Region: rve; pfam00665 434922004469 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 434922004470 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 434922004471 heme binding pocket [chemical binding]; other site 434922004472 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 434922004473 domain interactions; other site 434922004474 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 434922004475 Amidinotransferase; Region: Amidinotransf; pfam02274 434922004476 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 434922004477 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 434922004478 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 434922004479 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434922004480 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 434922004481 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 434922004482 substrate binding site [chemical binding]; other site 434922004483 active site 434922004484 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 434922004485 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 434922004486 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 434922004487 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 434922004488 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 434922004489 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922004490 putative substrate translocation pore; other site 434922004491 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 434922004492 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 434922004493 dimer interface [polypeptide binding]; other site 434922004494 ssDNA binding site [nucleotide binding]; other site 434922004495 tetramer (dimer of dimers) interface [polypeptide binding]; other site 434922004496 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 434922004497 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 434922004498 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 434922004499 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 434922004500 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 434922004501 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 434922004502 putative substrate translocation pore; other site 434922004503 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 434922004504 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 434922004505 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 434922004506 alphaNTD homodimer interface [polypeptide binding]; other site 434922004507 alphaNTD - beta interaction site [polypeptide binding]; other site 434922004508 alphaNTD - beta' interaction site [polypeptide binding]; other site 434922004509 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 434922004510 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 434922004511 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 434922004512 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 434922004513 RNA binding surface [nucleotide binding]; other site 434922004514 30S ribosomal protein S11; Validated; Region: PRK05309 434922004515 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 434922004516 30S ribosomal protein S13; Region: bact_S13; TIGR03631 434922004517 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 434922004518 SecY translocase; Region: SecY; pfam00344 434922004519 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 434922004520 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 434922004521 23S rRNA binding site [nucleotide binding]; other site 434922004522 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 434922004523 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 434922004524 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 434922004525 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 434922004526 5S rRNA interface [nucleotide binding]; other site 434922004527 23S rRNA interface [nucleotide binding]; other site 434922004528 L5 interface [polypeptide binding]; other site 434922004529 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 434922004530 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 434922004531 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 434922004532 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 434922004533 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 434922004534 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 434922004535 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 434922004536 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 434922004537 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 434922004538 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 434922004539 RNA binding site [nucleotide binding]; other site 434922004540 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 434922004541 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 434922004542 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 434922004543 L23 interface [polypeptide binding]; other site 434922004544 signal recognition particle (SRP54) interaction site; other site 434922004545 trigger factor interaction site; other site 434922004546 23S rRNA interface [nucleotide binding]; other site 434922004547 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 434922004548 23S rRNA interface [nucleotide binding]; other site 434922004549 5S rRNA interface [nucleotide binding]; other site 434922004550 putative antibiotic binding site [chemical binding]; other site 434922004551 L25 interface [polypeptide binding]; other site 434922004552 L27 interface [polypeptide binding]; other site 434922004553 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 434922004554 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 434922004555 G-X-X-G motif; other site 434922004556 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 434922004557 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 434922004558 protein-rRNA interface [nucleotide binding]; other site 434922004559 putative translocon binding site; other site 434922004560 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 434922004561 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 434922004562 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 434922004563 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 434922004564 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 434922004565 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 434922004566 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 434922004567 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 434922004568 elongation factor Tu; Reviewed; Region: PRK00049 434922004569 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 434922004570 G1 box; other site 434922004571 GEF interaction site [polypeptide binding]; other site 434922004572 GTP/Mg2+ binding site [chemical binding]; other site 434922004573 Switch I