-- dump date 20140618_194703 -- class Genbank::misc_feature -- table misc_feature_note -- id note 314275000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 314275000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 314275000003 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 314275000004 Walker A motif; other site 314275000005 ATP binding site [chemical binding]; other site 314275000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 314275000007 Walker B motif; other site 314275000008 arginine finger; other site 314275000009 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 314275000010 DnaA box-binding interface [nucleotide binding]; other site 314275000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 314275000012 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 314275000013 putative DNA binding surface [nucleotide binding]; other site 314275000014 dimer interface [polypeptide binding]; other site 314275000015 beta-clamp/clamp loader binding surface; other site 314275000016 beta-clamp/translesion DNA polymerase binding surface; other site 314275000017 recombination protein F; Reviewed; Region: recF; PRK00064 314275000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275000019 Walker A/P-loop; other site 314275000020 ATP binding site [chemical binding]; other site 314275000021 Q-loop/lid; other site 314275000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275000023 ABC transporter signature motif; other site 314275000024 Walker B; other site 314275000025 D-loop; other site 314275000026 H-loop/switch region; other site 314275000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 314275000028 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 314275000029 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 314275000030 anchoring element; other site 314275000031 dimer interface [polypeptide binding]; other site 314275000032 ATP binding site [chemical binding]; other site 314275000033 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 314275000034 active site 314275000035 putative metal-binding site [ion binding]; other site 314275000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314275000037 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 314275000038 DALR anticodon binding domain; Region: DALR_1; pfam05746 314275000039 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 314275000040 dimer interface [polypeptide binding]; other site 314275000041 motif 1; other site 314275000042 active site 314275000043 motif 2; other site 314275000044 motif 3; other site 314275000045 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 314275000046 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 314275000047 Der GTPase activator; Provisional; Region: PRK05244 314275000048 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275000049 Cytochrome c553 [Energy production and conversion]; Region: COG2863 314275000050 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 314275000051 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 314275000052 Cytochrome c; Region: Cytochrom_C; cl11414 314275000053 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 314275000054 G1 box; other site 314275000055 GTP/Mg2+ binding site [chemical binding]; other site 314275000056 Switch I region; other site 314275000057 G2 box; other site 314275000058 G3 box; other site 314275000059 Switch II region; other site 314275000060 G4 box; other site 314275000061 G5 box; other site 314275000062 DNA polymerase I; Provisional; Region: PRK05755 314275000063 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 314275000064 active site 314275000065 metal binding site 1 [ion binding]; metal-binding site 314275000066 putative 5' ssDNA interaction site; other site 314275000067 metal binding site 3; metal-binding site 314275000068 metal binding site 2 [ion binding]; metal-binding site 314275000069 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 314275000070 putative DNA binding site [nucleotide binding]; other site 314275000071 putative metal binding site [ion binding]; other site 314275000072 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 314275000073 active site 314275000074 catalytic site [active] 314275000075 substrate binding site [chemical binding]; other site 314275000076 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 314275000077 active site 314275000078 DNA binding site [nucleotide binding] 314275000079 catalytic site [active] 314275000080 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 314275000081 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 314275000082 conserved cys residue [active] 314275000083 Cation transport protein; Region: TrkH; cl17365 314275000084 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 314275000085 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 314275000086 TrkA-N domain; Region: TrkA_N; pfam02254 314275000087 TrkA-C domain; Region: TrkA_C; pfam02080 314275000088 TrkA-N domain; Region: TrkA_N; pfam02254 314275000089 TrkA-C domain; Region: TrkA_C; pfam02080 314275000090 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 314275000091 16S rRNA methyltransferase B; Provisional; Region: PRK10901 314275000092 putative RNA binding site [nucleotide binding]; other site 314275000093 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 314275000094 S-adenosylmethionine binding site [chemical binding]; other site 314275000095 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 314275000096 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 314275000097 putative active site [active] 314275000098 substrate binding site [chemical binding]; other site 314275000099 putative cosubstrate binding site; other site 314275000100 catalytic site [active] 314275000101 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 314275000102 substrate binding site [chemical binding]; other site 314275000103 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 314275000104 active site 314275000105 catalytic residues [active] 314275000106 metal binding site [ion binding]; metal-binding site 314275000107 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314275000108 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 314275000109 DNA protecting protein DprA; Region: dprA; TIGR00732 314275000110 Protein of unknown function (DUF494); Region: DUF494; cl01103 314275000111 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314275000112 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314275000113 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314275000114 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 314275000115 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 314275000116 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 314275000117 OmpW family; Region: OmpW; cl17427 314275000118 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 314275000119 heme-binding site [chemical binding]; other site 314275000120 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 314275000121 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 314275000122 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 314275000123 shikimate binding site; other site 314275000124 NAD(P) binding site [chemical binding]; other site 314275000125 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 314275000126 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 314275000127 trimer interface [polypeptide binding]; other site 314275000128 putative metal binding site [ion binding]; other site 314275000129 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 314275000130 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 314275000131 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314275000132 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 314275000133 substrate binding pocket [chemical binding]; other site 314275000134 membrane-bound complex binding site; other site 314275000135 hinge residues; other site 314275000136 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 314275000137 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 314275000138 putative active site [active] 314275000139 putative PHP Thumb interface [polypeptide binding]; other site 314275000140 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 314275000141 generic binding surface II; other site 314275000142 generic binding surface I; other site 314275000143 DNA Polymerase Y-family; Region: PolY_like; cd03468 314275000144 DNA binding site [nucleotide binding] 314275000145 Uncharacterized conserved protein [Function unknown]; Region: COG4544 314275000146 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 314275000147 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 314275000148 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 314275000149 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 314275000150 PA/protease or protease-like domain interface [polypeptide binding]; other site 314275000151 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 314275000152 Peptidase family M28; Region: Peptidase_M28; pfam04389 314275000153 metal binding site [ion binding]; metal-binding site 314275000154 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275000155 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 314275000156 putative metal binding site; other site 314275000157 division inhibitor protein; Provisional; Region: slmA; PRK09480 314275000158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275000159 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 314275000160 Flavoprotein; Region: Flavoprotein; pfam02441 314275000161 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 314275000162 hypothetical protein; Reviewed; Region: PRK00024 314275000163 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 314275000164 MPN+ (JAMM) motif; other site 314275000165 Zinc-binding site [ion binding]; other site 314275000166 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 314275000167 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 314275000168 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 314275000169 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 314275000170 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 314275000171 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 314275000172 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 314275000173 DNA binding site [nucleotide binding] 314275000174 catalytic residue [active] 314275000175 H2TH interface [polypeptide binding]; other site 314275000176 putative catalytic residues [active] 314275000177 turnover-facilitating residue; other site 314275000178 intercalation triad [nucleotide binding]; other site 314275000179 8OG recognition residue [nucleotide binding]; other site 314275000180 putative reading head residues; other site 314275000181 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 314275000182 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314275000183 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 314275000184 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 314275000185 active site 314275000186 (T/H)XGH motif; other site 314275000187 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 314275000188 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 314275000189 active site 314275000190 ATP binding site [chemical binding]; other site 314275000191 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 314275000192 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 314275000193 putative active site [active] 314275000194 PBP superfamily domain; Region: PBP_like_2; cl17296 314275000195 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275000196 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275000197 metal binding site [ion binding]; metal-binding site 314275000198 active site 314275000199 I-site; other site 314275000200 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 314275000201 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 314275000202 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 314275000203 substrate-cofactor binding pocket; other site 314275000204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275000205 catalytic residue [active] 314275000206 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 314275000207 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314275000208 NAD(P) binding site [chemical binding]; other site 314275000209 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 314275000210 active site residue [active] 314275000211 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 314275000212 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 314275000213 Rhomboid family; Region: Rhomboid; pfam01694 314275000214 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 314275000215 Chorismate lyase; Region: Chor_lyase; cl01230 314275000216 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 314275000217 UbiA prenyltransferase family; Region: UbiA; pfam01040 314275000218 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 314275000219 Predicted transcriptional regulator [Transcription]; Region: COG2944 314275000220 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 314275000221 non-specific DNA binding site [nucleotide binding]; other site 314275000222 salt bridge; other site 314275000223 sequence-specific DNA binding site [nucleotide binding]; other site 314275000224 Membrane fusogenic activity; Region: BMFP; pfam04380 314275000225 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 314275000226 Part of AAA domain; Region: AAA_19; pfam13245 314275000227 Family description; Region: UvrD_C_2; pfam13538 314275000228 GAF domain; Region: GAF; cl17456 314275000229 GAF domain; Region: GAF_2; pfam13185 314275000230 GAF domain; Region: GAF_3; pfam13492 314275000231 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314275000232 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275000233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275000234 metal binding site [ion binding]; metal-binding site 314275000235 active site 314275000236 I-site; other site 314275000237 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 314275000238 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 314275000239 HipA N-terminal domain; Region: Couple_hipA; cl11853 314275000240 HipA-like N-terminal domain; Region: HipA_N; pfam07805 314275000241 HipA-like C-terminal domain; Region: HipA_C; pfam07804 314275000242 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 314275000243 non-specific DNA binding site [nucleotide binding]; other site 314275000244 salt bridge; other site 314275000245 sequence-specific DNA binding site [nucleotide binding]; other site 314275000246 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 314275000247 Predicted transporter component [General function prediction only]; Region: COG2391 314275000248 Sulphur transport; Region: Sulf_transp; pfam04143 314275000249 Predicted transporter component [General function prediction only]; Region: COG2391 314275000250 Sulphur transport; Region: Sulf_transp; pfam04143 314275000251 Predicted transcriptional regulator [Transcription]; Region: COG1959 314275000252 Transcriptional regulator; Region: Rrf2; cl17282 314275000253 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314275000254 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 314275000255 Putative phosphatase (DUF442); Region: DUF442; cl17385 314275000256 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 314275000257 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314275000258 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 314275000259 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 314275000260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275000261 Walker A/P-loop; other site 314275000262 ATP binding site [chemical binding]; other site 314275000263 Q-loop/lid; other site 314275000264 ABC transporter signature motif; other site 314275000265 Walker B; other site 314275000266 D-loop; other site 314275000267 H-loop/switch region; other site 314275000268 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 314275000269 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275000270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275000271 Walker A/P-loop; other site 314275000272 ATP binding site [chemical binding]; other site 314275000273 Q-loop/lid; other site 314275000274 ABC transporter signature motif; other site 314275000275 Walker B; other site 314275000276 D-loop; other site 314275000277 H-loop/switch region; other site 314275000278 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 314275000279 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 314275000280 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 314275000281 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 314275000282 active site residue [active] 314275000283 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 314275000284 peroxiredoxin; Provisional; Region: PRK13189 314275000285 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 314275000286 dimer interface [polypeptide binding]; other site 314275000287 decamer (pentamer of dimers) interface [polypeptide binding]; other site 314275000288 catalytic triad [active] 314275000289 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 314275000290 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 314275000291 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314275000292 catalytic residues [active] 314275000293 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275000294 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 314275000295 DNA binding residues [nucleotide binding] 314275000296 dimerization interface [polypeptide binding]; other site 314275000297 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 314275000298 HlyD family secretion protein; Region: HlyD_2; pfam12700 314275000299 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314275000300 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 314275000301 BCCT family transporter; Region: BCCT; pfam02028 314275000302 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 314275000303 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314275000304 synthetase active site [active] 314275000305 NTP binding site [chemical binding]; other site 314275000306 metal binding site [ion binding]; metal-binding site 314275000307 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 314275000308 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 314275000309 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 314275000310 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 314275000311 putative active site [active] 314275000312 catalytic site [active] 314275000313 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 314275000314 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 314275000315 ATP binding site [chemical binding]; other site 314275000316 putative Mg++ binding site [ion binding]; other site 314275000317 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 314275000318 nucleotide binding region [chemical binding]; other site 314275000319 ATP-binding site [chemical binding]; other site 314275000320 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 314275000321 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 314275000322 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 314275000323 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 314275000324 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275000325 catalytic residue [active] 314275000326 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275000327 Protein of unknown function DUF262; Region: DUF262; pfam03235 314275000328 Uncharacterized conserved protein [Function unknown]; Region: COG1479 314275000329 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 314275000330 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275000331 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 314275000332 S-adenosylmethionine binding site [chemical binding]; other site 314275000333 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 314275000334 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275000335 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275000336 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 314275000337 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314275000338 Walker A/P-loop; other site 314275000339 ATP binding site [chemical binding]; other site 314275000340 Q-loop/lid; other site 314275000341 ABC transporter signature motif; other site 314275000342 Walker B; other site 314275000343 D-loop; other site 314275000344 H-loop/switch region; other site 314275000345 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314275000346 Walker A/P-loop; other site 314275000347 ATP binding site [chemical binding]; other site 314275000348 Q-loop/lid; other site 314275000349 ABC transporter signature motif; other site 314275000350 Walker B; other site 314275000351 D-loop; other site 314275000352 H-loop/switch region; other site 314275000353 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 314275000354 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 314275000355 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 314275000356 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 314275000357 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 314275000358 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 314275000359 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275000360 N-terminal plug; other site 314275000361 ligand-binding site [chemical binding]; other site 314275000362 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 314275000363 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275000364 active site 314275000365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275000366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275000367 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 314275000368 substrate binding pocket [chemical binding]; other site 314275000369 dimerization interface [polypeptide binding]; other site 314275000370 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314275000371 YcjX-like family, DUF463; Region: DUF463; cl01193 314275000372 Domain of unknown function (DUF697); Region: DUF697; pfam05128 314275000373 Uncharacterized conserved protein [Function unknown]; Region: COG2966 314275000374 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 314275000375 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 314275000376 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 314275000377 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 314275000378 FeS/SAM binding site; other site 314275000379 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 314275000380 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 314275000381 ThiS interaction site; other site 314275000382 putative active site [active] 314275000383 tetramer interface [polypeptide binding]; other site 314275000384 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 314275000385 thiS-thiF/thiG interaction site; other site 314275000386 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 314275000387 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 314275000388 ATP binding site [chemical binding]; other site 314275000389 substrate interface [chemical binding]; other site 314275000390 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 314275000391 ATP binding site [chemical binding]; other site 314275000392 substrate binding site [chemical binding]; other site 314275000393 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 314275000394 thiamine phosphate binding site [chemical binding]; other site 314275000395 active site 314275000396 pyrophosphate binding site [ion binding]; other site 314275000397 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 314275000398 ThiC-associated domain; Region: ThiC-associated; pfam13667 314275000399 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 314275000400 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 314275000401 HemY protein N-terminus; Region: HemY_N; pfam07219 314275000402 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 314275000403 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 314275000404 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 314275000405 active site 314275000406 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 314275000407 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 314275000408 domain interfaces; other site 314275000409 active site 314275000410 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275000411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275000412 metal binding site [ion binding]; metal-binding site 314275000413 active site 314275000414 I-site; other site 314275000415 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 314275000416 putative hydrolase; Provisional; Region: PRK11460 314275000417 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 314275000418 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 314275000419 catalytic site [active] 314275000420 G-X2-G-X-G-K; other site 314275000421 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 314275000422 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 314275000423 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275000424 Zn2+ binding site [ion binding]; other site 314275000425 Mg2+ binding site [ion binding]; other site 314275000426 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314275000427 synthetase active site [active] 314275000428 NTP binding site [chemical binding]; other site 314275000429 metal binding site [ion binding]; metal-binding site 314275000430 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 314275000431 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 314275000432 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 314275000433 homotrimer interaction site [polypeptide binding]; other site 314275000434 putative active site [active] 314275000435 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 314275000436 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314275000437 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 314275000438 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 314275000439 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 314275000440 ssDNA binding site; other site 314275000441 generic binding surface II; other site 314275000442 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 314275000443 ATP binding site [chemical binding]; other site 314275000444 putative Mg++ binding site [ion binding]; other site 314275000445 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 314275000446 nucleotide binding region [chemical binding]; other site 314275000447 ATP-binding site [chemical binding]; other site 314275000448 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 314275000449 S-adenosylmethionine binding site [chemical binding]; other site 314275000450 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 314275000451 catalytic triad [active] 314275000452 dimer interface [polypeptide binding]; other site 314275000453 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 314275000454 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 314275000455 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 314275000456 dimer interface [polypeptide binding]; other site 314275000457 conserved gate region; other site 314275000458 putative PBP binding loops; other site 314275000459 ABC-ATPase subunit interface; other site 314275000460 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 314275000461 dimer interface [polypeptide binding]; other site 314275000462 conserved gate region; other site 314275000463 putative PBP binding loops; other site 314275000464 ABC-ATPase subunit interface; other site 314275000465 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 314275000466 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 314275000467 Walker A/P-loop; other site 314275000468 ATP binding site [chemical binding]; other site 314275000469 Q-loop/lid; other site 314275000470 ABC transporter signature motif; other site 314275000471 Walker B; other site 314275000472 D-loop; other site 314275000473 H-loop/switch region; other site 314275000474 TOBE domain; Region: TOBE_2; pfam08402 314275000475 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275000476 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275000477 Predicted flavoproteins [General function prediction only]; Region: COG2081 314275000478 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275000479 Abi-like protein; Region: Abi_2; pfam07751 314275000480 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 314275000481 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 314275000482 active site 314275000483 Abi-like protein; Region: Abi_2; pfam07751 314275000484 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 314275000485 Transposase [DNA replication, recombination, and repair]; Region: COG5421 314275000486 Sensors of blue-light using FAD; Region: BLUF; pfam04940 314275000487 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 314275000488 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 314275000489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275000490 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314275000491 dimerization interface [polypeptide binding]; other site 314275000492 Lysine efflux permease [General function prediction only]; Region: COG1279 314275000493 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 314275000494 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 314275000495 DNA-J related protein; Region: DNAJ_related; pfam12339 314275000496 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 314275000497 HSP70 interaction site [polypeptide binding]; other site 314275000498 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 314275000499 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275000500 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275000501 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 314275000502 Protein export membrane protein; Region: SecD_SecF; cl14618 314275000503 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 314275000504 Serine hydrolase; Region: Ser_hydrolase; cl17834 314275000505 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 314275000506 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 314275000507 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 314275000508 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314275000509 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314275000510 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 314275000511 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 314275000512 putative active site [active] 314275000513 Zn binding site [ion binding]; other site 314275000514 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 314275000515 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275000516 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275000517 dimer interface [polypeptide binding]; other site 314275000518 putative CheW interface [polypeptide binding]; other site 314275000519 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314275000520 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 314275000521 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 314275000522 dimerization interface [polypeptide binding]; other site 314275000523 active site 314275000524 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 314275000525 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 314275000526 Acyltransferase family; Region: Acyl_transf_3; pfam01757 314275000527 PAS domain S-box; Region: sensory_box; TIGR00229 314275000528 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 314275000529 putative active site [active] 314275000530 heme pocket [chemical binding]; other site 314275000531 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275000532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275000533 metal binding site [ion binding]; metal-binding site 314275000534 active site 314275000535 I-site; other site 314275000536 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 314275000537 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 314275000538 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314275000539 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 314275000540 putative C-terminal domain interface [polypeptide binding]; other site 314275000541 putative GSH binding site (G-site) [chemical binding]; other site 314275000542 putative dimer interface [polypeptide binding]; other site 314275000543 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 314275000544 putative N-terminal domain interface [polypeptide binding]; other site 314275000545 putative dimer interface [polypeptide binding]; other site 314275000546 putative substrate binding pocket (H-site) [chemical binding]; other site 314275000547 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 314275000548 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 314275000549 ATP binding site [chemical binding]; other site 314275000550 putative Mg++ binding site [ion binding]; other site 314275000551 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 314275000552 nucleotide binding region [chemical binding]; other site 314275000553 ATP-binding site [chemical binding]; other site 314275000554 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 314275000555 HRDC domain; Region: HRDC; pfam00570 314275000556 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 314275000557 MgtE intracellular N domain; Region: MgtE_N; pfam03448 314275000558 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 314275000559 Divalent cation transporter; Region: MgtE; pfam01769 314275000560 Predicted permeases [General function prediction only]; Region: RarD; COG2962 314275000561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275000562 active site 314275000563 phosphorylation site [posttranslational modification] 314275000564 intermolecular recognition site; other site 314275000565 dimerization interface [polypeptide binding]; other site 314275000566 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275000567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275000568 metal binding site [ion binding]; metal-binding site 314275000569 active site 314275000570 I-site; other site 314275000571 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 314275000572 Part of AAA domain; Region: AAA_19; pfam13245 314275000573 Family description; Region: UvrD_C_2; pfam13538 314275000574 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 314275000575 serine acetyltransferase; Provisional; Region: cysE; PRK11132 314275000576 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 314275000577 trimer interface [polypeptide binding]; other site 314275000578 active site 314275000579 substrate binding site [chemical binding]; other site 314275000580 CoA binding site [chemical binding]; other site 314275000581 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 314275000582 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 314275000583 motif II; other site 314275000584 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 314275000585 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 314275000586 active site 314275000587 DNA binding site [nucleotide binding] 314275000588 Int/Topo IB signature motif; other site 314275000589 Protein of unknown function, DUF484; Region: DUF484; cl17449 314275000590 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 314275000591 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 314275000592 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 314275000593 diaminopimelate decarboxylase; Region: lysA; TIGR01048 314275000594 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 314275000595 active site 314275000596 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314275000597 substrate binding site [chemical binding]; other site 314275000598 catalytic residues [active] 314275000599 dimer interface [polypeptide binding]; other site 314275000600 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 314275000601 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 314275000602 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 314275000603 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 314275000604 active site 314275000605 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 314275000606 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 314275000607 active site 314275000608 Zn binding site [ion binding]; other site 314275000609 aromatic acid decarboxylase; Validated; Region: PRK05920 314275000610 Flavoprotein; Region: Flavoprotein; pfam02441 314275000611 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 314275000612 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314275000613 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314275000614 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314275000615 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 314275000616 AMP binding site [chemical binding]; other site 314275000617 metal binding site [ion binding]; metal-binding site 314275000618 active site 314275000619 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 314275000620 dimer interface [polypeptide binding]; other site 314275000621 substrate binding site [chemical binding]; other site 314275000622 metal binding sites [ion binding]; metal-binding site 314275000623 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 314275000624 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 314275000625 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 314275000626 active site 314275000627 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 314275000628 nucleotide binding site [chemical binding]; other site 314275000629 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 314275000630 putative NEF/HSP70 interaction site [polypeptide binding]; other site 314275000631 nucleotide binding site [chemical binding]; other site 314275000632 SBD interface [polypeptide binding]; other site 314275000633 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 314275000634 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314275000635 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314275000636 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 314275000637 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314275000638 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 314275000639 putative substrate translocation pore; other site 314275000640 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 314275000641 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 314275000642 active site 314275000643 motif I; other site 314275000644 motif II; other site 314275000645 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 314275000646 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 314275000647 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314275000648 DNA binding site [nucleotide binding] 314275000649 domain linker motif; other site 314275000650 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 314275000651 dimerization interface (closed form) [polypeptide binding]; other site 314275000652 ligand binding site [chemical binding]; other site 314275000653 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 314275000654 active site 314275000655 catalytic residues [active] 314275000656 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 314275000657 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 314275000658 dimer interface [polypeptide binding]; other site 314275000659 active site 314275000660 galactokinase; Provisional; Region: PRK05101 314275000661 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 314275000662 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314275000663 putative transporter; Provisional; Region: PRK10484 314275000664 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 314275000665 Na binding site [ion binding]; other site 314275000666 substrate binding site [chemical binding]; other site 314275000667 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 314275000668 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 314275000669 dimer interface [polypeptide binding]; other site 314275000670 ssDNA binding site [nucleotide binding]; other site 314275000671 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314275000672 conserved hypothetical protein; Region: TIGR02285 314275000673 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 314275000674 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 314275000675 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 314275000676 NAD binding site [chemical binding]; other site 314275000677 homodimer interface [polypeptide binding]; other site 314275000678 active site 314275000679 substrate binding site [chemical binding]; other site 314275000680 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 314275000681 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 314275000682 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 314275000683 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275000684 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275000685 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275000686 ligand-binding site [chemical binding]; other site 314275000687 glycerol kinase; Provisional; Region: glpK; PRK00047 314275000688 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 314275000689 N- and C-terminal domain interface [polypeptide binding]; other site 314275000690 active site 314275000691 MgATP binding site [chemical binding]; other site 314275000692 catalytic site [active] 314275000693 metal binding site [ion binding]; metal-binding site 314275000694 glycerol binding site [chemical binding]; other site 314275000695 homotetramer interface [polypeptide binding]; other site 314275000696 homodimer interface [polypeptide binding]; other site 314275000697 FBP binding site [chemical binding]; other site 314275000698 protein IIAGlc interface [polypeptide binding]; other site 314275000699 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 314275000700 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 314275000701 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 314275000702 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 314275000703 Phosphoglycerate mutase family; Region: PGAM; smart00855 314275000704 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 314275000705 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 314275000706 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 314275000707 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314275000708 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 314275000709 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 314275000710 Walker A motif; other site 314275000711 ATP binding site [chemical binding]; other site 314275000712 Walker B motif; other site 314275000713 arginine finger; other site 314275000714 TPR repeat; Region: TPR_11; pfam13414 314275000715 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 314275000716 binding surface 314275000717 TPR motif; other site 314275000718 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 314275000719 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 314275000720 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 314275000721 Walker A motif; other site 314275000722 ATP binding site [chemical binding]; other site 314275000723 Walker B motif; other site 314275000724 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 314275000725 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314275000726 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314275000727 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 314275000728 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 314275000729 H-type lectin domain; Region: H_lectin; pfam09458 314275000730 rod shape-determining protein MreB; Provisional; Region: PRK13927 314275000731 MreB and similar proteins; Region: MreB_like; cd10225 314275000732 nucleotide binding site [chemical binding]; other site 314275000733 Mg binding site [ion binding]; other site 314275000734 putative protofilament interaction site [polypeptide binding]; other site 314275000735 RodZ interaction site [polypeptide binding]; other site 314275000736 rod shape-determining protein MreC; Provisional; Region: PRK13922 314275000737 rod shape-determining protein MreC; Region: MreC; pfam04085 314275000738 rod shape-determining protein MreD; Region: MreD; cl01087 314275000739 Maf-like protein; Region: Maf; pfam02545 314275000740 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 314275000741 active site 314275000742 dimer interface [polypeptide binding]; other site 314275000743 ribonuclease G; Provisional; Region: PRK11712 314275000744 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 314275000745 homodimer interface [polypeptide binding]; other site 314275000746 oligonucleotide binding site [chemical binding]; other site 314275000747 TIGR02099 family protein; Region: TIGR02099 314275000748 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 314275000749 nitrilase; Region: PLN02798 314275000750 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 314275000751 putative active site [active] 314275000752 catalytic triad [active] 314275000753 dimer interface [polypeptide binding]; other site 314275000754 protease TldD; Provisional; Region: tldD; PRK10735 314275000755 Protein of unknown function (DUF615); Region: DUF615; pfam04751 314275000756 peptidase PmbA; Provisional; Region: PRK11040 314275000757 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 314275000758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314275000759 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 314275000760 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 314275000761 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 314275000762 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 314275000763 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 314275000764 two-component response regulator; Provisional; Region: PRK11173 314275000765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275000766 active site 314275000767 phosphorylation site [posttranslational modification] 314275000768 intermolecular recognition site; other site 314275000769 dimerization interface [polypeptide binding]; other site 314275000770 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 314275000771 DNA binding site [nucleotide binding] 314275000772 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275000773 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 314275000774 dimer interface [polypeptide binding]; other site 314275000775 phosphorylation site [posttranslational modification] 314275000776 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 314275000777 ATP binding site [chemical binding]; other site 314275000778 Mg2+ binding site [ion binding]; other site 314275000779 G-X-G motif; other site 314275000780 glycogen synthase; Provisional; Region: glgA; PRK00654 314275000781 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 314275000782 ADP-binding pocket [chemical binding]; other site 314275000783 homodimer interface [polypeptide binding]; other site 314275000784 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 314275000785 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 314275000786 Methyltransferase small domain; Region: MTS; pfam05175 314275000787 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 314275000788 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 314275000789 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 314275000790 adenine DNA glycosylase; Provisional; Region: PRK10880 314275000791 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314275000792 minor groove reading motif; other site 314275000793 helix-hairpin-helix signature motif; other site 314275000794 substrate binding pocket [chemical binding]; other site 314275000795 active site 314275000796 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 314275000797 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 314275000798 DNA binding and oxoG recognition site [nucleotide binding] 314275000799 oxidative damage protection protein; Provisional; Region: PRK05408 314275000800 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 314275000801 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 314275000802 Protein of unknown function (DUF429); Region: DUF429; cl12046 314275000803 Restriction endonuclease; Region: Mrr_cat; pfam04471 314275000804 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314275000805 Uncharacterized conserved protein [Function unknown]; Region: COG1432 314275000806 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 314275000807 putative metal binding site [ion binding]; other site 314275000808 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 314275000809 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 314275000810 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 314275000811 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 314275000812 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314275000813 Walker A motif; other site 314275000814 ATP binding site [chemical binding]; other site 314275000815 Walker B motif; other site 314275000816 arginine finger; other site 314275000817 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 314275000818 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314275000819 Walker A motif; other site 314275000820 ATP binding site [chemical binding]; other site 314275000821 Walker B motif; other site 314275000822 arginine finger; other site 314275000823 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 314275000824 active site 314275000825 DNA binding site [nucleotide binding] 314275000826 Int/Topo IB signature motif; other site 314275000827 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 314275000828 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 314275000829 DNA protecting protein DprA; Region: dprA; TIGR00732 314275000830 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 314275000831 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 314275000832 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 314275000833 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 314275000834 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275000835 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275000836 Outer membrane efflux protein; Region: OEP; pfam02321 314275000837 Outer membrane efflux protein; Region: OEP; pfam02321 314275000838 Peptidase family M48; Region: Peptidase_M48; cl12018 314275000839 Penicillinase repressor; Region: Pencillinase_R; cl17580 314275000840 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 314275000841 active site 314275000842 catalytic residues [active] 314275000843 DNA binding site [nucleotide binding] 314275000844 Int/Topo IB signature motif; other site 314275000845 Protein of unknown function, DUF; Region: DUF411; cl01142 314275000846 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 314275000847 active site 314275000848 substrate binding site [chemical binding]; other site 314275000849 cosubstrate binding site; other site 314275000850 catalytic site [active] 314275000851 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 314275000852 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275000853 dimerization interface [polypeptide binding]; other site 314275000854 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 314275000855 dimer interface [polypeptide binding]; other site 314275000856 phosphorylation site [posttranslational modification] 314275000857 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 314275000858 ATP binding site [chemical binding]; other site 314275000859 Mg2+ binding site [ion binding]; other site 314275000860 G-X-G motif; other site 314275000861 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 314275000862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275000863 active site 314275000864 phosphorylation site [posttranslational modification] 314275000865 intermolecular recognition site; other site 314275000866 dimerization interface [polypeptide binding]; other site 314275000867 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 314275000868 DNA binding site [nucleotide binding] 314275000869 Protein of unknown function, DUF; Region: DUF411; cl01142 314275000870 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314275000871 Outer membrane efflux protein; Region: OEP; pfam02321 314275000872 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 314275000873 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 314275000874 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275000875 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 314275000876 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 314275000877 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 314275000878 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314275000879 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 314275000880 CopC domain; Region: CopC; pfam04234 314275000881 Copper resistance protein D; Region: CopD; cl00563 314275000882 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 314275000883 SnoaL-like domain; Region: SnoaL_3; pfam13474 314275000884 SnoaL-like domain; Region: SnoaL_3; pfam13474 314275000885 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 314275000886 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 314275000887 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 314275000888 peptide chain release factor 1; Validated; Region: prfA; PRK00591 314275000889 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 314275000890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275000891 NAD(P) binding site [chemical binding]; other site 314275000892 active site 314275000893 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 314275000894 FAD binding domain; Region: FAD_binding_4; pfam01565 314275000895 Berberine and berberine like; Region: BBE; pfam08031 314275000896 Cytochrome c; Region: Cytochrom_C; cl11414 314275000897 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 314275000898 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 314275000899 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 314275000900 FAD binding pocket [chemical binding]; other site 314275000901 FAD binding motif [chemical binding]; other site 314275000902 phosphate binding motif [ion binding]; other site 314275000903 beta-alpha-beta structure motif; other site 314275000904 NAD binding pocket [chemical binding]; other site 314275000905 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 314275000906 catalytic loop [active] 314275000907 iron binding site [ion binding]; other site 314275000908 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 314275000909 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 314275000910 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 314275000911 putative substrate-binding site; other site 314275000912 nickel binding site [ion binding]; other site 314275000913 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 314275000914 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 314275000915 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 314275000916 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 314275000917 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 314275000918 HupF/HypC family; Region: HupF_HypC; pfam01455 314275000919 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 314275000920 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 314275000921 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314275000922 Hydrogenase formation hypA family; Region: HypD; pfam01924 314275000923 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 314275000924 Acylphosphatase; Region: Acylphosphatase; pfam00708 314275000925 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 314275000926 HypF finger; Region: zf-HYPF; pfam07503 314275000927 HypF finger; Region: zf-HYPF; pfam07503 314275000928 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 314275000929 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 314275000930 dimerization interface [polypeptide binding]; other site 314275000931 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 314275000932 ATP binding site [chemical binding]; other site 314275000933 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 314275000934 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 314275000935 DNA binding residues [nucleotide binding] 314275000936 dimer interface [polypeptide binding]; other site 314275000937 copper exporting ATPase; Provisional; Region: copA; PRK10671 314275000938 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 314275000939 metal-binding site [ion binding] 314275000940 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314275000941 Soluble P-type ATPase [General function prediction only]; Region: COG4087 314275000942 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 314275000943 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 314275000944 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 314275000945 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 314275000946 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275000947 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 314275000948 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 314275000949 Transposase; Region: HTH_Tnp_1; cl17663 314275000950 glutamate dehydrogenase; Provisional; Region: PRK09414 314275000951 Integrase core domain; Region: rve; pfam00665 314275000952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 314275000953 Outer membrane efflux protein; Region: OEP; pfam02321 314275000954 Outer membrane efflux protein; Region: OEP; pfam02321 314275000955 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 314275000956 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275000957 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 314275000958 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314275000959 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 314275000960 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 314275000961 Sulfatase; Region: Sulfatase; pfam00884 314275000962 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 314275000963 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275000964 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275000965 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 314275000966 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 314275000967 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 314275000968 Uncharacterized conserved protein [Function unknown]; Region: COG0398 314275000969 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314275000970 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 314275000971 active site 314275000972 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314275000973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275000974 active site 314275000975 phosphorylation site [posttranslational modification] 314275000976 intermolecular recognition site; other site 314275000977 dimerization interface [polypeptide binding]; other site 314275000978 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 314275000979 DNA binding site [nucleotide binding] 314275000980 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275000981 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 314275000982 dimer interface [polypeptide binding]; other site 314275000983 phosphorylation site [posttranslational modification] 314275000984 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 314275000985 ATP binding site [chemical binding]; other site 314275000986 Mg2+ binding site [ion binding]; other site 314275000987 G-X-G motif; other site 314275000988 Protein of unknown function, DUF; Region: DUF411; cl01142 314275000989 CopC domain; Region: CopC; pfam04234 314275000990 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 314275000991 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 314275000992 SnoaL-like domain; Region: SnoaL_3; pfam13474 314275000993 SnoaL-like domain; Region: SnoaL_3; pfam13474 314275000994 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 314275000995 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 314275000996 active site 314275000997 substrate binding site [chemical binding]; other site 314275000998 cosubstrate binding site; other site 314275000999 catalytic site [active] 314275001000 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 314275001001 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314275001002 DNA binding residues [nucleotide binding] 314275001003 dimer interface [polypeptide binding]; other site 314275001004 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 314275001005 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 314275001006 metal-binding site [ion binding] 314275001007 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314275001008 Soluble P-type ATPase [General function prediction only]; Region: COG4087 314275001009 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 314275001010 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 314275001011 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 314275001012 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 314275001013 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 314275001014 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 314275001015 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 314275001016 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 314275001017 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 314275001018 Multicopper oxidase; Region: Cu-oxidase; pfam00394 314275001019 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 314275001020 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 314275001021 Domain of unknown function (DUF305); Region: DUF305; cl17794 314275001022 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 314275001023 DNA binding site [nucleotide binding] 314275001024 active site 314275001025 Int/Topo IB signature motif; other site 314275001026 catalytic residues [active] 314275001027 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275001028 dimer interface [polypeptide binding]; other site 314275001029 putative CheW interface [polypeptide binding]; other site 314275001030 Response regulator receiver domain; Region: Response_reg; pfam00072 314275001031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275001032 active site 314275001033 phosphorylation site [posttranslational modification] 314275001034 intermolecular recognition site; other site 314275001035 dimerization interface [polypeptide binding]; other site 314275001036 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 314275001037 putative binding surface; other site 314275001038 active site 314275001039 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 314275001040 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 314275001041 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 314275001042 ATP binding site [chemical binding]; other site 314275001043 Mg2+ binding site [ion binding]; other site 314275001044 G-X-G motif; other site 314275001045 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 314275001046 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 314275001047 CheD chemotactic sensory transduction; Region: CheD; cl00810 314275001048 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 314275001049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275001050 active site 314275001051 phosphorylation site [posttranslational modification] 314275001052 intermolecular recognition site; other site 314275001053 dimerization interface [polypeptide binding]; other site 314275001054 CheB methylesterase; Region: CheB_methylest; pfam01339 314275001055 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 314275001056 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 314275001057 putative active site [active] 314275001058 putative NTP binding site [chemical binding]; other site 314275001059 putative nucleic acid binding site [nucleotide binding]; other site 314275001060 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 314275001061 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 314275001062 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 314275001063 motif II; other site 314275001064 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 314275001065 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 314275001066 active site 314275001067 motif I; other site 314275001068 motif II; other site 314275001069 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275001070 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 314275001071 dimer interface [polypeptide binding]; other site 314275001072 phosphorylation site [posttranslational modification] 314275001073 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 314275001074 ATP binding site [chemical binding]; other site 314275001075 Mg2+ binding site [ion binding]; other site 314275001076 G-X-G motif; other site 314275001077 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275001078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275001079 active site 314275001080 phosphorylation site [posttranslational modification] 314275001081 intermolecular recognition site; other site 314275001082 dimerization interface [polypeptide binding]; other site 314275001083 Helix-turn-helix domain; Region: HTH_18; pfam12833 314275001084 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 314275001085 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 314275001086 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 314275001087 beta-alpha-beta structure motif; other site 314275001088 NAD binding pocket [chemical binding]; other site 314275001089 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314275001090 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314275001091 DNA binding site [nucleotide binding] 314275001092 domain linker motif; other site 314275001093 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 314275001094 dimerization interface [polypeptide binding]; other site 314275001095 ligand binding site [chemical binding]; other site 314275001096 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 314275001097 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314275001098 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 314275001099 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 314275001100 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 314275001101 Metal-binding active site; metal-binding site 314275001102 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 314275001103 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 314275001104 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 314275001105 putative substrate translocation pore; other site 314275001106 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 314275001107 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 314275001108 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314275001109 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 314275001110 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 314275001111 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 314275001112 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 314275001113 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 314275001114 active site 314275001115 NAD binding site [chemical binding]; other site 314275001116 metal binding site [ion binding]; metal-binding site 314275001117 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 314275001118 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 314275001119 homodimer interface [polypeptide binding]; other site 314275001120 substrate-cofactor binding pocket; other site 314275001121 catalytic residue [active] 314275001122 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 314275001123 catalytic core [active] 314275001124 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 314275001125 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 314275001126 aconitate hydratase; Validated; Region: PRK09277 314275001127 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 314275001128 substrate binding site [chemical binding]; other site 314275001129 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 314275001130 ligand binding site [chemical binding]; other site 314275001131 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 314275001132 substrate binding site [chemical binding]; other site 314275001133 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314275001134 Sel1-like repeats; Region: SEL1; smart00671 314275001135 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 314275001136 GAF domain; Region: GAF_2; pfam13185 314275001137 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 314275001138 type II secretion system protein E; Region: type_II_gspE; TIGR02533 314275001139 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 314275001140 Walker A motif; other site 314275001141 ATP binding site [chemical binding]; other site 314275001142 Walker B motif; other site 314275001143 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 314275001144 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 314275001145 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 314275001146 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 314275001147 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 314275001148 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 314275001149 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 314275001150 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 314275001151 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 314275001152 putative translocon binding site; other site 314275001153 protein-rRNA interface [nucleotide binding]; other site 314275001154 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 314275001155 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 314275001156 G-X-X-G motif; other site 314275001157 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 314275001158 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 314275001159 23S rRNA interface [nucleotide binding]; other site 314275001160 5S rRNA interface [nucleotide binding]; other site 314275001161 putative antibiotic binding site [chemical binding]; other site 314275001162 L25 interface [polypeptide binding]; other site 314275001163 L27 interface [polypeptide binding]; other site 314275001164 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 314275001165 23S rRNA interface [nucleotide binding]; other site 314275001166 putative translocon interaction site; other site 314275001167 signal recognition particle (SRP54) interaction site; other site 314275001168 