region; other site 434922004574 G2 box; other site 434922004575 G3 box; other site 434922004576 Switch II region; other site 434922004577 G4 box; other site 434922004578 G5 box; other site 434922004579 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 434922004580 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 434922004581 Antibiotic Binding Site [chemical binding]; other site 434922004582 elongation factor G; Reviewed; Region: PRK00007 434922004583 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 434922004584 G1 box; other site 434922004585 putative GEF interaction site [polypeptide binding]; other site 434922004586 GTP/Mg2+ binding site [chemical binding]; other site 434922004587 Switch I region; other site 434922004588 G2 box; other site 434922004589 G3 box; other site 434922004590 Switch II region; other site 434922004591 G4 box; other site 434922004592 G5 box; other site 434922004593 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 434922004594 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 434922004595 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 434922004596 30S ribosomal protein S7; Validated; Region: PRK05302 434922004597 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 434922004598 S17 interaction site [polypeptide binding]; other site 434922004599 S8 interaction site; other site 434922004600 16S rRNA interaction site [nucleotide binding]; other site 434922004601 streptomycin interaction site [chemical binding]; other site 434922004602 23S rRNA interaction site [nucleotide binding]; other site 434922004603 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 434922004604 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 434922004605 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 434922004606 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 434922004607 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 434922004608 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 434922004609 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 434922004610 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 434922004611 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 434922004612 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 434922004613 DNA binding site [nucleotide binding] 434922004614 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 434922004615 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 434922004616 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 434922004617 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 434922004618 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 434922004619 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 434922004620 RPB12 interaction site [polypeptide binding]; other site 434922004621 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 434922004622 RPB3 interaction site [polypeptide binding]; other site 434922004623 RPB1 interaction site [polypeptide binding]; other site 434922004624 RPB11 interaction site [polypeptide binding]; other site 434922004625 RPB10 interaction site [polypeptide binding]; other site 434922004626 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 434922004627 core dimer interface [polypeptide binding]; other site 434922004628 peripheral dimer interface [polypeptide binding]; other site 434922004629 L10 interface [polypeptide binding]; other site 434922004630 L11 interface [polypeptide binding]; other site 434922004631 putative EF-Tu interaction site [polypeptide binding]; other site 434922004632 putative EF-G interaction site [polypeptide binding]; other site 434922004633 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 434922004634 23S rRNA interface [nucleotide binding]; other site 434922004635 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 434922004636 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 434922004637 mRNA/rRNA interface [nucleotide binding]; other site 434922004638 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 434922004639 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 434922004640 23S rRNA interface [nucleotide binding]; other site 434922004641 L7/L12 interface [polypeptide binding]; other site 434922004642 putative thiostrepton binding site; other site 434922004643 L25 interface [polypeptide binding]; other site 434922004644 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 434922004645 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 434922004646 putative homodimer interface [polypeptide binding]; other site 434922004647 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 434922004648 heterodimer interface [polypeptide binding]; other site 434922004649 homodimer interface [polypeptide binding]; other site 434922004650 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 434922004651 elongation factor Tu; Reviewed; Region: PRK00049 434922004652 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 434922004653 G1 box; other site 434922004654 GEF interaction site [polypeptide binding]; other site 434922004655 GTP/Mg2+ binding site [chemical binding]; other site 434922004656 Switch I region; other site 434922004657 G2 box; other site 434922004658 G3 box; other site 434922004659 Switch II region; other site 434922004660 G4 box; other site 434922004661 G5 box; other site 434922004662 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 434922004663 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 434922004664 Antibiotic Binding Site [chemical binding]; other site 434922004665 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 434922004666 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 434922004667 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 434922004668 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 434922004669 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 434922004670 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 434922004671 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 434922004672 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 434922004673 NlpC/P60 family; Region: NLPC_P60; cl17555 434922004674 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 434922004675 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 434922004676 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 434922004677 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 434922004678 EamA-like transporter family; Region: EamA; pfam00892 434922004679 EamA-like transporter family; Region: EamA; pfam00892 434922004680 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 434922004681 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922004682 active site 434922004683 HIGH motif; other site 434922004684 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434922004685 active site 434922004686 KMSKS motif; other site 434922004687 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 