L23 interface [polypeptide binding]; other site 314275001169 trigger factor interaction site; other site 314275001170 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 314275001171 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 314275001172 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 314275001173 putative active site [active] 314275001174 putative NTP binding site [chemical binding]; other site 314275001175 putative nucleic acid binding site [nucleotide binding]; other site 314275001176 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 314275001177 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275001178 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 314275001179 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 314275001180 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 314275001181 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 314275001182 putative active site [active] 314275001183 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 314275001184 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 314275001185 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 314275001186 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 314275001187 TrkA-N domain; Region: TrkA_N; pfam02254 314275001188 Cache domain; Region: Cache_1; pfam02743 314275001189 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275001190 dimerization interface [polypeptide binding]; other site 314275001191 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275001192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275001193 dimer interface [polypeptide binding]; other site 314275001194 putative CheW interface [polypeptide binding]; other site 314275001195 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 314275001196 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 314275001197 active site 314275001198 Zn binding site [ion binding]; other site 314275001199 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 314275001200 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 314275001201 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 314275001202 putative active site [active] 314275001203 putative substrate binding site [chemical binding]; other site 314275001204 putative cosubstrate binding site; other site 314275001205 catalytic site [active] 314275001206 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 314275001207 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 314275001208 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 314275001209 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 314275001210 ATP binding site [chemical binding]; other site 314275001211 putative Mg++ binding site [ion binding]; other site 314275001212 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 314275001213 nucleotide binding region [chemical binding]; other site 314275001214 ATP-binding site [chemical binding]; other site 314275001215 Helicase associated domain (HA2); Region: HA2; pfam04408 314275001216 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 314275001217 Transglycosylase SLT domain; Region: SLT_2; pfam13406 314275001218 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 314275001219 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 314275001220 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314275001221 catalytic residue [active] 314275001222 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314275001223 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 314275001224 Transglycosylase; Region: Transgly; pfam00912 314275001225 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314275001226 Protein of unknown function (DUF808); Region: DUF808; pfam05661 314275001227 Helix-turn-helix domain; Region: HTH_18; pfam12833 314275001228 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 314275001229 Nitrogen regulatory protein P-II; Region: P-II; smart00938 314275001230 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 314275001231 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 314275001232 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 314275001233 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 314275001234 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 314275001235 cyclase homology domain; Region: CHD; cd07302 314275001236 nucleotidyl binding site; other site 314275001237 metal binding site [ion binding]; metal-binding site 314275001238 dimer interface [polypeptide binding]; other site 314275001239 TPR repeat; Region: TPR_11; pfam13414 314275001240 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 314275001241 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 314275001242 inhibitor-cofactor binding pocket; inhibition site 314275001243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275001244 catalytic residue [active] 314275001245 aspartate carbamoyltransferase; Provisional; Region: PRK08192 314275001246 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314275001247 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314275001248 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314275001249 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275001250 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 314275001251 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275001252 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275001253 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275001254 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275001255 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 314275001256 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 314275001257 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 314275001258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 314275001259 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 314275001260 dimer interface [polypeptide binding]; other site 314275001261 phosphorylation site [posttranslational modification] 314275001262 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 314275001263 ATP binding site [chemical binding]; other site 314275001264 Mg2+ binding site [ion binding]; other site 314275001265 G-X-G motif; other site 314275001266 Response regulator receiver domain; Region: Response_reg; pfam00072 314275001267 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275001268 active site 314275001269 phosphorylation site [posttranslational modification] 314275001270 intermolecular recognition site; other site 314275001271 dimerization interface [polypeptide binding]; other site 314275001272 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 314275001273 putative binding surface; other site 314275001274 active site 314275001275 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 314275001276 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 314275001277 CAP-like domain; other site 314275001278 active site 314275001279 primary dimer interface [polypeptide binding]; other site 314275001280 Heme NO binding; Region: HNOB; pfam07700 314275001281 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 314275001282 PAS domain; Region: PAS_9; pfam13426 314275001283 putative active site [active] 314275001284 heme pocket [chemical binding]; other site 314275001285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275001286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275001287 metal binding site [ion binding]; metal-binding site 314275001288 active site 314275001289 I-site; other site 314275001290 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 314275001291 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 314275001292 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 314275001293 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 314275001294 NAD(P) binding site [chemical binding]; other site 314275001295 catalytic residues [active] 314275001296 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 314275001297 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 314275001298 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 314275001299 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 314275001300 inhibitor-cofactor binding pocket; inhibition site 314275001301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275001302 catalytic residue [active] 314275001303 HDOD domain; Region: HDOD; pfam08668 314275001304 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 314275001305 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 314275001306 glutamine binding [chemical binding]; other site 314275001307 catalytic triad [active] 314275001308 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 314275001309 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 314275001310 active site 314275001311 HIGH motif; other site 314275001312 dimer interface [polypeptide binding]; other site 314275001313 KMSKS motif; other site 314275001314 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 314275001315 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 314275001316 substrate binding site [chemical binding]; other site 314275001317 hexamer interface [polypeptide binding]; other site 314275001318 metal binding site [ion binding]; metal-binding site 314275001319 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 314275001320 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 314275001321 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 314275001322 AAA domain; Region: AAA_22; pfam13401 314275001323 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 314275001324 active site 314275001325 dimer interface [polypeptide binding]; other site 314275001326 metal binding site [ion binding]; metal-binding site 314275001327 shikimate kinase; Reviewed; Region: aroK; PRK00131 314275001328 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 314275001329 ADP binding site [chemical binding]; other site 314275001330 magnesium binding site [ion binding]; other site 314275001331 putative shikimate binding site; other site 314275001332 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 314275001333 Secretin and TonB N terminus short domain; Region: STN; smart00965 314275001334 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314275001335 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314275001336 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 314275001337 Pilus assembly protein, PilP; Region: PilP; pfam04351 314275001338 Pilus assembly protein, PilO; Region: PilO; pfam04350 314275001339 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 314275001340 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 314275001341 Competence protein A; Region: Competence_A; pfam11104 314275001342 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 314275001343 Transglycosylase; Region: Transgly; pfam00912 314275001344 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314275001345 malate dehydrogenase; Provisional; Region: PRK13529 314275001346 Malic enzyme, N-terminal domain; Region: malic; pfam00390 314275001347 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 314275001348 NAD(P) binding site [chemical binding]; other site 314275001349 putative S-transferase; Provisional; Region: PRK11752 314275001350 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 314275001351 C-terminal domain interface [polypeptide binding]; other site 314275001352 GSH binding site (G-site) [chemical binding]; other site 314275001353 dimer interface [polypeptide binding]; other site 314275001354 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 314275001355 dimer interface [polypeptide binding]; other site 314275001356 N-terminal domain interface [polypeptide binding]; other site 314275001357 active site 314275001358 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 314275001359 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 314275001360 tetramer interface [polypeptide binding]; other site 314275001361 heme binding pocket [chemical binding]; other site 314275001362 NADPH binding site [chemical binding]; other site 314275001363 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314275001364 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275001365 WHG domain; Region: WHG; pfam13305 314275001366 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 314275001367 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314275001368 N-acetylglutamate synthase; Validated; Region: PRK05279 314275001369 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 314275001370 putative feedback inhibition sensing region; other site 314275001371 putative nucleotide binding site [chemical binding]; other site 314275001372 putative substrate binding site [chemical binding]; other site 314275001373 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275001374 Coenzyme A binding pocket [chemical binding]; other site 314275001375 argininosuccinate lyase; Provisional; Region: PRK04833 314275001376 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 314275001377 active sites [active] 314275001378 tetramer interface [polypeptide binding]; other site 314275001379 argininosuccinate synthase; Provisional; Region: PRK13820 314275001380 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 314275001381 ANP binding site [chemical binding]; other site 314275001382 Substrate Binding Site II [chemical binding]; other site 314275001383 Substrate Binding Site I [chemical binding]; other site 314275001384 ornithine carbamoyltransferase; Provisional; Region: PRK14805 314275001385 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314275001386 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314275001387 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 314275001388 nucleotide binding site [chemical binding]; other site 314275001389 substrate binding site [chemical binding]; other site 314275001390 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 314275001391 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 314275001392 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 314275001393 active site 314275001394 dimer interfaces [polypeptide binding]; other site 314275001395 catalytic residues [active] 314275001396 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 314275001397 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 314275001398 dimer interface [polypeptide binding]; other site 314275001399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314275001400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275001401 active site 314275001402 phosphorylation site [posttranslational modification] 314275001403 intermolecular recognition site; other site 314275001404 dimerization interface [polypeptide binding]; other site 314275001405 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 314275001406 DNA binding site [nucleotide binding] 314275001407 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275001408 dimerization interface [polypeptide binding]; other site 314275001409 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 314275001410 dimer interface [polypeptide binding]; other site 314275001411 phosphorylation site [posttranslational modification] 314275001412 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 314275001413 ATP binding site [chemical binding]; other site 314275001414 Mg2+ binding site [ion binding]; other site 314275001415 G-X-G motif; other site 314275001416 lysophospholipase L2; Provisional; Region: PRK10749 314275001417 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314275001418 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 314275001419 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 314275001420 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314275001421 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 314275001422 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 314275001423 SecA binding site; other site 314275001424 Preprotein binding site; other site 314275001425 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 314275001426 GSH binding site [chemical binding]; other site 314275001427 catalytic residues [active] 314275001428 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 314275001429 active site residue [active] 314275001430 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 314275001431 Peptidase family M23; Region: Peptidase_M23; pfam01551 314275001432 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 314275001433 NodB motif; other site 314275001434 putative active site [active] 314275001435 putative catalytic site [active] 314275001436 Zn binding site [ion binding]; other site 314275001437 MerC mercury resistance protein; Region: MerC; pfam03203 314275001438 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 314275001439 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 314275001440 active site 314275001441 catalytic site [active] 314275001442 metal binding site [ion binding]; metal-binding site 314275001443 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314275001444 EamA-like transporter family; Region: EamA; pfam00892 314275001445 EamA-like transporter family; Region: EamA; pfam00892 314275001446 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 314275001447 GTPase RsgA; Reviewed; Region: PRK12288 314275001448 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 314275001449 RNA binding site [nucleotide binding]; other site 314275001450 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 314275001451 GTPase/Zn-binding domain interface [polypeptide binding]; other site 314275001452 GTP/Mg2+ binding site [chemical binding]; other site 314275001453 G4 box; other site 314275001454 G5 box; other site 314275001455 G1 box; other site 314275001456 Switch I region; other site 314275001457 G2 box; other site 314275001458 G3 box; other site 314275001459 Switch II region; other site 314275001460 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 314275001461 catalytic site [active] 314275001462 putative active site [active] 314275001463 putative substrate binding site [chemical binding]; other site 314275001464 dimer interface [polypeptide binding]; other site 314275001465 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314275001466 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275001467 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275001468 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 314275001469 CoenzymeA binding site [chemical binding]; other site 314275001470 subunit interaction site [polypeptide binding]; other site 314275001471 PHB binding site; other site 314275001472 hypothetical protein; Provisional; Region: PRK11027 314275001473 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 314275001474 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 314275001475 PYR/PP interface [polypeptide binding]; other site 314275001476 dimer interface [polypeptide binding]; other site 314275001477 TPP binding site [chemical binding]; other site 314275001478 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314275001479 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 314275001480 TPP-binding site [chemical binding]; other site 314275001481 dimer interface [polypeptide binding]; other site 314275001482 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 314275001483 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 314275001484 putative valine binding site [chemical binding]; other site 314275001485 dimer interface [polypeptide binding]; other site 314275001486 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 314275001487 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 314275001488 sec-independent translocase; Provisional; Region: PRK01770 314275001489 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 314275001490 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314275001491 active site 314275001492 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 314275001493 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 314275001494 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275001495 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275001496 metal binding site [ion binding]; metal-binding site 314275001497 active site 314275001498 I-site; other site 314275001499 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 314275001500 dimer interface [polypeptide binding]; other site 314275001501 allosteric magnesium binding site [ion binding]; other site 314275001502 active site 314275001503 aspartate-rich active site metal binding site; other site 314275001504 Schiff base residues; other site 314275001505 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 314275001506 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 314275001507 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 314275001508 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 314275001509 ATP binding site [chemical binding]; other site 314275001510 Mg++ binding site [ion binding]; other site 314275001511 motif III; other site 314275001512 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 314275001513 nucleotide binding region [chemical binding]; other site 314275001514 ATP-binding site [chemical binding]; other site 314275001515 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 314275001516 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314275001517 catalytic residues [active] 314275001518 transcription termination factor Rho; Provisional; Region: rho; PRK09376 314275001519 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 314275001520 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 314275001521 RNA binding site [nucleotide binding]; other site 314275001522 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 314275001523 multimer interface [polypeptide binding]; other site 314275001524 Walker A motif; other site 314275001525 ATP binding site [chemical binding]; other site 314275001526 Walker B motif; other site 314275001527 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 314275001528 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 314275001529 metal binding site [ion binding]; metal-binding site 314275001530 putative dimer interface [polypeptide binding]; other site 314275001531 Cache domain; Region: Cache_1; pfam02743 314275001532 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 314275001533 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275001534 dimer interface [polypeptide binding]; other site 314275001535 phosphorylation site [posttranslational modification] 314275001536 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 314275001537 ATP binding site [chemical binding]; other site 314275001538 Mg2+ binding site [ion binding]; other site 314275001539 G-X-G motif; other site 314275001540 Response regulator receiver domain; Region: Response_reg; pfam00072 314275001541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275001542 active site 314275001543 phosphorylation site [posttranslational modification] 314275001544 intermolecular recognition site; other site 314275001545 dimerization interface [polypeptide binding]; other site 314275001546 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 314275001547 AIR carboxylase; Region: AIRC; pfam00731 314275001548 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 314275001549 ATP-grasp domain; Region: ATP-grasp; pfam02222 314275001550 Protein of unknown function (DUF461); Region: DUF461; pfam04314 314275001551 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 314275001552 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 314275001553 dimerization interface [polypeptide binding]; other site 314275001554 DPS ferroxidase diiron center [ion binding]; other site 314275001555 ion pore; other site 314275001556 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 314275001557 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 314275001558 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 314275001559 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314275001560 Protein of unknown function (DUF962); Region: DUF962; pfam06127 314275001561 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 314275001562 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 314275001563 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 314275001564 binding surface 314275001565 TPR motif; other site 314275001566 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 314275001567 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 314275001568 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 314275001569 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 314275001570 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 314275001571 GDP-binding site [chemical binding]; other site 314275001572 ACT binding site; other site 314275001573 IMP binding site; other site 314275001574 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 314275001575 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 314275001576 NAD(P) binding site [chemical binding]; other site 314275001577 catalytic residues [active] 314275001578 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_18; cd08357 314275001579 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275001580 putative metal binding site [ion binding]; other site 314275001581 Uncharacterized conserved protein [Function unknown]; Region: COG1432 314275001582 LabA_like proteins; Region: LabA; cd10911 314275001583 putative metal binding site [ion binding]; other site 314275001584 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 314275001585 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 314275001586 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 314275001587 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 314275001588 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 314275001589 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275001590 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275001591 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 314275001592 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 314275001593 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 314275001594 putative active site [active] 314275001595 alanine racemase; Reviewed; Region: alr; PRK00053 314275001596 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 314275001597 active site 314275001598 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314275001599 substrate binding site [chemical binding]; other site 314275001600 catalytic residues [active] 314275001601 dimer interface [polypeptide binding]; other site 314275001602 Uncharacterized conserved protein [Function unknown]; Region: COG1284 314275001603 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314275001604 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 314275001605 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_16; cd07263 314275001606 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275001607 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 314275001608 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 314275001609 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314275001610 substrate binding pocket [chemical binding]; other site 314275001611 membrane-bound complex binding site; other site 314275001612 hinge residues; other site 314275001613 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 314275001614 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 314275001615 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 314275001616 PhnA protein; Region: PhnA; pfam03831 314275001617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275001618 Coenzyme A binding pocket [chemical binding]; other site 314275001619 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 314275001620 PIN domain; Region: PIN_3; pfam13470 314275001621 Protein of unknown function (DUF497); Region: DUF497; pfam04365 314275001622 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 314275001623 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 314275001624 sequence-specific DNA binding site [nucleotide binding]; other site 314275001625 salt bridge; other site 314275001626 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 314275001627 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 314275001628 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 314275001629 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 314275001630 Putative addiction module component; Region: Unstab_antitox; pfam09720 314275001631 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 314275001632 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275001633 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275001634 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275001635 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 314275001636 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 314275001637 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 314275001638 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 314275001639 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 314275001640 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275001641 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275001642 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275001643 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275001644 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275001645 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275001646 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314275001647 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 314275001648 non-specific DNA binding site [nucleotide binding]; other site 314275001649 salt bridge; other site 314275001650 sequence-specific DNA binding site [nucleotide binding]; other site 314275001651 Transposase; Region: HTH_Tnp_1; pfam01527 314275001652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314275001653 putative transposase OrfB; Reviewed; Region: PHA02517 314275001654 HTH-like domain; Region: HTH_21; pfam13276 314275001655 Integrase core domain; Region: rve; pfam00665 314275001656 Integrase core domain; Region: rve_3; pfam13683 314275001657 SnoaL-like domain; Region: SnoaL_2; pfam12680 314275001658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275001659 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275001660 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275001661 integron integrase; Region: integrase_gron; TIGR02249 314275001662 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 314275001663 Int/Topo IB signature motif; other site 314275001664 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 314275001665 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 314275001666 dimer interface [polypeptide binding]; other site 314275001667 active site 314275001668 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 314275001669 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 314275001670 substrate binding site [chemical binding]; other site 314275001671 oxyanion hole (OAH) forming residues; other site 314275001672 trimer interface [polypeptide binding]; other site 314275001673 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 314275001674 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314275001675 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314275001676 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 314275001677 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 314275001678 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314275001679 catalytic residue [active] 314275001680 proline dipeptidase; Provisional; Region: PRK13607 314275001681 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 314275001682 active site 314275001683 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 314275001684 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314275001685 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314275001686 substrate binding pocket [chemical binding]; other site 314275001687 chain length determination region; other site 314275001688 substrate-Mg2+ binding site; other site 314275001689 catalytic residues [active] 314275001690 aspartate-rich region 1; other site 314275001691 active site lid residues [active] 314275001692 aspartate-rich region 2; other site 314275001693 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 314275001694 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 314275001695 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 314275001696 GTPase CgtA; Reviewed; Region: obgE; PRK12298 314275001697 GTP1/OBG; Region: GTP1_OBG; pfam01018 314275001698 Obg GTPase; Region: Obg; cd01898 314275001699 G1 box; other site 314275001700 GTP/Mg2+ binding site [chemical binding]; other site 314275001701 Switch I region; other site 314275001702 G2 box; other site 314275001703 G3 box; other site 314275001704 Switch II region; other site 314275001705 G4 box; other site 314275001706 G5 box; other site 314275001707 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 314275001708 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 314275001709 folate binding site [chemical binding]; other site 314275001710 NADP+ binding site [chemical binding]; other site 314275001711 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 314275001712 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 314275001713 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275001714 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 314275001715 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 314275001716 DNA binding residues [nucleotide binding] 314275001717 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 314275001718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314275001719 Peptidase family M23; Region: Peptidase_M23; pfam01551 314275001720 Predicted membrane protein [Function unknown]; Region: COG1238 314275001721 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 314275001722 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 314275001723 S-adenosylmethionine binding site [chemical binding]; other site 314275001724 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 314275001725 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 314275001726 Permutation of conserved domain; other site 314275001727 active site 314275001728 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 314275001729 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 314275001730 homotrimer interaction site [polypeptide binding]; other site 314275001731 zinc binding site [ion binding]; other site 314275001732 CDP-binding sites; other site 314275001733 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 314275001734 substrate binding site; other site 314275001735 dimer interface; other site 314275001736 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 314275001737 Septum formation initiator; Region: DivIC; cl17659 314275001738 TIGR03545 family protein; Region: TIGR03545 314275001739 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 314275001740 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275001741 dimerization interface [polypeptide binding]; other site 314275001742 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275001743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275001744 dimer interface [polypeptide binding]; other site 314275001745 putative CheW interface [polypeptide binding]; other site 314275001746 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 314275001747 Proline dehydrogenase; Region: Pro_dh; pfam01619 314275001748 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 314275001749 Glutamate binding site [chemical binding]; other site 314275001750 NAD binding site [chemical binding]; other site 314275001751 catalytic residues [active] 314275001752 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 314275001753 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 314275001754 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 314275001755 Bacterial SH3 domain homologues; Region: SH3b; smart00287 314275001756 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 314275001757 Uncharacterized conserved protein [Function unknown]; Region: COG3025 314275001758 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 314275001759 putative active site [active] 314275001760 putative metal binding residues [ion binding]; other site 314275001761 signature motif; other site 314275001762 putative triphosphate binding site [ion binding]; other site 314275001763 Helix-turn-helix domain; Region: HTH_18; pfam12833 314275001764 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 314275001765 putative DNA-binding cleft [nucleotide binding]; other site 314275001766 putative DNA clevage site; other site 314275001767 molecular lever; other site 314275001768 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 314275001769 putative active site [active] 314275001770 Ap4A binding site [chemical binding]; other site 314275001771 nudix motif; other site 314275001772 putative metal binding site [ion binding]; other site 314275001773 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 314275001774 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 314275001775 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 314275001776 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314275001777 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314275001778 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314275001779 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 314275001780 thymidylate synthase; Reviewed; Region: thyA; PRK01827 314275001781 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 314275001782 dimerization interface [polypeptide binding]; other site 314275001783 active site 314275001784 Response regulator receiver domain; Region: Response_reg; pfam00072 314275001785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275001786 active site 314275001787 phosphorylation site [posttranslational modification] 314275001788 intermolecular recognition site; other site 314275001789 dimerization interface [polypeptide binding]; other site 314275001790 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 314275001791 PAS fold; Region: PAS_4; pfam08448 314275001792 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275001793 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275001794 metal binding site [ion binding]; metal-binding site 314275001795 active site 314275001796 I-site; other site 314275001797 muropeptide transporter; Validated; Region: ampG; cl17669 314275001798 muropeptide transporter; Reviewed; Region: ampG; PRK11902 314275001799 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 314275001800 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314275001801 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314275001802 active site 314275001803 ATP-dependent helicase HepA; Validated; Region: PRK04914 314275001804 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 314275001805 ATP binding site [chemical binding]; other site 314275001806 putative Mg++ binding site [ion binding]; other site 314275001807 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 314275001808 nucleotide binding region [chemical binding]; other site 314275001809 ATP-binding site [chemical binding]; other site 314275001810 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314275001811 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 314275001812 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 314275001813 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 314275001814 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 314275001815 putative active site [active] 314275001816 PhoH-like protein; Region: PhoH; pfam02562 314275001817 siroheme synthase; Provisional; Region: cysG; PRK10637 314275001818 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 314275001819 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 314275001820 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 314275001821 active site 314275001822 SAM binding site [chemical binding]; other site 314275001823 homodimer interface [polypeptide binding]; other site 314275001824 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 314275001825 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 314275001826 ATP binding site [chemical binding]; other site 314275001827 Mg++ binding site [ion binding]; other site 314275001828 motif III; other site 314275001829 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 314275001830 nucleotide binding region [chemical binding]; other site 314275001831 ATP-binding site [chemical binding]; other site 314275001832 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 314275001833 putative RNA binding site [nucleotide binding]; other site 314275001834 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 314275001835 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 314275001836 TPR motif; other site 314275001837 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 314275001838 binding surface 314275001839 TPR motif; other site 314275001840 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 314275001841 TPR motif; other site 314275001842 binding surface 314275001843 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 314275001844 binding surface 314275001845 TPR motif; other site 314275001846 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 314275001847 TPR motif; other site 314275001848 binding surface 314275001849 Ion transport protein; Region: Ion_trans; pfam00520 314275001850 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 314275001851 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 314275001852 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 314275001853 dimer interface [polypeptide binding]; other site 314275001854 ADP-ribose binding site [chemical binding]; other site 314275001855 active site 314275001856 nudix motif; other site 314275001857 metal binding site [ion binding]; metal-binding site 314275001858 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 314275001859 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 314275001860 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 314275001861 active site 314275001862 metal binding site [ion binding]; metal-binding site 314275001863 hexamer interface [polypeptide binding]; other site 314275001864 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 314275001865 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314275001866 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 314275001867 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 314275001868 ATP binding site [chemical binding]; other site 314275001869 Mg2+ binding site [ion binding]; other site 314275001870 G-X-G motif; other site 314275001871 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 314275001872 anchoring element; other site 314275001873 dimer interface [polypeptide binding]; other site 314275001874 ATP binding site [chemical binding]; other site 314275001875 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 314275001876 active site 314275001877 metal binding site [ion binding]; metal-binding site 314275001878 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314275001879 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 314275001880 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314275001881 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 314275001882 motif II; other site 314275001883 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 314275001884 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 314275001885 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 314275001886 FeS/SAM binding site; other site 314275001887 elongation factor P; Validated; Region: PRK00529 314275001888 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 314275001889 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 314275001890 RNA binding site [nucleotide binding]; other site 314275001891 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 314275001892 RNA binding site [nucleotide binding]; other site 314275001893 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 314275001894 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 314275001895 motif 1; other site 314275001896 dimer interface [polypeptide binding]; other site 314275001897 active site 314275001898 motif 2; other site 314275001899 motif 3; other site 314275001900 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 314275001901 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314275001902 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275001903 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275001904 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314275001905 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314275001906 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275001907 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275001908 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 314275001909 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 314275001910 active site 314275001911 dimer interface [polypeptide binding]; other site 314275001912 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 314275001913 active site 314275001914 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 314275001915 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 314275001916 S-adenosylmethionine binding site [chemical binding]; other site 314275001917 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 314275001918 BolA-like protein; Region: BolA; cl00386 314275001919 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 314275001920 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 314275001921 active site 314275001922 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 314275001923 Nitrate and nitrite sensing; Region: NIT; pfam08376 314275001924 ANTAR domain; Region: ANTAR; pfam03861 314275001925 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 314275001926 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314275001927 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 314275001928 nitrite reductase subunit NirD; Provisional; Region: PRK14989 314275001929 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275001930 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275001931 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 314275001932 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 314275001933 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 314275001934 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 314275001935 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 314275001936 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 314275001937 [4Fe-4S] binding site [ion binding]; other site 314275001938 molybdopterin cofactor binding site; other site 314275001939 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 314275001940 molybdopterin cofactor binding site; other site 314275001941 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 314275001942 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 314275001943 active site 314275001944 SAM binding site [chemical binding]; other site 314275001945 homodimer interface [polypeptide binding]; other site 314275001946 hypothetical protein; Validated; Region: PRK09071 314275001947 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 314275001948 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 314275001949 PAS domain; Region: PAS_9; pfam13426 314275001950 putative active site [active] 314275001951 heme pocket [chemical binding]; other site 314275001952 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 314275001953 PAS domain; Region: PAS_9; pfam13426 314275001954 putative active site [active] 314275001955 heme pocket [chemical binding]; other site 314275001956 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275001957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275001958 dimer interface [polypeptide binding]; other site 314275001959 putative CheW interface [polypeptide binding]; other site 314275001960 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 314275001961 NMT1-like family; Region: NMT1_2; pfam13379 314275001962 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 314275001963 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 314275001964 dimer interface [polypeptide binding]; other site 314275001965 conserved gate region; other site 314275001966 putative PBP binding loops; other site 314275001967 ABC-ATPase subunit interface; other site 314275001968 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 314275001969 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 314275001970 Walker A/P-loop; other site 314275001971 ATP binding site [chemical binding]; other site 314275001972 Q-loop/lid; other site 314275001973 ABC transporter signature motif; other site 314275001974 Walker B; other site 314275001975 D-loop; other site 314275001976 H-loop/switch region; other site 314275001977 HD domain; Region: HD_3; pfam13023 314275001978 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 314275001979 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 314275001980 catalytic residues [active] 314275001981 hinge region; other site 314275001982 alpha helical domain; other site 314275001983 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 314275001984 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275001985 N-terminal plug; other site 314275001986 ligand-binding site [chemical binding]; other site 314275001987 serine/threonine protein kinase; Provisional; Region: PRK11768 314275001988 serine/threonine protein kinase; Provisional; Region: PRK11768 314275001989 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 314275001990 4Fe-4S binding domain; Region: Fer4_5; pfam12801 314275001991 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 314275001992 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 314275001993 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 314275001994 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 314275001995 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 314275001996 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275001997 active site 314275001998 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 314275001999 aldose dehydrogenase; Validated; Region: PRK06398 314275002000 classical (c) SDRs; Region: SDR_c; cd05233 314275002001 NAD(P) binding site [chemical binding]; other site 314275002002 active site 314275002003 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 314275002004 Amidohydrolase; Region: Amidohydro_2; pfam04909 314275002005 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 314275002006 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 314275002007 active site pocket [active] 314275002008 aldolase II superfamily protein; Provisional; Region: PRK07044 314275002009 active site 314275002010 intersubunit interface [polypeptide binding]; other site 314275002011 Zn2+ binding site [ion binding]; other site 314275002012 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 314275002013 nudix motif; other site 314275002014 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275002015 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275002016 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275002017 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275002018 Protein export membrane protein; Region: SecD_SecF; cl14618 314275002019 Protein export membrane protein; Region: SecD_SecF; cl14618 314275002020 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275002021 dimerization interface [polypeptide binding]; other site 314275002022 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275002023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275002024 dimer interface [polypeptide binding]; other site 314275002025 putative CheW interface [polypeptide binding]; other site 314275002026 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 314275002027 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 314275002028 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 314275002029 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 314275002030 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275002031 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 314275002032 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 314275002033 DNA binding residues [nucleotide binding] 314275002034 DNA primase; Validated; Region: dnaG; PRK05667 314275002035 CHC2 zinc finger; Region: zf-CHC2; pfam01807 314275002036 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 314275002037 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 314275002038 active site 314275002039 metal binding site [ion binding]; metal-binding site 314275002040 interdomain interaction site; other site 314275002041 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 314275002042 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 314275002043 Yqey-like protein; Region: YqeY; pfam09424 314275002044 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 314275002045 UGMP family protein; Validated; Region: PRK09604 314275002046 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 314275002047 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 314275002048 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 314275002049 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 314275002050 Dihydroneopterin aldolase; Region: FolB; pfam02152 314275002051 active site 314275002052 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 314275002053 catalytic center binding site [active] 314275002054 ATP binding site [chemical binding]; other site 314275002055 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 314275002056 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 314275002057 nucleotide binding site/active site [active] 314275002058 HIT family signature motif; other site 314275002059 catalytic residue [active] 314275002060 Nudix hydrolase homolog; Region: PLN02791 314275002061 HDOD domain; Region: HDOD; pfam08668 314275002062 Benzoate membrane transport protein; Region: BenE; pfam03594 314275002063 benzoate transporter; Region: benE; TIGR00843 314275002064 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314275002065 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 314275002066 non-specific DNA binding site [nucleotide binding]; other site 314275002067 salt bridge; other site 314275002068 sequence-specific DNA binding site [nucleotide binding]; other site 314275002069 recombination associated protein; Reviewed; Region: rdgC; PRK00321 314275002070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275002071 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 314275002072 ATP binding site [chemical binding]; other site 314275002073 Mg2+ binding site [ion binding]; other site 314275002074 G-X-G motif; other site 314275002075 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 314275002076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275002077 active site 314275002078 phosphorylation site [posttranslational modification] 314275002079 intermolecular recognition site; other site 314275002080 dimerization interface [polypeptide binding]; other site 314275002081 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 314275002082 DNA binding site [nucleotide binding] 314275002083 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 314275002084 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 314275002085 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 314275002086 dimer interface [polypeptide binding]; other site 314275002087 phosphorylation site [posttranslational modification] 314275002088 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 314275002089 ATP binding site [chemical binding]; other site 314275002090 Mg2+ binding site [ion binding]; other site 314275002091 G-X-G motif; other site 314275002092 PBP superfamily domain; Region: PBP_like_2; cl17296 314275002093 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275002094 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275002095 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 314275002096 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 314275002097 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 314275002098 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314275002099 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 314275002100 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 314275002101 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 314275002102 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 314275002103 TPR motif; other site 314275002104 binding surface 314275002105 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 314275002106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275002107 active site 314275002108 phosphorylation site [posttranslational modification] 314275002109 intermolecular recognition site; other site 314275002110 dimerization interface [polypeptide binding]; other site 314275002111 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275002112 Zn2+ binding site [ion binding]; other site 314275002113 Mg2+ binding site [ion binding]; other site 314275002114 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 314275002115 PAS domain; Region: PAS_9; pfam13426 314275002116 putative active site [active] 314275002117 heme pocket [chemical binding]; other site 314275002118 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314275002119 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 314275002120 putative active site [active] 314275002121 heme pocket [chemical binding]; other site 314275002122 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 314275002123 dimer interface [polypeptide binding]; other site 314275002124 phosphorylation site [posttranslational modification] 314275002125 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 314275002126 ATP binding site [chemical binding]; other site 314275002127 Mg2+ binding site [ion binding]; other site 314275002128 G-X-G motif; other site 314275002129 Response regulator receiver domain; Region: Response_reg; pfam00072 314275002130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275002131 active site 314275002132 phosphorylation site [posttranslational modification] 314275002133 intermolecular recognition site; other site 314275002134 dimerization interface [polypeptide binding]; other site 314275002135 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 314275002136 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 314275002137 acyl-activating enzyme (AAE) consensus motif; other site 314275002138 putative AMP binding site [chemical binding]; other site 314275002139 putative active site [active] 314275002140 putative CoA binding site [chemical binding]; other site 314275002141 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 314275002142 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 314275002143 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 314275002144 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 314275002145 substrate binding site [chemical binding]; other site 314275002146 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 314275002147 substrate binding site [chemical binding]; other site 314275002148 ligand binding site [chemical binding]; other site 314275002149 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 314275002150 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 314275002151 DNA ligase; Provisional; Region: PRK09125 314275002152 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 314275002153 DNA binding site [nucleotide binding] 314275002154 active site 314275002155 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 314275002156 DNA binding site [nucleotide binding] 314275002157 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 314275002158 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 314275002159 substrate binding site [chemical binding]; other site 314275002160 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 314275002161 substrate binding site [chemical binding]; other site 314275002162 ligand binding site [chemical binding]; other site 314275002163 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 314275002164 aspartate kinase III; Validated; Region: PRK09084 314275002165 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 314275002166 nucleotide binding site [chemical binding]; other site 314275002167 substrate binding site [chemical binding]; other site 314275002168 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 314275002169 lysine allosteric regulatory site; other site 314275002170 dimer interface [polypeptide binding]; other site 314275002171 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 314275002172 dimer interface [polypeptide binding]; other site 314275002173 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 314275002174 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275002175 dimerization interface [polypeptide binding]; other site 314275002176 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275002177 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275002178 dimer interface [polypeptide binding]; other site 314275002179 putative CheW interface [polypeptide binding]; other site 314275002180 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 314275002181 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 314275002182 active site 314275002183 metal binding site [ion binding]; metal-binding site 314275002184 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 314275002185 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 314275002186 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 314275002187 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 314275002188 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 314275002189 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 314275002190 SurA N-terminal domain; Region: SurA_N; pfam09312 314275002191 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314275002192 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314275002193 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 314275002194 OstA-like protein; Region: OstA; cl00844 314275002195 Organic solvent tolerance protein; Region: OstA_C; pfam04453 314275002196 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 314275002197 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 314275002198 putative metal binding site [ion binding]; other site 314275002199 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 314275002200 HSP70 interaction site [polypeptide binding]; other site 314275002201 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 314275002202 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 314275002203 active site 314275002204 Int/Topo IB signature motif; other site 314275002205 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 314275002206 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 314275002207 dimerization domain [polypeptide binding]; other site 314275002208 dimer interface [polypeptide binding]; other site 314275002209 catalytic residues [active] 314275002210 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 314275002211 DHH family; Region: DHH; pfam01368 314275002212 DHHA1 domain; Region: DHHA1; pfam02272 314275002213 Recombination protein O N terminal; Region: RecO_N; pfam11967 314275002214 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 314275002215 Recombination protein O C terminal; Region: RecO_C; pfam02565 314275002216 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 314275002217 active site 314275002218 hydrophilic channel; other site 314275002219 dimerization interface [polypeptide binding]; other site 314275002220 catalytic residues [active] 314275002221 active site lid [active] 314275002222 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 314275002223 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 314275002224 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 314275002225 S-adenosylmethionine binding site [chemical binding]; other site 314275002226 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 314275002227 HD domain; Region: HD_4; pfam13328 314275002228 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314275002229 synthetase active site [active] 314275002230 NTP binding site [chemical binding]; other site 314275002231 metal binding site [ion binding]; metal-binding site 314275002232 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 314275002233 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 314275002234 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 314275002235 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 314275002236 homodimer interface [polypeptide binding]; other site 314275002237 metal binding site [ion binding]; metal-binding site 314275002238 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 314275002239 homodimer interface [polypeptide binding]; other site 314275002240 active site 314275002241 putative chemical substrate binding site [chemical binding]; other site 314275002242 metal binding site [ion binding]; metal-binding site 314275002243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 314275002244 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 314275002245 tetramerization interface [polypeptide binding]; other site 314275002246 substrate binding pocket [chemical binding]; other site 314275002247 catalytic residues [active] 314275002248 inhibitor binding sites; inhibition site 314275002249 NADP(H) binding site [chemical binding]; other site 314275002250 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 314275002251 short chain dehydrogenase; Provisional; Region: PRK09072 314275002252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275002253 NAD(P) binding site [chemical binding]; other site 314275002254 active site 314275002255 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 314275002256 heme binding pocket [chemical binding]; other site 314275002257 heme ligand [chemical binding]; other site 314275002258 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 314275002259 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 314275002260 acyl-activating enzyme (AAE) consensus motif; other site 314275002261 putative AMP binding site [chemical binding]; other site 314275002262 putative active site [active] 314275002263 putative CoA binding site [chemical binding]; other site 314275002264 Thermostable hemolysin; Region: T_hemolysin; pfam12261 314275002265 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 314275002266 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 314275002267 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314275002268 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 314275002269 Ligand binding site; other site 314275002270 Putative Catalytic site; other site 314275002271 DXD motif; other site 314275002272 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 314275002273 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275002274 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 314275002275 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 314275002276 dimer interface [polypeptide binding]; other site 314275002277 phosphorylation site [posttranslational modification] 314275002278 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 314275002279 ATP binding site [chemical binding]; other site 314275002280 Mg2+ binding site [ion binding]; other site 314275002281 G-X-G motif; other site 314275002282 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314275002283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275002284 active site 314275002285 phosphorylation site [posttranslational modification] 314275002286 intermolecular recognition site; other site 314275002287 dimerization interface [polypeptide binding]; other site 314275002288 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 314275002289 DNA binding site [nucleotide binding] 314275002290 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 314275002291 23S rRNA interface [nucleotide binding]; other site 314275002292 L3 interface [polypeptide binding]; other site 314275002293 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 314275002294 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 314275002295 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 314275002296 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 314275002297 [2Fe-2S] cluster binding site [ion binding]; other site 314275002298 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 314275002299 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 314275002300 Qi binding site; other site 314275002301 intrachain domain interface; other site 314275002302 interchain domain interface [polypeptide binding]; other site 314275002303 heme bH binding site [chemical binding]; other site 314275002304 heme bL binding site [chemical binding]; other site 314275002305 Qo binding site; other site 314275002306 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 314275002307 interchain domain interface [polypeptide binding]; other site 314275002308 intrachain domain interface; other site 314275002309 Qi binding site; other site 314275002310 Qo binding site; other site 314275002311 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 314275002312 stringent starvation protein A; Provisional; Region: sspA; PRK09481 314275002313 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 314275002314 C-terminal domain interface [polypeptide binding]; other site 314275002315 putative GSH binding site (G-site) [chemical binding]; other site 314275002316 dimer interface [polypeptide binding]; other site 314275002317 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 314275002318 dimer interface [polypeptide binding]; other site 314275002319 N-terminal domain interface [polypeptide binding]; other site 314275002320 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 314275002321 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 314275002322 MgtE intracellular N domain; Region: MgtE_N; smart00924 314275002323 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 314275002324 Divalent cation transporter; Region: MgtE; cl00786 314275002325 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 314275002326 dimerization domain swap beta strand [polypeptide binding]; other site 314275002327 regulatory protein interface [polypeptide binding]; other site 314275002328 active site 314275002329 regulatory phosphorylation site [posttranslational modification]; other site 314275002330 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 314275002331 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 314275002332 active site 314275002333 phosphorylation site [posttranslational modification] 314275002334 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 314275002335 30S subunit binding site; other site 314275002336 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 314275002337 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 314275002338 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 