434922004688 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 434922004689 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 434922004690 active site 434922004691 catalytic residues [active] 434922004692 pantothenate kinase; Provisional; Region: PRK05439 434922004693 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...; Region: PanK; cd02025 434922004694 ATP-binding site [chemical binding]; other site 434922004695 CoA-binding site [chemical binding]; other site 434922004696 Mg2+-binding site [ion binding]; other site 434922004697 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434922004698 Surface antigen; Region: Bac_surface_Ag; pfam01103 434922004699 Family of unknown function (DUF490); Region: DUF490; pfam04357 434922004700 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 434922004701 muropeptide transporter; Reviewed; Region: ampG; PRK11902 434922004702 putative substrate translocation pore; other site 434922004703 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 434922004704 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 434922004705 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 434922004706 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 434922004707 LAGLIDADG endonuclease; Region: LAGLIDADG_1; pfam00961 434922004708 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 434922004709 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 434922004710 active site 434922004711 HIGH motif; other site 434922004712 dimer interface [polypeptide binding]; other site 434922004713 KMSKS motif; other site 434922004714 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 434922004715 RNA binding surface [nucleotide binding]; other site 434922004716 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 434922004717 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 434922004718 Peptidase family M23; Region: Peptidase_M23; pfam01551 434922004719 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 434922004720 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 434922004721 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 434922004722 Walker A/P-loop; other site 434922004723 ATP binding site [chemical binding]; other site 434922004724 Q-loop/lid; other site 434922004725 ABC transporter signature motif; other site 434922004726 Walker B; other site 434922004727 D-loop; other site 434922004728 H-loop/switch region; other site 434922004729 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 434922004730 dimer interface [polypeptide binding]; other site 434922004731 conserved gate region; other site 434922004732 ABC-ATPase subunit interface; other site 434922004733 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 434922004734 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 434922004735 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 434922004736 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 434922004737 active site 434922004738 ATP binding site [chemical binding]; other site 434922004739 substrate binding site [chemical binding]; other site 434922004740 Condensation domain; Region: Condensation; pfam00668 434922004741 acyl carrier protein; Validated; Region: PRK07117 434922004742 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 434922004743 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 434922004744 substrate binding site [chemical binding]; other site 434922004745 oxyanion hole (OAH) forming residues; other site 434922004746 trimer interface [polypeptide binding]; other site 434922004747 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 434922004748 "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...; Region: init_cond_enzymes; cd00827 434922004749 dimer interface [polypeptide binding]; other site 434922004750 active site 434922004751 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 434922004752 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 434922004753 dimer interface [polypeptide binding]; other site 434922004754 active site 434922004755 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 434922004756 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 434922004757 active site 434922004758 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 434922004759 Thioesterase domain; Region: Thioesterase; pfam00975 434922004760 Condensation domain; Region: Condensation; pfam00668 434922004761 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 434922004762 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 434922004763 acyl-activating enzyme (AAE) consensus motif; other site 434922004764 AMP binding site [chemical binding]; other site 434922004765 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 434922004766 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 434922004767 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004768 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 434922004769 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 434922004770 active site 434922004771 catalytic tetrad [active] 434922004772 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 434922004773 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 434922004774 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 434922004775 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09677 434922004776 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09674 434922004777 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 434922004778 putative major pilin subunit; Provisional; Region: PRK10574 434922004779 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 434922004780 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 434922004781 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 434922004782 Walker A motif; other site 434922004783 ATP binding site [chemical binding]; other site 434922004784 Walker B motif; other site 434922004785 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 434922004786 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 434922004787 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 434922004788 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 434922004789 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 434922004790 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 434922004791 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 434922004792 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 434922004793 CoA-binding site [chemical binding]; other site 434922004794 ATP-binding [chemical binding]; other site 434922004795 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 434922004796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 434922004797 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 434922004798 hypothetical protein; Provisional; Region: PRK05287 434922004799 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922004800 