314275002339 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 314275002340 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 314275002341 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 314275002342 Walker A/P-loop; other site 314275002343 ATP binding site [chemical binding]; other site 314275002344 Q-loop/lid; other site 314275002345 ABC transporter signature motif; other site 314275002346 Walker B; other site 314275002347 D-loop; other site 314275002348 H-loop/switch region; other site 314275002349 OstA-like protein; Region: OstA; cl00844 314275002350 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 314275002351 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 314275002352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 314275002353 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314275002354 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 314275002355 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 314275002356 putative active site [active] 314275002357 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 314275002358 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 314275002359 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 314275002360 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 314275002361 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 314275002362 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 314275002363 Walker A/P-loop; other site 314275002364 ATP binding site [chemical binding]; other site 314275002365 Q-loop/lid; other site 314275002366 ABC transporter signature motif; other site 314275002367 Walker B; other site 314275002368 D-loop; other site 314275002369 H-loop/switch region; other site 314275002370 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 314275002371 conserved hypothetical integral membrane protein; Region: TIGR00056 314275002372 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 314275002373 mce related protein; Region: MCE; pfam02470 314275002374 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 314275002375 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 314275002376 anti sigma factor interaction site; other site 314275002377 regulatory phosphorylation site [posttranslational modification]; other site 314275002378 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 314275002379 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 314275002380 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 314275002381 hinge; other site 314275002382 active site 314275002383 serine endoprotease; Provisional; Region: PRK10898 314275002384 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 314275002385 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 314275002386 protein binding site [polypeptide binding]; other site 314275002387 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 314275002388 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 314275002389 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 314275002390 protein binding site [polypeptide binding]; other site 314275002391 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 314275002392 Predicted ATPase [General function prediction only]; Region: COG1485 314275002393 hypothetical protein; Provisional; Region: PRK12378 314275002394 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 314275002395 apolar tunnel; other site 314275002396 heme binding site [chemical binding]; other site 314275002397 dimerization interface [polypeptide binding]; other site 314275002398 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 314275002399 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 314275002400 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 314275002401 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 314275002402 Protein export membrane protein; Region: SecD_SecF; cl14618 314275002403 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 314275002404 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 314275002405 TrkA-C domain; Region: TrkA_C; pfam02080 314275002406 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275002407 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275002408 EamA-like transporter family; Region: EamA; pfam00892 314275002409 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 314275002410 PAS fold; Region: PAS_4; pfam08448 314275002411 PAS fold; Region: PAS; pfam00989 314275002412 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 314275002413 putative active site [active] 314275002414 heme pocket [chemical binding]; other site 314275002415 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275002416 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 314275002417 dimer interface [polypeptide binding]; other site 314275002418 phosphorylation site [posttranslational modification] 314275002419 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 314275002420 ATP binding site [chemical binding]; other site 314275002421 Mg2+ binding site [ion binding]; other site 314275002422 G-X-G motif; other site 314275002423 Response regulator receiver domain; Region: Response_reg; pfam00072 314275002424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275002425 active site 314275002426 phosphorylation site [posttranslational modification] 314275002427 intermolecular recognition site; other site 314275002428 dimerization interface [polypeptide binding]; other site 314275002429 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 314275002430 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 314275002431 putative ligand binding site [chemical binding]; other site 314275002432 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 314275002433 active site 314275002434 catalytic site [active] 314275002435 substrate binding site [chemical binding]; other site 314275002436 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 314275002437 S-adenosylmethionine synthetase; Validated; Region: PRK05250 314275002438 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 314275002439 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 314275002440 transketolase; Reviewed; Region: PRK12753 314275002441 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 314275002442 TPP-binding site [chemical binding]; other site 314275002443 dimer interface [polypeptide binding]; other site 314275002444 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 314275002445 PYR/PP interface [polypeptide binding]; other site 314275002446 dimer interface [polypeptide binding]; other site 314275002447 TPP binding site [chemical binding]; other site 314275002448 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314275002449 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 314275002450 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 314275002451 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 314275002452 Phosphoglycerate kinase; Region: PGK; pfam00162 314275002453 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 314275002454 substrate binding site [chemical binding]; other site 314275002455 hinge regions; other site 314275002456 ADP binding site [chemical binding]; other site 314275002457 catalytic site [active] 314275002458 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 314275002459 catalytic residue [active] 314275002460 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 314275002461 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314275002462 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314275002463 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314275002464 exopolyphosphatase; Provisional; Region: PRK10854 314275002465 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314275002466 nucleotide binding site [chemical binding]; other site 314275002467 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 314275002468 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 314275002469 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 314275002470 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 314275002471 domain interface [polypeptide binding]; other site 314275002472 active site 314275002473 catalytic site [active] 314275002474 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 314275002475 domain interface [polypeptide binding]; other site 314275002476 active site 314275002477 catalytic site [active] 314275002478 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 314275002479 ACT domain; Region: ACT_6; pfam13740 314275002480 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 314275002481 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 314275002482 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 314275002483 dimer interface [polypeptide binding]; other site 314275002484 conserved gate region; other site 314275002485 putative PBP binding loops; other site 314275002486 ABC-ATPase subunit interface; other site 314275002487 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 314275002488 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 314275002489 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 314275002490 dimer interface [polypeptide binding]; other site 314275002491 conserved gate region; other site 314275002492 putative PBP binding loops; other site 314275002493 ABC-ATPase subunit interface; other site 314275002494 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 314275002495 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 314275002496 Walker A/P-loop; other site 314275002497 ATP binding site [chemical binding]; other site 314275002498 Q-loop/lid; other site 314275002499 ABC transporter signature motif; other site 314275002500 Walker B; other site 314275002501 D-loop; other site 314275002502 H-loop/switch region; other site 314275002503 transcriptional regulator PhoU; Provisional; Region: PRK11115 314275002504 PhoU domain; Region: PhoU; pfam01895 314275002505 PhoU domain; Region: PhoU; pfam01895 314275002506 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 314275002507 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 314275002508 universal stress protein UspE; Provisional; Region: PRK11175 314275002509 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 314275002510 Ligand Binding Site [chemical binding]; other site 314275002511 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 314275002512 Ligand Binding Site [chemical binding]; other site 314275002513 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 314275002514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275002515 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 314275002516 dimerization interface [polypeptide binding]; other site 314275002517 Haemolysin-III related; Region: HlyIII; cl03831 314275002518 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 314275002519 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314275002520 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 314275002521 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 314275002522 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 314275002523 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 314275002524 active site 314275002525 Zn binding site [ion binding]; other site 314275002526 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 314275002527 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 314275002528 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314275002529 putative catalytic residues [active] 314275002530 hypothetical protein; Provisional; Region: PRK11568 314275002531 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 314275002532 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 314275002533 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 314275002534 exonuclease subunit SbcD; Provisional; Region: PRK10966 314275002535 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 314275002536 active site 314275002537 metal binding site [ion binding]; metal-binding site 314275002538 DNA binding site [nucleotide binding] 314275002539 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 314275002540 exonuclease subunit SbcC; Provisional; Region: PRK10246 314275002541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275002542 Walker A/P-loop; other site 314275002543 ATP binding site [chemical binding]; other site 314275002544 Q-loop/lid; other site 314275002545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275002546 ATP binding site [chemical binding]; other site 314275002547 ABC transporter signature motif; other site 314275002548 Walker B; other site 314275002549 D-loop; other site 314275002550 H-loop/switch region; other site 314275002551 serine/threonine transporter SstT; Provisional; Region: PRK13628 314275002552 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314275002553 formimidoylglutamase; Provisional; Region: PRK13775 314275002554 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 314275002555 putative active site [active] 314275002556 putative metal binding site [ion binding]; other site 314275002557 imidazolonepropionase; Validated; Region: PRK09356 314275002558 Amidohydrolase; Region: Amidohydro_5; pfam13594 314275002559 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 314275002560 active site 314275002561 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 314275002562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314275002563 DNA-binding site [nucleotide binding]; DNA binding site 314275002564 UTRA domain; Region: UTRA; pfam07702 314275002565 urocanate hydratase; Provisional; Region: PRK05414 314275002566 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 314275002567 active sites [active] 314275002568 tetramer interface [polypeptide binding]; other site 314275002569 CreA protein; Region: CreA; pfam05981 314275002570 MltA-interacting protein MipA; Region: MipA; cl01504 314275002571 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 314275002572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275002573 Walker A/P-loop; other site 314275002574 ATP binding site [chemical binding]; other site 314275002575 Q-loop/lid; other site 314275002576 ABC transporter signature motif; other site 314275002577 Walker B; other site 314275002578 D-loop; other site 314275002579 H-loop/switch region; other site 314275002580 ABC transporter; Region: ABC_tran_2; pfam12848 314275002581 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314275002582 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 314275002583 putative active site [active] 314275002584 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275002585 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275002586 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314275002587 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 314275002588 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 314275002589 DNA binding site [nucleotide binding] 314275002590 active site 314275002591 Int/Topo IB signature motif; other site 314275002592 Zeta toxin; Region: Zeta_toxin; pfam06414 314275002593 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 314275002594 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 314275002595 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 314275002596 LytTr DNA-binding domain; Region: LytTR; smart00850 314275002597 LrgA family; Region: LrgA; cl00608 314275002598 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 314275002599 Response regulator receiver domain; Region: Response_reg; pfam00072 314275002600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275002601 active site 314275002602 phosphorylation site [posttranslational modification] 314275002603 intermolecular recognition site; other site 314275002604 dimerization interface [polypeptide binding]; other site 314275002605 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 314275002606 PAS domain; Region: PAS; smart00091 314275002607 PAS fold; Region: PAS_4; pfam08448 314275002608 putative active site [active] 314275002609 heme pocket [chemical binding]; other site 314275002610 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 314275002611 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 314275002612 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 314275002613 HemN family oxidoreductase; Provisional; Region: PRK05660 314275002614 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 314275002615 FeS/SAM binding site; other site 314275002616 HemN C-terminal domain; Region: HemN_C; pfam06969 314275002617 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 314275002618 active site 314275002619 dimerization interface [polypeptide binding]; other site 314275002620 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 314275002621 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314275002622 ATP binding site [chemical binding]; other site 314275002623 Mg++ binding site [ion binding]; other site 314275002624 motif III; other site 314275002625 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 314275002626 nucleotide binding region [chemical binding]; other site 314275002627 ATP-binding site [chemical binding]; other site 314275002628 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 314275002629 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 314275002630 active site 314275002631 NTP binding site [chemical binding]; other site 314275002632 metal binding triad [ion binding]; metal-binding site 314275002633 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 314275002634 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 314275002635 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 314275002636 Walker A motif; other site 314275002637 ATP binding site [chemical binding]; other site 314275002638 Walker B motif; other site 314275002639 arginine finger; other site 314275002640 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 314275002641 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 314275002642 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 314275002643 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275002644 Zn2+ binding site [ion binding]; other site 314275002645 Mg2+ binding site [ion binding]; other site 314275002646 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 314275002647 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 314275002648 substrate binding site [chemical binding]; other site 314275002649 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 314275002650 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 314275002651 substrate binding site [chemical binding]; other site 314275002652 ligand binding site [chemical binding]; other site 314275002653 tartrate dehydrogenase; Region: TTC; TIGR02089 314275002654 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 314275002655 2-isopropylmalate synthase; Validated; Region: PRK00915 314275002656 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 314275002657 active site 314275002658 catalytic residues [active] 314275002659 metal binding site [ion binding]; metal-binding site 314275002660 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 314275002661 enolase; Provisional; Region: eno; PRK00077 314275002662 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 314275002663 dimer interface [polypeptide binding]; other site 314275002664 metal binding site [ion binding]; metal-binding site 314275002665 substrate binding pocket [chemical binding]; other site 314275002666 CTP synthetase; Validated; Region: pyrG; PRK05380 314275002667 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 314275002668 Catalytic site [active] 314275002669 active site 314275002670 UTP binding site [chemical binding]; other site 314275002671 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 314275002672 active site 314275002673 putative oxyanion hole; other site 314275002674 catalytic triad [active] 314275002675 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 314275002676 MutS domain I; Region: MutS_I; pfam01624 314275002677 MutS domain II; Region: MutS_II; pfam05188 314275002678 MutS domain III; Region: MutS_III; pfam05192 314275002679 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 314275002680 Walker A/P-loop; other site 314275002681 ATP binding site [chemical binding]; other site 314275002682 Q-loop/lid; other site 314275002683 ABC transporter signature motif; other site 314275002684 Walker B; other site 314275002685 D-loop; other site 314275002686 H-loop/switch region; other site 314275002687 Competence-damaged protein; Region: CinA; pfam02464 314275002688 recombinase A; Provisional; Region: recA; PRK09354 314275002689 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 314275002690 hexamer interface [polypeptide binding]; other site 314275002691 Walker A motif; other site 314275002692 ATP binding site [chemical binding]; other site 314275002693 Walker B motif; other site 314275002694 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 314275002695 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275002696 Walker A/P-loop; other site 314275002697 ATP binding site [chemical binding]; other site 314275002698 Q-loop/lid; other site 314275002699 ABC transporter signature motif; other site 314275002700 Walker B; other site 314275002701 D-loop; other site 314275002702 H-loop/switch region; other site 314275002703 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 314275002704 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 314275002705 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 314275002706 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 314275002707 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 314275002708 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 314275002709 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 314275002710 Walker A/P-loop; other site 314275002711 ATP binding site [chemical binding]; other site 314275002712 Q-loop/lid; other site 314275002713 ABC transporter signature motif; other site 314275002714 Walker B; other site 314275002715 D-loop; other site 314275002716 H-loop/switch region; other site 314275002717 heme exporter protein CcmB; Region: ccmB; TIGR01190 314275002718 heme exporter protein CcmC; Region: ccmC; TIGR01191 314275002719 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 314275002720 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 314275002721 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 314275002722 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314275002723 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314275002724 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 314275002725 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 314275002726 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 314275002727 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 314275002728 binding surface 314275002729 TPR motif; other site 314275002730 VacJ like lipoprotein; Region: VacJ; cl01073 314275002731 UDP-glucose 4-epimerase; Region: PLN02240 314275002732 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 314275002733 NAD binding site [chemical binding]; other site 314275002734 homodimer interface [polypeptide binding]; other site 314275002735 active site 314275002736 substrate binding site [chemical binding]; other site 314275002737 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 314275002738 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 314275002739 putative substrate translocation pore; other site 314275002740 POT family; Region: PTR2; cl17359 314275002741 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 314275002742 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 314275002743 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 314275002744 Walker A/P-loop; other site 314275002745 ATP binding site [chemical binding]; other site 314275002746 Q-loop/lid; other site 314275002747 ABC transporter signature motif; other site 314275002748 Walker B; other site 314275002749 D-loop; other site 314275002750 H-loop/switch region; other site 314275002751 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 314275002752 ABC-2 type transporter; Region: ABC2_membrane; cl17235 314275002753 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 314275002754 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314275002755 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 314275002756 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 314275002757 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 314275002758 Mg++ binding site [ion binding]; other site 314275002759 putative catalytic motif [active] 314275002760 substrate binding site [chemical binding]; other site 314275002761 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 314275002762 active site 314275002763 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 314275002764 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 314275002765 Ligand binding site; other site 314275002766 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 314275002767 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 314275002768 active site 314275002769 tetramer interface; other site 314275002770 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 314275002771 Helix-hairpin-helix motif; Region: HHH; pfam00633 314275002772 tartrate dehydrogenase; Region: TTC; TIGR02089 314275002773 isocitrate dehydrogenase; Provisional; Region: PRK08997 314275002774 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 314275002775 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 314275002776 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 314275002777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275002778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275002779 metal binding site [ion binding]; metal-binding site 314275002780 active site 314275002781 I-site; other site 314275002782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 314275002783 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 314275002784 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 314275002785 SecY interacting protein Syd; Provisional; Region: PRK04968 314275002786 hypothetical protein; Provisional; Region: PRK11239 314275002787 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 314275002788 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 314275002789 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 314275002790 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 314275002791 tRNA pseudouridine synthase C; Region: DUF446; cl01187 314275002792 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314275002793 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 314275002794 active site 314275002795 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314275002796 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 314275002797 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 314275002798 trimer interface [polypeptide binding]; other site 314275002799 active site 314275002800 substrate binding site [chemical binding]; other site 314275002801 CoA binding site [chemical binding]; other site 314275002802 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 314275002803 active site 314275002804 elongation factor Ts; Provisional; Region: tsf; PRK09377 314275002805 UBA/TS-N domain; Region: UBA; pfam00627 314275002806 Elongation factor TS; Region: EF_TS; pfam00889 314275002807 Elongation factor TS; Region: EF_TS; pfam00889 314275002808 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 314275002809 putative nucleotide binding site [chemical binding]; other site 314275002810 uridine monophosphate binding site [chemical binding]; other site 314275002811 homohexameric interface [polypeptide binding]; other site 314275002812 ribosome recycling factor; Reviewed; Region: frr; PRK00083 314275002813 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 314275002814 hinge region; other site 314275002815 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 314275002816 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 314275002817 catalytic residue [active] 314275002818 putative FPP diphosphate binding site; other site 314275002819 putative FPP binding hydrophobic cleft; other site 314275002820 dimer interface [polypeptide binding]; other site 314275002821 putative IPP diphosphate binding site; other site 314275002822 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 314275002823 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 314275002824 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 314275002825 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 314275002826 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 314275002827 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 314275002828 zinc metallopeptidase RseP; Provisional; Region: PRK10779 314275002829 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 314275002830 active site 314275002831 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 314275002832 protein binding site [polypeptide binding]; other site 314275002833 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 314275002834 protein binding site [polypeptide binding]; other site 314275002835 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 314275002836 putative substrate binding region [chemical binding]; other site 314275002837 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 314275002838 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314275002839 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314275002840 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314275002841 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314275002842 Surface antigen; Region: Bac_surface_Ag; pfam01103 314275002843 periplasmic chaperone; Provisional; Region: PRK10780 314275002844 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 314275002845 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 314275002846 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 314275002847 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 314275002848 active site 314275002849 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 314275002850 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 314275002851 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 314275002852 RNA/DNA hybrid binding site [nucleotide binding]; other site 314275002853 active site 314275002854 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 314275002855 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 314275002856 putative active site [active] 314275002857 putative PHP Thumb interface [polypeptide binding]; other site 314275002858 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 314275002859 generic binding surface I; other site 314275002860 generic binding surface II; other site 314275002861 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 314275002862 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 314275002863 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 314275002864 Ligand Binding Site [chemical binding]; other site 314275002865 TilS substrate binding domain; Region: TilS; pfam09179 314275002866 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 314275002867 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275002868 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275002869 metal binding site [ion binding]; metal-binding site 314275002870 active site 314275002871 I-site; other site 314275002872 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 314275002873 putative cation:proton antiport protein; Provisional; Region: PRK10669 314275002874 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 314275002875 TrkA-N domain; Region: TrkA_N; pfam02254 314275002876 TrkA-C domain; Region: TrkA_C; pfam02080 314275002877 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 314275002878 nucleoside/Zn binding site; other site 314275002879 dimer interface [polypeptide binding]; other site 314275002880 catalytic motif [active] 314275002881 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314275002882 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 314275002883 substrate binding pocket [chemical binding]; other site 314275002884 membrane-bound complex binding site; other site 314275002885 hinge residues; other site 314275002886 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 314275002887 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314275002888 catalytic residue [active] 314275002889 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 314275002890 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 314275002891 dimerization interface [polypeptide binding]; other site 314275002892 ATP binding site [chemical binding]; other site 314275002893 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 314275002894 dimerization interface [polypeptide binding]; other site 314275002895 ATP binding site [chemical binding]; other site 314275002896 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 314275002897 putative active site [active] 314275002898 catalytic triad [active] 314275002899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 314275002900 Smr domain; Region: Smr; pfam01713 314275002901 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 314275002902 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 314275002903 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 314275002904 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314275002905 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314275002906 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314275002907 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314275002908 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314275002909 ligand binding site [chemical binding]; other site 314275002910 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 314275002911 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 314275002912 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275002913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275002914 Walker A/P-loop; other site 314275002915 ATP binding site [chemical binding]; other site 314275002916 Q-loop/lid; other site 314275002917 ABC transporter signature motif; other site 314275002918 Walker B; other site 314275002919 D-loop; other site 314275002920 H-loop/switch region; other site 314275002921 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 314275002922 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 314275002923 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314275002924 DNA binding residues [nucleotide binding] 314275002925 putative dimer interface [polypeptide binding]; other site 314275002926 putative mercuric reductase; Provisional; Region: PRK14727 314275002927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275002928 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275002929 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314275002930 putative mercury transport protein MerC; Provisional; Region: PRK13755 314275002931 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 314275002932 metal-binding site [ion binding] 314275002933 MerT mercuric transport protein; Region: MerT; cl03578 314275002934 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 314275002935 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 314275002936 DNA binding residues [nucleotide binding] 314275002937 dimer interface [polypeptide binding]; other site 314275002938 mercury binding site [ion binding]; other site 314275002939 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 314275002940 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 314275002941 catalytic residues [active] 314275002942 catalytic nucleophile [active] 314275002943 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 314275002944 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 314275002945 Transposase; Region: HTH_Tnp_1; cl17663 314275002946 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 314275002947 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 314275002948 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275002949 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 314275002950 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 314275002951 alkylmercury lyase; Provisional; Region: PRK13239 314275002952 Helix-turn-helix domain of alkylmercury lyase; Region: HTH_15; pfam12324 314275002953 Alkylmercury lyase; Region: MerB; pfam03243 314275002954 MerT mercuric transport protein; Region: MerT; cl03578 314275002955 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 314275002956 metal-binding site [ion binding] 314275002957 MerT mercuric transport protein; Region: MerT; cl03578 314275002958 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 314275002959 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 314275002960 DNA binding residues [nucleotide binding] 314275002961 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 314275002962 dimer interface [polypeptide binding]; other site 314275002963 mercury binding site [ion binding]; other site 314275002964 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 314275002965 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 314275002966 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 314275002967 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 314275002968 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 314275002969 DNA binding site [nucleotide binding] 314275002970 dimer interface [polypeptide binding]; other site 314275002971 active site 314275002972 Int/Topo IB signature motif; other site 314275002973 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 314275002974 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 314275002975 DNA binding residues [nucleotide binding] 314275002976 dimer interface [polypeptide binding]; other site 314275002977 mercury binding site [ion binding]; other site 314275002978 putative mercuric reductase; Provisional; Region: PRK14694 314275002979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275002980 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275002981 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314275002982 alkylmercury lyase; Provisional; Region: PRK13239 314275002983 Helix-turn-helix domain of alkylmercury lyase; Region: HTH_15; pfam12324 314275002984 Alkylmercury lyase; Region: MerB; pfam03243 314275002985 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 314275002986 DNA binding residues [nucleotide binding] 314275002987 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314275002988 putative dimer interface [polypeptide binding]; other site 314275002989 putative mercury resistance protein; Provisional; Region: PRK13747 314275002990 Predicted membrane protein [Function unknown]; Region: COG2259 314275002991 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 314275002992 heme-binding site [chemical binding]; other site 314275002993 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 314275002994 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 314275002995 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 314275002996 NAD(P) binding site [chemical binding]; other site 314275002997 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 314275002998 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 314275002999 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 314275003000 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 314275003001 Y-family of DNA polymerases; Region: PolY; cl12025 314275003002 DNA binding site [nucleotide binding] 314275003003 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 314275003004 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275003005 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275003006 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275003007 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 314275003008 DNA binding residues [nucleotide binding] 314275003009 dimerization interface [polypeptide binding]; other site 314275003010 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 314275003011 LPP20 lipoprotein; Region: LPP20; cl15824 314275003012 FlgN protein; Region: FlgN; pfam05130 314275003013 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 314275003014 SAF-like; Region: SAF_2; pfam13144 314275003015 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 314275003016 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 314275003017 Response regulator receiver domain; Region: Response_reg; pfam00072 314275003018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275003019 active site 314275003020 phosphorylation site [posttranslational modification] 314275003021 intermolecular recognition site; other site 314275003022 dimerization interface [polypeptide binding]; other site 314275003023 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 314275003024 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 314275003025 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 314275003026 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 314275003027 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 314275003028 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 314275003029 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314275003030 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 314275003031 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 314275003032 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 314275003033 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 314275003034 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 314275003035 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314275003036 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 314275003037 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 314275003038 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 314275003039 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 314275003040 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314275003041 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 314275003042 Flagellar L-ring protein; Region: FlgH; pfam02107 314275003043 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 314275003044 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 314275003045 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 314275003046 Rod binding protein; Region: Rod-binding; cl01626 314275003047 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 314275003048 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 314275003049 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 314275003050 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314275003051 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 314275003052 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314275003053 flagellin; Reviewed; Region: PRK08869 314275003054 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314275003055 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 314275003056 flagellin; Reviewed; Region: PRK08869 314275003057 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314275003058 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 314275003059 FlaG protein; Region: FlaG; pfam03646 314275003060 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 314275003061 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 314275003062 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 314275003063 Flagellar protein FliS; Region: FliS; cl00654 314275003064 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 314275003065 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 314275003066 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_1; cd08821 314275003067 putative active site [active] 314275003068 putative substrate binding site [chemical binding]; other site 314275003069 putative cosubstrate binding site; other site 314275003070 catalytic site [active] 314275003071 pseudaminic acid synthase; Region: PseI; TIGR03586 314275003072 NeuB family; Region: NeuB; pfam03102 314275003073 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 314275003074 NeuB binding interface [polypeptide binding]; other site 314275003075 putative substrate binding site [chemical binding]; other site 314275003076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275003077 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275003078 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275003079 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 314275003080 Transposase [DNA replication, recombination, and repair]; Region: COG5421 314275003081 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 314275003082 Transposase; Region: HTH_Tnp_1; pfam01527 314275003083 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 314275003084 putative transposase OrfB; Reviewed; Region: PHA02517 314275003085 DNA-binding interface [nucleotide binding]; DNA binding site 314275003086 HTH-like domain; Region: HTH_21; pfam13276 314275003087 Integrase core domain; Region: rve; pfam00665 314275003088 Integrase core domain; Region: rve_3; pfam13683 314275003089 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 314275003090 active site 314275003091 cosubstrate binding site; other site 314275003092 substrate binding site [chemical binding]; other site 314275003093 catalytic site [active] 314275003094 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 314275003095 ligand binding site; other site 314275003096 tetramer interface; other site 314275003097 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 314275003098 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 314275003099 inhibitor-cofactor binding pocket; inhibition site 314275003100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275003101 catalytic residue [active] 314275003102 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 314275003103 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 314275003104 NAD(P) binding site [chemical binding]; other site 314275003105 homodimer interface [polypeptide binding]; other site 314275003106 substrate binding site [chemical binding]; other site 314275003107 active site 314275003108 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314275003109 flagellin; Provisional; Region: PRK12804 314275003110 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 314275003111 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 314275003112 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 314275003113 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 314275003114 Walker A motif; other site 314275003115 ATP binding site [chemical binding]; other site 314275003116 Walker B motif; other site 314275003117 arginine finger; other site 314275003118 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314275003119 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314275003120 PAS domain; Region: PAS_8; pfam13188 314275003121 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 314275003122 dimer interface [polypeptide binding]; other site 314275003123 phosphorylation site [posttranslational modification] 314275003124 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 314275003125 ATP binding site [chemical binding]; other site 314275003126 Mg2+ binding site [ion binding]; other site 314275003127 G-X-G motif; other site 314275003128 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 314275003129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275003130 active site 314275003131 phosphorylation site [posttranslational modification] 314275003132 intermolecular recognition site; other site 314275003133 dimerization interface [polypeptide binding]; other site 314275003134 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 314275003135 Walker A motif; other site 314275003136 ATP binding site [chemical binding]; other site 314275003137 Walker B motif; other site 314275003138 arginine finger; other site 314275003139 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314275003140 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 314275003141 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 314275003142 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 314275003143 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 314275003144 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 314275003145 MgtE intracellular N domain; Region: MgtE_N; cl15244 314275003146 FliG C-terminal domain; Region: FliG_C; pfam01706 314275003147 flagellar assembly protein H; Validated; Region: fliH; PRK05687 314275003148 Flagellar assembly protein FliH; Region: FliH; pfam02108 314275003149 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 314275003150 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 314275003151 Walker A motif/ATP binding site; other site 314275003152 Walker B motif; other site 314275003153 Flagellar FliJ protein; Region: FliJ; pfam02050 314275003154 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 314275003155 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 314275003156 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 314275003157 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 314275003158 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 314275003159 flagellar motor switch protein; Validated; Region: fliN; PRK08983 314275003160 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 314275003161 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 314275003162 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 314275003163 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 314275003164 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 314275003165 Phosphate transporter family; Region: PHO4; cl00396 314275003166 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 314275003167 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 314275003168 FHIPEP family; Region: FHIPEP; pfam00771 314275003169 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 314275003170 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314275003171 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 314275003172 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314275003173 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 314275003174 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 314275003175 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275003176 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 314275003177 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 314275003178 DNA binding residues [nucleotide binding] 314275003179 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 314275003180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275003181 active site 314275003182 phosphorylation site [posttranslational modification] 314275003183 intermolecular recognition site; other site 314275003184 dimerization interface [polypeptide binding]; other site 314275003185 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 314275003186 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 314275003187 putative binding surface; other site 314275003188 active site 314275003189 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 314275003190 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 314275003191 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 314275003192 ATP binding site [chemical binding]; other site 314275003193 Mg2+ binding site [ion binding]; other site 314275003194 G-X-G motif; other site 314275003195 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 314275003196 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 314275003197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275003198 active site 314275003199 phosphorylation site [posttranslational modification] 314275003200 intermolecular recognition site; other site 314275003201 dimerization interface [polypeptide binding]; other site 314275003202 CheB methylesterase; Region: CheB_methylest; pfam01339 314275003203 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 314275003204 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 314275003205 Magnesium ion binding site [ion binding]; other site 314275003206 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 314275003207 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 314275003208 putative CheA interaction surface; other site 314275003209 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 314275003210 homoserine O-succinyltransferase; Provisional; Region: PRK05368 314275003211 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 314275003212 proposed active site lysine [active] 314275003213 conserved cys residue [active] 314275003214 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 314275003215 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 314275003216 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 314275003217 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 314275003218 substrate binding pocket [chemical binding]; other site 314275003219 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 314275003220 B12 binding site [chemical binding]; other site 314275003221 cobalt ligand [ion binding]; other site 314275003222 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 314275003223 Protein of unknown function (DUF938); Region: DUF938; pfam06080 314275003224 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 314275003225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275003226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275003227 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 314275003228 putative dimerization interface [polypeptide binding]; other site 314275003229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275003230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275003231 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 314275003232 dimerization interface [polypeptide binding]; other site 314275003233 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 314275003234 active site clefts [active] 314275003235 zinc binding site [ion binding]; other site 314275003236 dimer interface [polypeptide binding]; other site 314275003237 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 314275003238 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 314275003239 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314275003240 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 314275003241 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275003242 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275003243 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275003244 transcriptional regulator BetI; Validated; Region: PRK00767 314275003245 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275003246 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 314275003247 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 314275003248 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 314275003249 active site 314275003250 Zn binding site [ion binding]; other site 314275003251 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 314275003252 Protein of unknown function, DUF482; Region: DUF482; pfam04339 314275003253 recombination regulator RecX; Reviewed; Region: recX; PRK00117 314275003254 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 314275003255 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 314275003256 motif 1; other site 314275003257 active site 314275003258 motif 2; other site 314275003259 motif 3; other site 314275003260 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 314275003261 DHHA1 domain; Region: DHHA1; pfam02272 314275003262 carbon storage regulator; Provisional; Region: PRK01712 314275003263 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 314275003264 oxaloacetate decarboxylase; Provisional; Region: PRK14040 314275003265 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 314275003266 active site 314275003267 catalytic residues [active] 314275003268 metal binding site [ion binding]; metal-binding site 314275003269 homodimer binding site [polypeptide binding]; other site 314275003270 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 314275003271 carboxyltransferase (CT) interaction site; other site 314275003272 biotinylation site [posttranslational modification]; other site 314275003273 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 314275003274 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 314275003275 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314275003276 Walker A/P-loop; other site 314275003277 ATP binding site [chemical binding]; other site 314275003278 Q-loop/lid; other site 314275003279 ABC transporter signature motif; other site 314275003280 Walker B; other site 314275003281 D-loop; other site 314275003282 H-loop/switch region; other site 314275003283 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 314275003284 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314275003285 Walker A/P-loop; other site 314275003286 ATP binding site [chemical binding]; other site 314275003287 Q-loop/lid; other site 314275003288 ABC transporter signature motif; other site 314275003289 Walker B; other site 314275003290 D-loop; other site 314275003291 H-loop/switch region; other site 314275003292 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314275003293 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 314275003294 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 314275003295 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 314275003296 dimer interface [polypeptide binding]; other site 314275003297 conserved gate region; other site 314275003298 putative PBP binding loops; other site 314275003299 ABC-ATPase subunit interface; other site 314275003300 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 314275003301 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 314275003302 dimer interface [polypeptide binding]; other site 314275003303 conserved gate region; other site 314275003304 putative PBP binding loops; other site 314275003305 ABC-ATPase subunit interface; other site 314275003306 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 314275003307 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 314275003308 peptide binding site [polypeptide binding]; other site 314275003309 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 314275003310 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 314275003311 Walker A motif; other site 314275003312 ATP binding site [chemical binding]; other site 314275003313 Walker B motif; other site 314275003314 arginine finger; other site 314275003315 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 314275003316 phage shock protein A; Region: phageshock_pspA; TIGR02977 314275003317 phage shock protein B; Provisional; Region: pspB; PRK09458 314275003318 phage shock protein C; Region: phageshock_pspC; TIGR02978 314275003319 PspC domain; Region: PspC; pfam04024 314275003320 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 314275003321 cofactor binding site; other site 314275003322 metal binding site [ion binding]; metal-binding site 314275003323 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 314275003324 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 314275003325 putative aromatic amino acid binding site; other site 314275003326 PAS domain; Region: PAS; smart00091 314275003327 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 314275003328 Walker A motif; other site 314275003329 ATP binding site [chemical binding]; other site 314275003330 Walker B motif; other site 314275003331 arginine finger; other site 314275003332 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 314275003333 maleylacetoacetate isomerase; Region: maiA; TIGR01262 314275003334 C-terminal domain interface [polypeptide binding]; other site 314275003335 GSH binding site (G-site) [chemical binding]; other site 314275003336 putative dimer interface [polypeptide binding]; other site 314275003337 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 314275003338 dimer interface [polypeptide binding]; other site 314275003339 N-terminal domain interface [polypeptide binding]; other site 314275003340 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 314275003341 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314275003342 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 314275003343 putative DNA binding site [nucleotide binding]; other site 314275003344 putative Zn2+ binding site [ion binding]; other site 314275003345 AsnC family; Region: AsnC_trans_reg; pfam01037 314275003346 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 314275003347 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 314275003348 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 314275003349 NAD binding site [chemical binding]; other site 314275003350 Phe binding site; other site 314275003351 Late competence development protein ComFB; Region: ComFB; pfam10719 314275003352 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 314275003353 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275003354 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 314275003355 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275003356 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275003357 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275003358 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 314275003359 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 314275003360 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 314275003361 TPR motif; other site 314275003362 binding surface 314275003363 TPR repeat; Region: TPR_11; pfam13414 314275003364 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 314275003365 binding surface 314275003366 Tetratricopeptide repeat; Region: TPR_16; pfam13432 314275003367 TPR motif; other site 314275003368 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 314275003369 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 314275003370 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 314275003371 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 314275003372 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314275003373 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 314275003374 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 314275003375 TPR repeat; Region: TPR_11; pfam13414 314275003376 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 314275003377 binding surface 314275003378 TPR motif; other site 314275003379 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 314275003380 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 314275003381 Helicase; Region: Helicase_RecD; pfam05127 314275003382 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275003383 Coenzyme A binding pocket [chemical binding]; other site 314275003384 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 314275003385 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314275003386 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275003387 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 314275003388 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 314275003389 active site 314275003390 ATP binding site [chemical binding]; other site 314275003391 substrate binding site [chemical binding]; other site 314275003392 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 314275003393 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275003394 Coenzyme A binding pocket [chemical binding]; other site 314275003395 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 314275003396 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314275003397 EamA-like transporter family; Region: EamA; pfam00892 314275003398 EamA-like transporter family; Region: EamA; pfam00892 314275003399 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275003400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275003401 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314275003402 dimerization interface [polypeptide binding]; other site 314275003403 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 314275003404 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 314275003405 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 314275003406 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314275003407 active site 314275003408 catalytic tetrad [active] 314275003409 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314275003410 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314275003411 NAD(P) binding site [chemical binding]; other site 314275003412 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 314275003413 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 314275003414 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275003415 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275003416 transcriptional regulator SlyA; Provisional; Region: PRK03573 314275003417 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 314275003418 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 314275003419 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 314275003420 G1 box; other site 314275003421 putative GEF interaction site [polypeptide binding]; other site 314275003422 GTP/Mg2+ binding site [chemical binding]; other site 314275003423 Switch I region; other site 314275003424 G2 box; other site 314275003425 G3 box; other site 314275003426 Switch II region; other site 314275003427 G4 box; other site 314275003428 G5 box; other site 314275003429 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 314275003430 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 314275003431 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 314275003432 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 314275003433 active site 314275003434 HIGH motif; other site 314275003435 KMSK motif region; other site 314275003436 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 314275003437 tRNA binding surface [nucleotide binding]; other site 314275003438 anticodon binding site; other site 314275003439 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 314275003440 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 314275003441 putative active site [active] 314275003442 putative NTP binding site [chemical binding]; other site 314275003443 putative nucleic acid binding site [nucleotide binding]; other site 314275003444 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 314275003445 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314275003446 Predicted flavoprotein [General function prediction only]; Region: COG0431 314275003447 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 314275003448 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 314275003449 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275003450 catalytic residue [active] 314275003451 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 314275003452 putative metal binding site [ion binding]; other site 314275003453 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 314275003454 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 314275003455 Two component regulator propeller; Region: Reg_prop; pfam07494 314275003456 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 314275003457 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275003458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275003459 metal binding site [ion binding]; metal-binding site 314275003460 active site 314275003461 I-site; other site 314275003462 Protein of unknown function, DUF417; Region: DUF417; cl01162 314275003463 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 314275003464 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 314275003465 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 314275003466 putative di-iron ligands [ion binding]; other site 314275003467 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 314275003468 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 314275003469 FAD binding pocket [chemical binding]; other site 314275003470 conserved FAD binding motif [chemical binding]; other site 314275003471 phosphate binding motif [ion binding]; other site 314275003472 beta-alpha-beta structure motif; other site 314275003473 NAD binding pocket [chemical binding]; other site 314275003474 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314275003475 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 314275003476 RF-1 domain; Region: RF-1; pfam00472 314275003477 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 314275003478 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 314275003479 dimer interface [polypeptide binding]; other site 314275003480 putative anticodon binding site; other site 314275003481 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 314275003482 motif 1; other site 314275003483 active site 314275003484 motif 2; other site 314275003485 motif 3; other site 314275003486 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 314275003487 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 314275003488 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 314275003489 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314275003490 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314275003491 active site 314275003492 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 314275003493 putative binding surface; other site 314275003494 active site 314275003495 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314275003496 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314275003497 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275003498 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314275003499 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314275003500 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275003501 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 314275003502 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 314275003503 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314275003504 catalytic residue [active] 314275003505 hypothetical protein; Provisional; Region: PRK04946 314275003506 Smr domain; Region: Smr; pfam01713 314275003507 HemK family putative methylases; Region: hemK_fam; TIGR00536 314275003508 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 314275003509 S-adenosylmethionine binding site [chemical binding]; other site 314275003510 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 314275003511 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 314275003512 Tetramer interface [polypeptide binding]; other site 314275003513 active site 314275003514 FMN-binding site [chemical binding]; other site 314275003515 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 314275003516 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 314275003517 putative substrate translocation pore; other site 314275003518 SpoVR family protein; Provisional; Region: PRK11767 314275003519 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 314275003520 hypothetical protein; Provisional; Region: PRK05325 314275003521 PrkA family serine protein kinase; Provisional; Region: PRK15455 314275003522 AAA ATPase domain; Region: AAA_16; pfam13191 314275003523 Walker A motif; other site 314275003524 ATP binding site [chemical binding]; other site 314275003525 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 314275003526 superoxide dismutase; Provisional; Region: PRK10543 314275003527 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 314275003528 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 314275003529 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 314275003530 putative GSH binding site [chemical binding]; other site 314275003531 catalytic residues [active] 314275003532 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275003533 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275003534 N-terminal plug; other site 314275003535 ligand-binding site [chemical binding]; other site 314275003536 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 314275003537 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275003538 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 314275003539 DNA binding residues [nucleotide binding] 314275003540 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 314275003541 FecR protein; Region: FecR; pfam04773 314275003542 Secretin and TonB N terminus short domain; Region: STN; smart00965 314275003543 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275003544 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275003545 N-terminal plug; other site 314275003546 ligand-binding site [chemical binding]; other site 314275003547 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 314275003548 peroxidase; Provisional; Region: PRK15000 314275003549 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 314275003550 dimer interface [polypeptide binding]; other site 314275003551 decamer (pentamer of dimers) interface [polypeptide binding]; other site 314275003552 catalytic triad [active] 314275003553 peroxidatic and resolving cysteines [active] 314275003554 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 314275003555 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 314275003556 dimer interface [polypeptide binding]; other site 314275003557 catalytic site [active] 314275003558 putative active site [active] 314275003559 putative substrate binding site [chemical binding]; other site 314275003560 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314275003561 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314275003562 ligand binding site [chemical binding]; other site 314275003563 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 314275003564 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 314275003565 active site 314275003566 catalytic site [active] 314275003567 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275003568 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 314275003569 dimer interface [polypeptide binding]; other site 314275003570 active site 314275003571 metal binding site [ion binding]; metal-binding site 314275003572 glutathione binding site [chemical binding]; other site 314275003573 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 314275003574 DNA-binding site [nucleotide binding]; DNA binding site 314275003575 RNA-binding motif; other site 314275003576 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 314275003577 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 314275003578 PA/protease or protease-like domain interface [polypeptide binding]; other site 314275003579 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 314275003580 Peptidase family M28; Region: Peptidase_M28; pfam04389 314275003581 metal binding site [ion binding]; metal-binding site 314275003582 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 314275003583 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314275003584 minor groove reading motif; other site 314275003585 helix-hairpin-helix signature motif; other site 314275003586 substrate binding pocket [chemical binding]; other site 314275003587 active site 314275003588 electron transport complex RsxE subunit; Provisional; Region: PRK12405 314275003589 electron transport complex protein RnfG; Validated; Region: PRK01908 314275003590 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 314275003591 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 314275003592 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 314275003593 SLBB domain; Region: SLBB; pfam10531 314275003594 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 314275003595 electron transport complex protein RnfB; Provisional; Region: PRK05113 314275003596 Putative Fe-S cluster; Region: FeS; pfam04060 314275003597 4Fe-4S binding domain; Region: Fer4; pfam00037 314275003598 electron transport complex protein RsxA; Provisional; Region: PRK05151 314275003599 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 314275003600 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 314275003601 excinuclease ABC subunit B; Provisional; Region: PRK05298 314275003602 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 314275003603 ATP binding site [chemical binding]; other site 314275003604 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 314275003605 nucleotide binding region [chemical binding]; other site 314275003606 ATP-binding site [chemical binding]; other site 314275003607 Ultra-violet resistance protein B; Region: UvrB; pfam12344 314275003608 UvrB/uvrC motif; Region: UVR; pfam02151 314275003609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275003610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275003611 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 314275003612 dimerization interface [polypeptide binding]; other site 314275003613 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 314275003614 Ligand Binding Site [chemical binding]; other site 314275003615 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 314275003616 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 314275003617 asparagine synthetase B; Provisional; Region: asnB; PRK09431 314275003618 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 314275003619 active site 314275003620 dimer interface [polypeptide binding]; other site 314275003621 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 314275003622 Ligand Binding Site [chemical binding]; other site 314275003623 Molecular Tunnel; other site 314275003624 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 314275003625 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 314275003626 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 314275003627 PA/protease or protease-like domain interface [polypeptide binding]; other site 314275003628 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 314275003629 Peptidase family M28; Region: Peptidase_M28; pfam04389 314275003630 metal binding site [ion binding]; metal-binding site 314275003631 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 314275003632 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314275003633 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 314275003634 TrkA-C domain; Region: TrkA_C; pfam02080 314275003635 TrkA-C domain; Region: TrkA_C; pfam02080 314275003636 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314275003637 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 314275003638 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 314275003639 CysD dimerization site [polypeptide binding]; other site 314275003640 G1 box; other site 314275003641 putative GEF interaction site [polypeptide binding]; other site 314275003642 GTP/Mg2+ binding site [chemical binding]; other site 314275003643 Switch I region; other site 314275003644 G2 box; other site 314275003645 G3 box; other site 314275003646 Switch II region; other site 314275003647 G4 box; other site 314275003648 G5 box; other site 314275003649 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 314275003650 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 314275003651 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 314275003652 active site 314275003653 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 314275003654 AAA domain; Region: AAA_18; pfam13238 314275003655 ligand-binding site [chemical binding]; other site 314275003656 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 314275003657 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 314275003658 Active Sites [active] 314275003659 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 314275003660 Na binding site [ion binding]; other site 314275003661 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275003662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275003663 metal binding site [ion binding]; metal-binding site 314275003664 active site 314275003665 I-site; other site 314275003666 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 314275003667 RNA polymerase sigma factor; Provisional; Region: PRK12517 314275003668 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275003669 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 314275003670 DNA binding residues [nucleotide binding] 314275003671 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 314275003672 Oxygen tolerance; Region: BatD; pfam13584 314275003673 von Willebrand factor type A domain; Region: VWA_2; pfam13519 314275003674 metal ion-dependent adhesion site (MIDAS); other site 314275003675 Tetratricopeptide repeat; Region: TPR_16; pfam13432 314275003676 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 314275003677 TPR motif; other site 314275003678 binding surface 314275003679 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 314275003680 metal ion-dependent adhesion site (MIDAS); other site 314275003681 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 314275003682 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 314275003683 Protein of unknown function DUF58; Region: DUF58; pfam01882 314275003684 MoxR-like ATPases [General function prediction only]; Region: COG0714 314275003685 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 314275003686 Walker A motif; other site 314275003687 ATP binding site [chemical binding]; other site 314275003688 Walker B motif; other site 314275003689 arginine finger; other site 314275003690 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 314275003691 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 314275003692 dimer interface [polypeptide binding]; other site 314275003693 active site 314275003694 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 314275003695 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 314275003696 substrate binding site [chemical binding]; other site 314275003697 oxyanion hole (OAH) forming residues; other site 314275003698 trimer interface [polypeptide binding]; other site 314275003699 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 314275003700 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314275003701 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 314275003702 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 314275003703 PAS fold; Region: PAS_3; pfam08447 314275003704 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 314275003705 PAS domain; Region: PAS_9; pfam13426 314275003706 putative active site [active] 314275003707 heme pocket [chemical binding]; other site 314275003708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275003709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275003710 metal binding site [ion binding]; metal-binding site 314275003711 active site 314275003712 I-site; other site 314275003713 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 314275003714 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 314275003715 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314275003716 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275003717 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275003718 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 314275003719 catalytic core [active] 314275003720 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 314275003721 signal recognition particle protein; Provisional; Region: PRK10867 314275003722 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 314275003723 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 314275003724 P loop; other site 314275003725 GTP binding site [chemical binding]; other site 314275003726 Signal peptide binding domain; Region: SRP_SPB; pfam02978 314275003727 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 314275003728 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 314275003729 hydrolase, alpha/beta fold family protein; Region: PLN02824 314275003730 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314275003731 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314275003732 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275003733 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275003734 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275003735 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275003736 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 314275003737 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275003738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275003739 Walker A/P-loop; other site 314275003740 ATP binding site [chemical binding]; other site 314275003741 Q-loop/lid; other site 314275003742 ABC transporter signature motif; other site 314275003743 Walker B; other site 314275003744 D-loop; other site 314275003745 H-loop/switch region; other site 314275003746 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314275003747 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 314275003748 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 314275003749 RimM N-terminal domain; Region: RimM; pfam01782 314275003750 PRC-barrel domain; Region: PRC; pfam05239 314275003751 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 314275003752 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 314275003753 UPF0126 domain; Region: UPF0126; pfam03458 314275003754 Predicted membrane protein [Function unknown]; Region: COG2860 314275003755 UPF0126 domain; Region: UPF0126; pfam03458 314275003756 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 314275003757 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 314275003758 substrate binding site [chemical binding]; other site 314275003759 oxyanion hole (OAH) forming residues; other site 314275003760 trimer interface [polypeptide binding]; other site 314275003761 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 314275003762 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 314275003763 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 314275003764 Chorismate mutase type II; Region: CM_2; cl00693 314275003765 prephenate dehydrogenase; Provisional; Region: PRK06444 314275003766 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 314275003767 Chorismate mutase type II; Region: CM_2; smart00830 314275003768 Prephenate dehydratase; Region: PDT; pfam00800 314275003769 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 314275003770 putative L-Phe binding site [chemical binding]; other site 314275003771 translation initiation factor Sui1; Validated; Region: PRK06824 314275003772 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 314275003773 putative rRNA binding site [nucleotide binding]; other site 314275003774 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 314275003775 anti sigma factor interaction site; other site 314275003776 regulatory phosphorylation site [posttranslational modification]; other site 314275003777 Response regulator receiver domain; Region: Response_reg; pfam00072 314275003778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275003779 active site 314275003780 phosphorylation site [posttranslational modification] 314275003781 intermolecular recognition site; other site 314275003782 dimerization interface [polypeptide binding]; other site 314275003783 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 314275003784 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 314275003785 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 314275003786 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 314275003787 putative metal binding site [ion binding]; other site 314275003788 HAMP domain; Region: HAMP; pfam00672 314275003789 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275003790 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275003791 metal binding site [ion binding]; metal-binding site 314275003792 active site 314275003793 I-site; other site 314275003794 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 314275003795 EF-hand domain pair; Region: EF_hand_5; pfam13499 314275003796 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275003797 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 314275003798 dimer interface [polypeptide binding]; other site 314275003799 phosphorylation site [posttranslational modification] 314275003800 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 314275003801 ATP binding site [chemical binding]; other site 314275003802 Mg2+ binding site [ion binding]; other site 314275003803 G-X-G motif; other site 314275003804 response regulator GlrR; Provisional; Region: PRK15115 314275003805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275003806 active site 314275003807 phosphorylation site [posttranslational modification] 314275003808 intermolecular recognition site; other site 314275003809 dimerization interface [polypeptide binding]; other site 314275003810 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 314275003811 Walker A motif; other site 314275003812 ATP binding site [chemical binding]; other site 314275003813 Walker B motif; other site 314275003814 arginine finger; other site 314275003815 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 314275003816 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314275003817 GAF domain; Region: GAF; pfam01590 314275003818 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314275003819 Protein of unknown function DUF72; Region: DUF72; cl00777 314275003820 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 314275003821 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 314275003822 dimer interface [polypeptide binding]; other site 314275003823 anticodon binding site; other site 314275003824 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 314275003825 homodimer interface [polypeptide binding]; other site 314275003826 motif 1; other site 314275003827 active site 314275003828 motif 2; other site 314275003829 GAD domain; Region: GAD; pfam02938 314275003830 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 314275003831 active site 314275003832 motif 3; other site 314275003833 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 314275003834 nudix motif; other site 314275003835 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 314275003836 active site 314275003837 putative DNA-binding cleft [nucleotide binding]; other site 314275003838 dimer interface [polypeptide binding]; other site 314275003839 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 314275003840 RuvA N terminal domain; Region: RuvA_N; pfam01330 314275003841 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 314275003842 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 314275003843 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 314275003844 Walker A motif; other site 314275003845 ATP binding site [chemical binding]; other site 314275003846 Walker B motif; other site 314275003847 arginine finger; other site 314275003848 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 314275003849 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 314275003850 active site 314275003851 TolQ protein; Region: tolQ; TIGR02796 314275003852 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314275003853 TolR protein; Region: tolR; TIGR02801 314275003854 TolA C-terminal; Region: TolA; pfam06519 314275003855 TolA protein; Region: tolA_full; TIGR02794 314275003856 translocation protein TolB; Provisional; Region: tolB; PRK04792 314275003857 TolB amino-terminal domain; Region: TolB_N; pfam04052 314275003858 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314275003859 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314275003860 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314275003861 quinolinate synthetase; Provisional; Region: PRK09375 314275003862 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 314275003863 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 314275003864 active site 314275003865 nucleophile elbow; other site 314275003866 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 314275003867 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 314275003868 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 314275003869 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 314275003870 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314275003871 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 314275003872 binding surface 314275003873 TPR motif; other site 314275003874 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 314275003875 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275003876 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 314275003877 dimer interface [polypeptide binding]; other site 314275003878 phosphorylation site [posttranslational modification] 314275003879 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 314275003880 ATP binding site [chemical binding]; other site 314275003881 Mg2+ binding site [ion binding]; other site 314275003882 G-X-G motif; other site 314275003883 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275003884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275003885 active site 314275003886 phosphorylation site [posttranslational modification] 314275003887 intermolecular recognition site; other site 314275003888 dimerization interface [polypeptide binding]; other site 314275003889 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275003890 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 314275003891 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 314275003892 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 314275003893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275003894 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 314275003895 PAS domain S-box; Region: sensory_box; TIGR00229 314275003896 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275003897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275003898 metal binding site [ion binding]; metal-binding site 314275003899 active site 314275003900 I-site; other site 314275003901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275003902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275003903 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 314275003904 putative effector binding pocket; other site 314275003905 dimerization interface [polypeptide binding]; other site 314275003906 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 314275003907 FOG: CBS domain [General function prediction only]; Region: COG0517 314275003908 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_24; cd04637 314275003909 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275003910 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275003911 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275003912 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314275003913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275003914 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 314275003915 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 314275003916 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275003917 N-terminal plug; other site 314275003918 ligand-binding site [chemical binding]; other site 314275003919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275003920 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314275003921 Coenzyme A binding pocket [chemical binding]; other site 314275003922 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275003923 Protein of unknown function (DUF983); Region: DUF983; cl02211 314275003924 Protein export membrane protein; Region: SecD_SecF; cl14618 314275003925 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275003926 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275003927 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275003928 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275003929 metal binding site [ion binding]; metal-binding site 314275003930 active site 314275003931 I-site; other site 314275003932 Protein of unknown function (DUF330); Region: DUF330; pfam03886 314275003933 paraquat-inducible protein B; Provisional; Region: PRK10807 314275003934 mce related protein; Region: MCE; pfam02470 314275003935 mce related protein; Region: MCE; pfam02470 314275003936 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 314275003937 Paraquat-inducible protein A; Region: PqiA; pfam04403 314275003938 Paraquat-inducible protein A; Region: PqiA; pfam04403 314275003939 Endomembrane protein 70; Region: EMP70; pfam02990 314275003940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275003941 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 314275003942 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 314275003943 putative dimer interface [polypeptide binding]; other site 314275003944 putative anticodon binding site; other site 314275003945 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 314275003946 homodimer interface [polypeptide binding]; other site 314275003947 motif 1; other site 314275003948 motif 2; other site 314275003949 active site 314275003950 motif 3; other site 314275003951 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 314275003952 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 314275003953 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314275003954 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314275003955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275003956 Coenzyme A binding pocket [chemical binding]; other site 314275003957 Peptidase_C39 like family; Region: DUF3335; pfam11814 314275003958 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 314275003959 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 314275003960 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 314275003961 inhibitor-cofactor binding pocket; inhibition site 314275003962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275003963 catalytic residue [active] 314275003964 biotin synthase; Provisional; Region: PRK15108 314275003965 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 314275003966 FeS/SAM binding site; other site 314275003967 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 314275003968 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 314275003969 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 314275003970 substrate-cofactor binding pocket; other site 314275003971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275003972 catalytic residue [active] 314275003973 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 314275003974 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 314275003975 S-adenosylmethionine binding site [chemical binding]; other site 314275003976 AAA domain; Region: AAA_26; pfam13500 314275003977 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 314275003978 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 314275003979 active site pocket [active] 314275003980 oxyanion hole [active] 314275003981 catalytic triad [active] 314275003982 active site nucleophile [active] 314275003983 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 314275003984 Low molecular weight phosphatase family; Region: LMWPc; cd00115 314275003985 active site 314275003986 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 314275003987 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 314275003988 ABC-ATPase subunit interface; other site 314275003989 dimer interface [polypeptide binding]; other site 314275003990 putative PBP binding regions; other site 314275003991 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314275003992 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314275003993 Walker A/P-loop; other site 314275003994 ATP binding site [chemical binding]; other site 314275003995 Q-loop/lid; other site 314275003996 ABC transporter signature motif; other site 314275003997 Walker B; other site 314275003998 D-loop; other site 314275003999 H-loop/switch region; other site 314275004000 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 314275004001 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 314275004002 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 314275004003 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275004004 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 314275004005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275004006 Walker A/P-loop; other site 314275004007 ATP binding site [chemical binding]; other site 314275004008 Q-loop/lid; other site 314275004009 ABC transporter signature motif; other site 314275004010 Walker B; other site 314275004011 D-loop; other site 314275004012 H-loop/switch region; other site 314275004013 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 314275004014 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 314275004015 FeS/SAM binding site; other site 314275004016 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 314275004017 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314275004018 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314275004019 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275004020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004021 active site 314275004022 phosphorylation site [posttranslational modification] 314275004023 intermolecular recognition site; other site 314275004024 dimerization interface [polypeptide binding]; other site 314275004025 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 314275004026 putative active site [active] 314275004027 Zn binding site [ion binding]; other site 314275004028 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 314275004029 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 314275004030 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 314275004031 FMN binding site [chemical binding]; other site 314275004032 active site 314275004033 catalytic residues [active] 314275004034 substrate binding site [chemical binding]; other site 314275004035 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 314275004036 active site 314275004037 catalytic triad [active] 314275004038 oxyanion hole [active] 314275004039 switch loop; other site 314275004040 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 314275004041 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314275004042 Walker A/P-loop; other site 314275004043 ATP binding site [chemical binding]; other site 314275004044 Q-loop/lid; other site 314275004045 ABC transporter signature motif; other site 314275004046 Walker B; other site 314275004047 D-loop; other site 314275004048 H-loop/switch region; other site 314275004049 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 314275004050 FtsX-like permease family; Region: FtsX; pfam02687 314275004051 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 314275004052 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 314275004053 putative NAD(P) binding site [chemical binding]; other site 314275004054 putative active site [active] 314275004055 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 314275004056 homooctamer interface [polypeptide binding]; other site 314275004057 active site 314275004058 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 314275004059 Domain of unknown function DUF20; Region: UPF0118; pfam01594 314275004060 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275004061 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 314275004062 ATP binding site [chemical binding]; other site 314275004063 Mg2+ binding site [ion binding]; other site 314275004064 G-X-G motif; other site 314275004065 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314275004066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004067 active site 314275004068 phosphorylation site [posttranslational modification] 314275004069 intermolecular recognition site; other site 314275004070 dimerization interface [polypeptide binding]; other site 314275004071 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 314275004072 DNA binding site [nucleotide binding] 314275004073 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 314275004074 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 314275004075 YciI-like protein; Reviewed; Region: PRK11370 314275004076 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 314275004077 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 314275004078 substrate binding site [chemical binding]; other site 314275004079 active site 314275004080 catalytic residues [active] 314275004081 heterodimer interface [polypeptide binding]; other site 314275004082 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 314275004083 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 314275004084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275004085 catalytic residue [active] 314275004086 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 314275004087 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 314275004088 active site 314275004089 ribulose/triose binding site [chemical binding]; other site 314275004090 phosphate binding site [ion binding]; other site 314275004091 substrate (anthranilate) binding pocket [chemical binding]; other site 314275004092 product (indole) binding pocket [chemical binding]; other site 314275004093 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 314275004094 active site 314275004095 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 314275004096 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 314275004097 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 314275004098 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 314275004099 Glutamine amidotransferase class-I; Region: GATase; pfam00117 314275004100 glutamine binding [chemical binding]; other site 314275004101 catalytic triad [active] 314275004102 anthranilate synthase component I; Provisional; Region: PRK13564 314275004103 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 314275004104 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 314275004105 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 314275004106 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 314275004107 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 314275004108 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 314275004109 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 314275004110 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 314275004111 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 314275004112 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 314275004113 RNA binding surface [nucleotide binding]; other site 314275004114 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 314275004115 probable active site [active] 314275004116 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 314275004117 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314275004118 active site 314275004119 catalytic tetrad [active] 314275004120 maltose O-acetyltransferase; Provisional; Region: PRK10092 314275004121 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 314275004122 active site 314275004123 substrate binding site [chemical binding]; other