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 434922004801 active site 434922004802 8-oxo-dGMP binding site [chemical binding]; other site 434922004803 nudix motif; other site 434922004804 metal binding site [ion binding]; metal-binding site 434922004805 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 434922004806 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 434922004807 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 434922004808 nucleotide binding region [chemical binding]; other site 434922004809 SEC-C motif; Region: SEC-C; pfam02810 434922004810 Protein of unknown function (DUF721); Region: DUF721; pfam05258 434922004811 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 434922004812 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 434922004813 cell division protein FtsZ; Validated; Region: PRK09330 434922004814 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 434922004815 nucleotide binding site [chemical binding]; other site 434922004816 SulA interaction site; other site 434922004817 cell division protein FtsA; Region: ftsA; TIGR01174 434922004818 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 434922004819 nucleotide binding site [chemical binding]; other site 434922004820 Cell division protein FtsA; Region: FtsA; pfam14450 434922004821 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 434922004822 active site clefts [active] 434922004823 zinc binding site [ion binding]; other site 434922004824 dimer interface [polypeptide binding]; other site 434922004825 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 434922004826 Cell division protein FtsQ; Region: FtsQ; pfam03799 434922004827 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 434922004828 FAD binding domain; Region: FAD_binding_4; pfam01565 434922004829 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 434922004830 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 434922004831 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434922004832 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004833 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004834 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 434922004835 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 434922004836 active site 434922004837 homodimer interface [polypeptide binding]; other site 434922004838 cell division protein FtsW; Region: ftsW; TIGR02614 434922004839 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 434922004840 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004841 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004842 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 434922004843 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 434922004844 Mg++ binding site [ion binding]; other site 434922004845 putative catalytic motif [active] 434922004846 putative substrate binding site [chemical binding]; other site 434922004847 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 434922004848 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434922004849 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004850 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004851 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 434922004852 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434922004853 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434922004854 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434922004855 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 434922004856 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 434922004857 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 434922004858 Cell division protein FtsL; Region: FtsL; pfam04999 434922004859 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 434922004860 MraW methylase family; Region: Methyltransf_5; cl17771 434922004861 cell division protein MraZ; Reviewed; Region: PRK00326 434922004862 MraZ protein; Region: MraZ; pfam02381 434922004863 MraZ protein; Region: MraZ; pfam02381 434922004864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 434922004865 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 434922004866 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 434922004867 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 434922004868 NAD(P) binding site [chemical binding]; other site 434922004869 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 434922004870 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 434922004871 substrate-cofactor binding pocket; other site 434922004872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922004873 catalytic residue [active] 434922004874 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 434922004875 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 434922004876 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 434922004877 ABC-ATPase subunit interface; other site 434922004878 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 434922004879 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 434922004880 Walker A/P-loop; other site 434922004881 ATP binding site [chemical binding]; other site 434922004882 Q-loop/lid; other site 434922004883 ABC transporter signature motif; other site 434922004884 Walker B; other site 434922004885 D-loop; other site 434922004886 H-loop/switch region; other site 434922004887 NIL domain; Region: NIL; pfam09383 434922004888 Repeats found in Drosophila proteins; Region: DM9; smart00696 434922004889 Protein of unknown function (DUF3421); Region: DUF3421; pfam11901 434922004890 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 434922004891 hypothetical protein; Provisional; Region: PRK08201 434922004892 metal binding site [ion binding]; metal-binding site 434922004893 putative dimer interface [polypeptide binding]; other site 434922004894 L-aspartate oxidase; Provisional; Region: PRK09077 434922004895 L-aspartate oxidase; Provisional; Region: PRK06175 434922004896 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 434922004897 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 434922004898 catalytic core [active] 434922004899 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 434922004900 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 434922004901 dimerization interface [polypeptide binding]; other site 434922004902 active site 434922004903 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 434922004904 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 434922004905 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 434922004906 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 434922004907 PLD-like domain; Region: PLDc_2; pfam13091 434922004908 putative active site [active] 434922004909 catalytic site [active] 434922004910 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 434922004911 PLD-like domain; Region: PLDc_2; pfam13091 434922004912 putative active site [active] 434922004913 catalytic site [active] 434922004914 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 434922004915 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 434922004916 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 434922004917 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 434922004918 Clp amino terminal domain; Region: Clp_N; pfam02861 434922004919 Clp amino terminal domain; Region: Clp_N; pfam02861 434922004920 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 434922004921 Walker A motif; other site 434922004922 ATP binding site [chemical binding]; other site 434922004923 Walker B motif; other site 434922004924 arginine finger; other site 434922004925 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 434922004926 Walker A motif; other site 434922004927 ATP binding site [chemical binding]; other site 434922004928 Walker B motif; other site 434922004929 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 434922004930 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 434922004931 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 434922004932 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 434922004933 Tetratricopeptide repeat; Region: TPR_6; pfam13174 434922004934 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 434922004935 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434922004936 ligand binding site [chemical binding]; other site 434922004937 translocation protein TolB; Provisional; Region: tolB; PRK04922 434922004938 TolB amino-terminal domain; Region: TolB_N; pfam04052 434922004939 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434922004940 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434922004941 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434922004942 TolA protein; Region: tolA_full; TIGR02794 434922004943 TonB C terminal; Region: TonB_2; pfam13103 434922004944 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 434922004945 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 434922004946 Sulfatase; Region: Sulfatase; pfam00884 434922004947 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 434922004948 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 434922004949 active site 434922004950 Predicted small secreted protein [Function unknown]; Region: COG5510 434922004951 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 434922004952 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 434922004953 Sulfatase; Region: Sulfatase; cl17466 434922004954 prolyl-tRNA synthetase; Provisional; Region: PRK09194 434922004955 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 434922004956 dimer interface [polypeptide binding]; other site 434922004957 motif 1; other site 434922004958 active site 434922004959 motif 2; other site 434922004960 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 434922004961 putative deacylase active site [active] 434922004962 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 434922004963 active site 434922004964 motif 3; other site 434922004965 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 434922004966 anticodon binding site; other site 434922004967 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 434922004968 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 434922004969 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 434922004970 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 434922004971 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 434922004972 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 434922004973 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 434922004974 active site 434922004975 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004976 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 434922004977 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004978 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004979 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 434922004980 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004981 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004982 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 434922004983 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 434922004984 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 434922004985 TIGR02449 family protein; Region: TIGR02449 434922004986 Cell division protein ZapA; Region: ZapA; pfam05164 434922004987 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 434922004988 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 434922004989 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 434922004990 active site residue [active] 434922004991 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 434922004992 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922004993 ATP binding site [chemical binding]; other site 434922004994 Mg2+ binding site [ion binding]; other site 434922004995 G-X-G motif; other site 434922004996 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 434922004997 anchoring element; other site 434922004998 dimer interface [polypeptide binding]; other site 434922004999 ATP binding site [chemical binding]; other site 434922005000 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 434922005001 active site 434922005002 metal binding site [ion binding]; metal-binding site 434922005003 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 434922005004 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 434922005005 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 434922005006 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 434922005007 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 434922005008 HSP70 interaction site [polypeptide binding]; other site 434922005009 Protein of unknown function (DUF1658); Region: DUF1658; pfam07871 434922005010 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 434922005011 Sporulation related domain; Region: SPOR; pfam05036 434922005012 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 434922005013 UbiA prenyltransferase family; Region: UbiA; pfam01040 434922005014 Chorismate lyase; Region: Chor_lyase; cl01230 434922005015 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434922005016 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 434922005017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 434922005018 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434922005019 HlyD family secretion protein; Region: HlyD_3; pfam13437 434922005020 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 434922005021 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 434922005022 Walker A/P-loop; other site 434922005023 ATP binding site [chemical binding]; other site 434922005024 Q-loop/lid; other site 434922005025 ABC transporter signature motif; other site 434922005026 Walker B; other site 434922005027 D-loop; other site 434922005028 H-loop/switch region; other site 434922005029 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 434922005030 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 434922005031 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 434922005032 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 434922005033 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434922005034 ligand binding site [chemical binding]; other site 434922005035 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 434922005036 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 434922005037 active site 434922005038 dimerization interface [polypeptide binding]; other site 434922005039 ferrochelatase; Reviewed; Region: hemH; PRK00035 434922005040 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 434922005041 C-terminal domain interface [polypeptide binding]; other site 434922005042 active site 434922005043 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 434922005044 active site 434922005045 N-terminal domain interface [polypeptide binding]; other site 434922005046 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 434922005047 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 434922005048 S-adenosylmethionine binding site [chemical binding]; other site 434922005049 peptide chain release factor 1; Validated; Region: prfA; PRK00591 434922005050 This domain is found in peptide chain release factors; Region: PCRF; smart00937 434922005051 RF-1 domain; Region: RF-1; pfam00472 434922005052 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 434922005053 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 434922005054 tRNA; other site 434922005055 putative tRNA binding site [nucleotide binding]; other site 434922005056 putative NADP binding site [chemical binding]; other site 434922005057 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 434922005058 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 434922005059 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 434922005060 putative substrate translocation pore; other site 434922005061 Dihydroneopterin aldolase; Region: FolB; pfam02152 434922005062 active site 434922005063 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 434922005064 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 434922005065 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 434922005066 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 434922005067 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 434922005068 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; cl17315 434922005069 DNA binding residues [nucleotide binding] 434922005070 dimerization interface [polypeptide binding]; other site 434922005071 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 434922005072 putative hydrolase; Provisional; Region: PRK11460 434922005073 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 434922005074 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 434922005075 Substrate binding site; other site 434922005076 metal-binding site 434922005077 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 434922005078 Phosphotransferase enzyme family; Region: APH; pfam01636 434922005079 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 434922005080 Organic solvent tolerance protein; Region: OstA_C; pfam04453 434922005081 SurA N-terminal domain; Region: SurA_N; pfam09312 434922005082 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 434922005083 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 434922005084 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 434922005085 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 434922005086 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 434922005087 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 434922005088 Ligand Binding Site [chemical binding]; other site 434922005089 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 434922005090 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 434922005091 tandem repeat interface [polypeptide binding]; other site 434922005092 oligomer interface [polypeptide binding]; other site 434922005093 active site residues [active] 434922005094 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 434922005095 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 434922005096 active site 434922005097 metal binding site [ion binding]; metal-binding site 434922005098 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 434922005099 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 434922005100 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 434922005101 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 434922005102 folate binding site [chemical binding]; other site 434922005103 NADP+ binding site [chemical binding]; other site 434922005104 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 434922005105 acylphosphatase; Provisional; Region: PRK14437 434922005106 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 434922005107 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 434922005108 active site 434922005109 motif I; other site 434922005110 motif II; other site 434922005111 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 434922005112 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 434922005113 putative active site [active] 434922005114 substrate binding site [chemical binding]; other site 434922005115 putative cosubstrate binding site; other site 434922005116 catalytic site [active] 434922005117 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 434922005118 substrate binding site [chemical binding]; other site 434922005119 DNA protecting protein DprA; Region: dprA; TIGR00732 434922005120 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 434922005121 Protein of unknown function (DUF494); Region: DUF494; pfam04361 434922005122 DNA topoisomerase I; Validated; Region: PRK06599 434922005123 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 434922005124 active site 434922005125 interdomain interaction site; other site 434922005126 putative metal-binding site [ion binding]; other site 434922005127 nucleotide binding site [chemical binding]; other site 434922005128 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 434922005129 domain I; other site 434922005130 DNA binding groove [nucleotide binding] 434922005131 phosphate binding site [ion binding]; other site 434922005132 domain II; other site 434922005133 domain III; other site 434922005134 nucleotide binding site [chemical binding]; other site 434922005135 catalytic site [active] 434922005136 domain IV; other site 434922005137 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434922005138 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 434922005139 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434922005140 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434922005141 AIR carboxylase; Region: AIRC; pfam00731 434922005142 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 434922005143 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434922005144 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 434922005145 putative active site [active] 434922005146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 434922005147 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 434922005148 dimerization interface [polypeptide binding]; other site 434922005149 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 434922005150 dimer interface [polypeptide binding]; other site 434922005151 phosphorylation site [posttranslational modification] 434922005152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 434922005153 ATP binding site [chemical binding]; other site 434922005154 Mg2+ binding site [ion binding]; other site 434922005155 G-X-G motif; other site 434922005156 osmolarity response regulator; Provisional; Region: ompR; PRK09468 434922005157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 434922005158 active site 434922005159 phosphorylation site [posttranslational modification] 434922005160 intermolecular recognition site; other site 434922005161 dimerization interface [polypeptide binding]; other site 434922005162 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 434922005163 DNA binding site [nucleotide binding] 434922005164 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 434922005165 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 434922005166 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434922005167 active site 434922005168 HIGH motif; other site 434922005169 nucleotide binding site [chemical binding]; other site 434922005170 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 434922005171 KMSK motif region; other site 434922005172 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 434922005173 tRNA binding surface [nucleotide binding]; other site 434922005174 anticodon binding site; other site 434922005175 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 434922005176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 434922005177 GtrA-like protein; Region: GtrA; pfam04138 434922005178 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 434922005179 active site 434922005180 HslU subunit interaction site [polypeptide binding]; other site 434922005181 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 434922005182 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 434922005183 Walker A motif; other site 434922005184 ATP binding site [chemical binding]; other site 434922005185 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 434922005186 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 434922005187 Predicted membrane protein [Function unknown]; Region: COG2323 434922005188 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 434922005189 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 434922005190 POT family; Region: PTR2; cl17359 434922005191 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 434922005192 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 434922005193 S-adenosylmethionine binding site [chemical binding]; other site 434922005194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 434922005195 SCP-2 sterol transfer family; Region: SCP2; pfam02036 434922005196 ABC1 family; Region: ABC1; cl17513 434922005197 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 434922005198 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 434922005199 AAA domain; Region: AAA_14; pfam13173 434922005200 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434922005201 Membrane fusogenic activity; Region: BMFP; pfam04380 434922005202 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 434922005203 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 434922005204 dimer interface [polypeptide binding]; other site 434922005205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922005206 catalytic residue [active] 434922005207 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 434922005208 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 434922005209 homodimer interface [polypeptide binding]; other site 434922005210 substrate-cofactor binding pocket; other site 434922005211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434922005212 catalytic residue [active] 434922005213 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 434922005214 S-adenosylmethionine synthetase; Validated; Region: PRK05250 434922005215 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 434922005216 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 434922005217 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 434922005218 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 434922005219 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 434922005220 homotetramer interface [polypeptide binding]; other site 434922005221 ligand binding site [chemical binding]; other site 434922005222 catalytic site [active] 434922005223 NAD binding site [chemical binding]; other site 434922005224 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 434922005225 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 434922005226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 434922005227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 434922005228 metal binding site [ion binding]; metal-binding site 434922005229 active site 434922005230 I-site; other site 434922005231 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 434922005232 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434922005233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922005234 Walker A/P-loop; other site 434922005235 ATP binding site [chemical binding]; other site 434922005236 Q-loop/lid; other site 434922005237 ABC transporter signature motif; other site 434922005238 Walker B; other site 434922005239 D-loop; other site 434922005240 H-loop/switch region; other site 434922005241 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 434922005242 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 434922005243 putative active site [active] 434922005244 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434922005245 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434922005246 Walker A/P-loop; other site 434922005247 ATP binding site [chemical binding]; other site 434922005248 Q-loop/lid; other site 434922005249 ABC transporter signature motif; other site 434922005250 Walker B; other site 434922005251 D-loop; other site 434922005252 H-loop/switch region; other site 434922005253 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 434922005254 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434922005255 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 434922005256 HlyD family secretion protein; Region: HlyD_3; pfam13437 434922005257 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 434922005258 PAS domain; Region: PAS_9; pfam13426 434922005259 putative active site [active] 434922005260 heme pocket [chemical binding]; other site 434922005261 PAS domain; Region: PAS_9; pfam13426 434922005262 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 434922005263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 434922005264 metal binding site [ion binding]; metal-binding site 434922005265 active site 434922005266 I-site; other site 434922005267 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 434922005268 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 434922005269 active site 434922005270 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 434922005271 FAD binding site [chemical binding]; other site 434922005272 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 434922005273 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 434922005274 THF binding site; other site 434922005275 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 434922005276 substrate binding site [chemical binding]; other site 434922005277 THF binding site; other site 434922005278 zinc-binding site [ion binding]; other site 434922005279 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 434922005280 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 434922005281 active site 434922005282 HIGH motif; other site 434922005283 dimer interface [polypeptide binding]; other site 434922005284 KMSKS motif; other site 434922005285 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 434922005286 Part of AAA domain; Region: AAA_19; pfam13245 434922005287 Family description; Region: UvrD_C_2; pfam13538 434922005288 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 434922005289 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 434922005290 metabolite-proton symporter; Region: 2A0106; TIGR00883 434922005291 putative substrate translocation pore; other site 434922005292 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 434922005293 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434922005294 catalytic residue [active] 434922005295 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 434922005296 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434922005297 putative substrate translocation pore; other site 434922005298 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 434922005299 putative substrate translocation pore; other site 434922005300 thymidine kinase; Provisional; Region: PRK04296 434922005301 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 434922005302 ATP binding site [chemical binding]; other site 434922005303 Walker A motif; other site 434922005304 Walker B motif; other site 434922005305 Chorismate mutase type II; Region: CM_2; smart00830 434922005306 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 434922005307 Helix-turn-helix domain; Region: HTH_38; pfam13936 434922005308 Integrase core domain; Region: rve; pfam00665 434922005309 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 434922005310 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 434922005311 putative acyl-acceptor binding pocket; other site 434922005312 porphobilinogen deaminase; Region: hemC; TIGR00212 434922005313 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 434922005314 domain interfaces; other site 434922005315 active site 434922005316 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 434922005317 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 434922005318 active site 434922005319 catalytic residue [active] 434922005320 dimer interface [polypeptide binding]; other site 434922005321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 434922005322 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 434922005323 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 434922005324 active site 434922005325 Fic family protein [Function unknown]; Region: COG3177 434922005326 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 434922005327 Fic/DOC family; Region: Fic; pfam02661 434922005328 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 434922005329 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 434922005330 HemY protein N-terminus; Region: HemY_N; pfam07219 434922005331 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 434922005332 binding surface 434922005333 TPR motif; other site 434922005334 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 434922005335 Predicted periplasmic protein [Function unknown]; Region: COG3698 434922005336 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 434922005337 Ligand Binding Site [chemical binding]; other site 434922005338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 434922005339 transcription termination factor Rho; Provisional; Region: rho; PRK09376 434922005340 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 434922005341 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 434922005342 RNA binding site [nucleotide binding]; other site 434922005343 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 434922005344 multimer interface [polypeptide binding]; other site 434922005345 Walker A motif; other site 434922005346 ATP binding site [chemical binding]; other site 434922005347 Walker B motif; other site 434922005348 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 434922005349 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 434922005350 catalytic residues [active] 434922005351 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 434922005352 Na2 binding site [ion binding]; other site 434922005353 putative substrate binding site 1 [chemical binding]; other site 434922005354 Na binding site 1 [ion binding]; other site 434922005355 putative substrate binding site 2 [chemical binding]; other site 434922005356 YGGT family; Region: YGGT; pfam02325 434922005357 YGGT family; Region: YGGT; pfam02325 434922005358 pyrroline-5-carboxylate reductase; Region: PLN02688 434922005359 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 434922005360 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 434922005361 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434922005362 catalytic residue [active] 434922005363 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 434922005364 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 434922005365 active site 434922005366 substrate-binding site [chemical binding]; other site 434922005367 metal-binding site [ion binding] 434922005368 ATP binding site [chemical binding]; other site 434922005369 hypothetical protein; Validated; Region: PRK00228 434922005370 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 434922005371 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK13814 434922005372 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 434922005373 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185