site 314275004124 trimer interface [polypeptide binding]; other site 314275004125 CoA binding site [chemical binding]; other site 314275004126 Uncharacterized conserved protein [Function unknown]; Region: COG3595 314275004127 Protein of unknown function (DUF445); Region: DUF445; pfam04286 314275004128 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 314275004129 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275004130 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 314275004131 Walker A/P-loop; other site 314275004132 ATP binding site [chemical binding]; other site 314275004133 Q-loop/lid; other site 314275004134 ABC transporter signature motif; other site 314275004135 Walker B; other site 314275004136 D-loop; other site 314275004137 H-loop/switch region; other site 314275004138 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 314275004139 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275004140 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275004141 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 314275004142 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 314275004143 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 314275004144 recombination and repair protein; Provisional; Region: PRK10869 314275004145 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314275004146 Walker A/P-loop; other site 314275004147 ATP binding site [chemical binding]; other site 314275004148 Q-loop/lid; other site 314275004149 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314275004150 ABC transporter signature motif; other site 314275004151 Walker B; other site 314275004152 D-loop; other site 314275004153 H-loop/switch region; other site 314275004154 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 314275004155 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 314275004156 dimerization interface [polypeptide binding]; other site 314275004157 DPS ferroxidase diiron center [ion binding]; other site 314275004158 ion pore; other site 314275004159 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 314275004160 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 314275004161 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 314275004162 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 314275004163 putative active site [active] 314275004164 metal binding site [ion binding]; metal-binding site 314275004165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275004166 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 314275004167 NAD(P) binding site [chemical binding]; other site 314275004168 active site 314275004169 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 314275004170 homoserine O-acetyltransferase; Provisional; Region: PRK06765 314275004171 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 314275004172 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 314275004173 fructuronate transporter; Provisional; Region: PRK10034; cl15264 314275004174 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275004175 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275004176 N-terminal plug; other site 314275004177 ligand-binding site [chemical binding]; other site 314275004178 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275004179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004180 active site 314275004181 phosphorylation site [posttranslational modification] 314275004182 intermolecular recognition site; other site 314275004183 dimerization interface [polypeptide binding]; other site 314275004184 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 314275004185 DNA binding residues [nucleotide binding] 314275004186 dimerization interface [polypeptide binding]; other site 314275004187 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275004188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 314275004189 Transposase; Region: HTH_Tnp_1; cl17663 314275004190 Integrase core domain; Region: rve; pfam00665 314275004191 DDE domain; Region: DDE_Tnp_IS240; pfam13610 314275004192 Integrase core domain; Region: rve_3; pfam13683 314275004193 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 314275004194 Na binding site [ion binding]; other site 314275004195 PAS fold; Region: PAS_7; pfam12860 314275004196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275004197 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 314275004198 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 314275004199 dimer interface [polypeptide binding]; other site 314275004200 phosphorylation site [posttranslational modification] 314275004201 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 314275004202 ATP binding site [chemical binding]; other site 314275004203 Mg2+ binding site [ion binding]; other site 314275004204 G-X-G motif; other site 314275004205 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 314275004206 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 314275004207 dimer interface [polypeptide binding]; other site 314275004208 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 314275004209 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 314275004210 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 314275004211 nucleotide binding site [chemical binding]; other site 314275004212 chaperone protein DnaJ; Provisional; Region: PRK10767 314275004213 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 314275004214 HSP70 interaction site [polypeptide binding]; other site 314275004215 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 314275004216 substrate binding site [polypeptide binding]; other site 314275004217 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 314275004218 Zn binding sites [ion binding]; other site 314275004219 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 314275004220 dimer interface [polypeptide binding]; other site 314275004221 Cytochrome C' Region: Cytochrom_C_2; pfam01322 314275004222 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 314275004223 PAS domain; Region: PAS_9; pfam13426 314275004224 putative active site [active] 314275004225 heme pocket [chemical binding]; other site 314275004226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004227 metal binding site [ion binding]; metal-binding site 314275004228 active site 314275004229 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 314275004230 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 314275004231 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 314275004232 acyl-activating enzyme (AAE) consensus motif; other site 314275004233 putative AMP binding site [chemical binding]; other site 314275004234 putative active site [active] 314275004235 putative CoA binding site [chemical binding]; other site 314275004236 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 314275004237 dihydrodipicolinate reductase; Provisional; Region: PRK00048 314275004238 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 314275004239 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 314275004240 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 314275004241 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 314275004242 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 314275004243 catalytic site [active] 314275004244 subunit interface [polypeptide binding]; other site 314275004245 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 314275004246 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314275004247 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 314275004248 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 314275004249 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314275004250 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314275004251 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 314275004252 IMP binding site; other site 314275004253 dimer interface [polypeptide binding]; other site 314275004254 interdomain contacts; other site 314275004255 partial ornithine binding site; other site 314275004256 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 314275004257 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 314275004258 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 314275004259 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 314275004260 dimer interface [polypeptide binding]; other site 314275004261 ADP-ribose binding site [chemical binding]; other site 314275004262 active site 314275004263 nudix motif; other site 314275004264 metal binding site [ion binding]; metal-binding site 314275004265 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 314275004266 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 314275004267 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 314275004268 putative dimer interface [polypeptide binding]; other site 314275004269 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 314275004270 propionate/acetate kinase; Provisional; Region: PRK12379 314275004271 phosphate acetyltransferase; Reviewed; Region: PRK05632 314275004272 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314275004273 DRTGG domain; Region: DRTGG; pfam07085 314275004274 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 314275004275 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 314275004276 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 314275004277 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 314275004278 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 314275004279 putative active site [active] 314275004280 catalytic triad [active] 314275004281 putative dimer interface [polypeptide binding]; other site 314275004282 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 314275004283 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 314275004284 Transporter associated domain; Region: CorC_HlyC; smart01091 314275004285 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 314275004286 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 314275004287 PhoH-like protein; Region: PhoH; pfam02562 314275004288 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 314275004289 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 314275004290 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 314275004291 FeS/SAM binding site; other site 314275004292 TRAM domain; Region: TRAM; pfam01938 314275004293 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 314275004294 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314275004295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314275004296 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275004297 Uncharacterized conserved protein [Function unknown]; Region: COG2128 314275004298 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314275004299 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275004300 N-terminal plug; other site 314275004301 ligand-binding site [chemical binding]; other site 314275004302 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 314275004303 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 314275004304 Transcriptional activator [Transcription]; Region: ChrR; COG3806 314275004305 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 314275004306 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 314275004307 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314275004308 amino acid carrier protein; Region: agcS; TIGR00835 314275004309 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 314275004310 active site 314275004311 GTP-binding protein YchF; Reviewed; Region: PRK09601 314275004312 YchF GTPase; Region: YchF; cd01900 314275004313 G1 box; other site 314275004314 GTP/Mg2+ binding site [chemical binding]; other site 314275004315 Switch I region; other site 314275004316 G2 box; other site 314275004317 Switch II region; other site 314275004318 G3 box; other site 314275004319 G4 box; other site 314275004320 G5 box; other site 314275004321 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 314275004322 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 314275004323 putative active site [active] 314275004324 catalytic residue [active] 314275004325 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 314275004326 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 314275004327 5S rRNA interface [nucleotide binding]; other site 314275004328 CTC domain interface [polypeptide binding]; other site 314275004329 L16 interface [polypeptide binding]; other site 314275004330 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 314275004331 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 314275004332 putative NAD(P) binding site [chemical binding]; other site 314275004333 putative substrate binding site [chemical binding]; other site 314275004334 catalytic Zn binding site [ion binding]; other site 314275004335 structural Zn binding site [ion binding]; other site 314275004336 dimer interface [polypeptide binding]; other site 314275004337 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 314275004338 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314275004339 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 314275004340 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 314275004341 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 314275004342 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 314275004343 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 314275004344 tRNA; other site 314275004345 putative tRNA binding site [nucleotide binding]; other site 314275004346 putative NADP binding site [chemical binding]; other site 314275004347 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 314275004348 peptide chain release factor 1; Validated; Region: prfA; PRK00591 314275004349 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314275004350 RF-1 domain; Region: RF-1; pfam00472 314275004351 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 314275004352 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 314275004353 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275004354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004355 active site 314275004356 phosphorylation site [posttranslational modification] 314275004357 intermolecular recognition site; other site 314275004358 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 314275004359 dimerization interface [polypeptide binding]; other site 314275004360 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 314275004361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275004362 Zn2+ binding site [ion binding]; other site 314275004363 Mg2+ binding site [ion binding]; other site 314275004364 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 314275004365 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 314275004366 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 314275004367 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 314275004368 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275004369 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 314275004370 dimerization interface [polypeptide binding]; other site 314275004371 substrate binding pocket [chemical binding]; other site 314275004372 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 314275004373 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 314275004374 Protein of unknown function (DUF423); Region: DUF423; pfam04241 314275004375 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 314275004376 FtsJ-like methyltransferase; Region: FtsJ; cl17430 314275004377 elongation factor G; Reviewed; Region: PRK00007 314275004378 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 314275004379 G1 box; other site 314275004380 putative GEF interaction site [polypeptide binding]; other site 314275004381 GTP/Mg2+ binding site [chemical binding]; other site 314275004382 Switch I region; other site 314275004383 G2 box; other site 314275004384 G3 box; other site 314275004385 Switch II region; other site 314275004386 G4 box; other site 314275004387 G5 box; other site 314275004388 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 314275004389 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 314275004390 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 314275004391 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 314275004392 active site 314275004393 Catalytic domain of Protein Kinases; Region: PKc; cd00180 314275004394 active site 314275004395 ATP binding site [chemical binding]; other site 314275004396 substrate binding site [chemical binding]; other site 314275004397 activation loop (A-loop); other site 314275004398 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 314275004399 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 314275004400 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 314275004401 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 314275004402 Protein of unknown function DUF58; Region: DUF58; pfam01882 314275004403 MoxR-like ATPases [General function prediction only]; Region: COG0714 314275004404 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 314275004405 Walker A motif; other site 314275004406 ATP binding site [chemical binding]; other site 314275004407 Walker B motif; other site 314275004408 arginine finger; other site 314275004409 SeqA protein; Region: SeqA; cl11470 314275004410 SeqA protein; Region: SeqA; cl11470 314275004411 phosphoglucomutase; Validated; Region: PRK07564 314275004412 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 314275004413 active site 314275004414 substrate binding site [chemical binding]; other site 314275004415 metal binding site [ion binding]; metal-binding site 314275004416 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 314275004417 homodimer interface [polypeptide binding]; other site 314275004418 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 314275004419 active site pocket [active] 314275004420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004421 metal binding site [ion binding]; metal-binding site 314275004422 active site 314275004423 I-site; other site 314275004424 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 314275004425 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 314275004426 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 314275004427 putative active site [active] 314275004428 Zn binding site [ion binding]; other site 314275004429 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 314275004430 nucleotide binding site/active site [active] 314275004431 HIT family signature motif; other site 314275004432 catalytic residue [active] 314275004433 hypothetical protein; Provisional; Region: PRK02877 314275004434 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314275004435 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 314275004436 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 314275004437 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 314275004438 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 314275004439 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 314275004440 metal binding site [ion binding]; metal-binding site 314275004441 dimer interface [polypeptide binding]; other site 314275004442 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 314275004443 ArsC family; Region: ArsC; pfam03960 314275004444 putative catalytic residues [active] 314275004445 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 314275004446 HPr interaction site; other site 314275004447 glycerol kinase (GK) interaction site [polypeptide binding]; other site 314275004448 active site 314275004449 phosphorylation site [posttranslational modification] 314275004450 Uncharacterized conserved protein [Function unknown]; Region: COG3603 314275004451 Family description; Region: ACT_7; pfam13840 314275004452 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 314275004453 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275004454 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 314275004455 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 314275004456 dimer interface [polypeptide binding]; other site 314275004457 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 314275004458 active site 314275004459 Fe binding site [ion binding]; other site 314275004460 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314275004461 MarR family; Region: MarR_2; pfam12802 314275004462 MarR family; Region: MarR_2; cl17246 314275004463 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 314275004464 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 314275004465 cell division protein FtsZ; Validated; Region: PRK09330 314275004466 nucleotide binding site [chemical binding]; other site 314275004467 SulA interaction site; other site 314275004468 WYL domain; Region: WYL; pfam13280 314275004469 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 314275004470 putative active site [active] 314275004471 heme pocket [chemical binding]; other site 314275004472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275004473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004474 metal binding site [ion binding]; metal-binding site 314275004475 active site 314275004476 I-site; other site 314275004477 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 314275004478 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275004479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004480 metal binding site [ion binding]; metal-binding site 314275004481 active site 314275004482 I-site; other site 314275004483 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 314275004484 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275004485 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275004486 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275004487 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275004488 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 314275004489 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 314275004490 TrkA-N domain; Region: TrkA_N; pfam02254 314275004491 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314275004492 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 314275004493 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314275004494 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 314275004495 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 314275004496 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314275004497 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314275004498 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 314275004499 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 314275004500 catalytic loop [active] 314275004501 iron binding site [ion binding]; other site 314275004502 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 314275004503 Predicted transcriptional regulators [Transcription]; Region: COG1733 314275004504 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 314275004505 PAS domain S-box; Region: sensory_box; TIGR00229 314275004506 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 314275004507 putative active site [active] 314275004508 heme pocket [chemical binding]; other site 314275004509 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 314275004510 PAS fold; Region: PAS_3; pfam08447 314275004511 putative active site [active] 314275004512 heme pocket [chemical binding]; other site 314275004513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275004514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004515 metal binding site [ion binding]; metal-binding site 314275004516 active site 314275004517 I-site; other site 314275004518 Protein of unknown function (DUF989); Region: DUF989; pfam06181 314275004519 Predicted membrane protein [Function unknown]; Region: COG3748 314275004520 Cytochrome c; Region: Cytochrom_C; pfam00034 314275004521 guanine deaminase; Provisional; Region: PRK09228 314275004522 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 314275004523 active site 314275004524 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 314275004525 active site 314275004526 homotetramer interface [polypeptide binding]; other site 314275004527 putative OHCU decarboxylase; Provisional; Region: PRK13798 314275004528 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 314275004529 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 314275004530 XdhC Rossmann domain; Region: XdhC_C; pfam13478 314275004531 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 314275004532 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 314275004533 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314275004534 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 314275004535 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 314275004536 catalytic loop [active] 314275004537 iron binding site [ion binding]; other site 314275004538 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 314275004539 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 314275004540 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 314275004541 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275004542 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 314275004543 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 314275004544 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 314275004545 active site 314275004546 catalytic site [active] 314275004547 tetramer interface [polypeptide binding]; other site 314275004548 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 314275004549 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 314275004550 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 314275004551 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 314275004552 active site 314275004553 purine riboside binding site [chemical binding]; other site 314275004554 Hpt domain; Region: Hpt; pfam01627 314275004555 putative binding surface; other site 314275004556 active site 314275004557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004558 active site 314275004559 phosphorylation site [posttranslational modification] 314275004560 intermolecular recognition site; other site 314275004561 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 314275004562 Response regulator receiver domain; Region: Response_reg; pfam00072 314275004563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004564 active site 314275004565 phosphorylation site [posttranslational modification] 314275004566 intermolecular recognition site; other site 314275004567 dimerization interface [polypeptide binding]; other site 314275004568 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275004569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004570 metal binding site [ion binding]; metal-binding site 314275004571 active site 314275004572 I-site; other site 314275004573 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275004574 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 314275004575 dimer interface [polypeptide binding]; other site 314275004576 phosphorylation site [posttranslational modification] 314275004577 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 314275004578 ATP binding site [chemical binding]; other site 314275004579 Mg2+ binding site [ion binding]; other site 314275004580 G-X-G motif; other site 314275004581 Response regulator receiver domain; Region: Response_reg; pfam00072 314275004582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004583 active site 314275004584 phosphorylation site [posttranslational modification] 314275004585 intermolecular recognition site; other site 314275004586 dimerization interface [polypeptide binding]; other site 314275004587 Purine nucleoside permease (NUP); Region: NUP; cl17832 314275004588 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275004589 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275004590 xanthine permease; Region: pbuX; TIGR03173 314275004591 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 314275004592 allantoate amidohydrolase; Reviewed; Region: PRK09290 314275004593 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 314275004594 active site 314275004595 metal binding site [ion binding]; metal-binding site 314275004596 dimer interface [polypeptide binding]; other site 314275004597 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 314275004598 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275004599 catalytic residue [active] 314275004600 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314275004601 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 314275004602 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 314275004603 Amidase; Region: Amidase; cl11426 314275004604 indole-3-acetamide amidohydrolase; Region: PLN02722 314275004605 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 314275004606 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 314275004607 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314275004608 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 314275004609 putative active site [active] 314275004610 CAAX protease self-immunity; Region: Abi; pfam02517 314275004611 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275004612 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275004613 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 314275004614 pteridine reductase; Provisional; Region: PRK09135 314275004615 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 314275004616 NADP binding site [chemical binding]; other site 314275004617 substrate binding pocket [chemical binding]; other site 314275004618 active site 314275004619 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 314275004620 Phosphotransferase enzyme family; Region: APH; pfam01636 314275004621 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 314275004622 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 314275004623 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 314275004624 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 314275004625 active site 314275004626 dimer interface [polypeptide binding]; other site 314275004627 motif 1; other site 314275004628 motif 2; other site 314275004629 motif 3; other site 314275004630 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 314275004631 anticodon binding site; other site 314275004632 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 314275004633 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 314275004634 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 314275004635 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 314275004636 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 314275004637 23S rRNA binding site [nucleotide binding]; other site 314275004638 L21 binding site [polypeptide binding]; other site 314275004639 L13 binding site [polypeptide binding]; other site 314275004640 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 314275004641 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 314275004642 Substrate binding site; other site 314275004643 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 314275004644 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 314275004645 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 314275004646 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314275004647 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 314275004648 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314275004649 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 314275004650 SLBB domain; Region: SLBB; pfam10531 314275004651 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 314275004652 Chain length determinant protein; Region: Wzz; pfam02706 314275004653 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 314275004654 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 314275004655 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314275004656 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 314275004657 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314275004658 O-Antigen ligase; Region: Wzy_C; pfam04932 314275004659 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275004660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004661 metal binding site [ion binding]; metal-binding site 314275004662 active site 314275004663 I-site; other site 314275004664 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 314275004665 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 314275004666 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275004667 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 314275004668 putative ADP-binding pocket [chemical binding]; other site 314275004669 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275004670 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 314275004671 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275004672 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 314275004673 active site 314275004674 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275004675 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 314275004676 active site 314275004677 colanic acid exporter; Provisional; Region: PRK10459 314275004678 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314275004679 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 314275004680 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 314275004681 putative ADP-binding pocket [chemical binding]; other site 314275004682 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 314275004683 Right handed beta helix region; Region: Beta_helix; pfam13229 314275004684 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275004685 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 314275004686 transposase; Validated; Region: PRK08181 314275004687 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 314275004688 Walker A motif; other site 314275004689 ATP binding site [chemical binding]; other site 314275004690 Walker B motif; other site 314275004691 Integrase core domain; Region: rve; pfam00665 314275004692 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275004693 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 314275004694 active site 314275004695 Transposase domain (DUF772); Region: DUF772; pfam05598 314275004696 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 314275004697 DDE superfamily endonuclease; Region: DDE_4; cl17710 314275004698 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 314275004699 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 314275004700 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 314275004701 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275004702 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 314275004703 putative ADP-binding pocket [chemical binding]; other site 314275004704 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275004705 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 314275004706 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275004707 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 314275004708 S-adenosylmethionine binding site [chemical binding]; other site 314275004709 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 314275004710 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 314275004711 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 314275004712 dimer interface [polypeptide binding]; other site 314275004713 motif 1; other site 314275004714 active site 314275004715 motif 2; other site 314275004716 motif 3; other site 314275004717 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 314275004718 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 314275004719 putative tRNA-binding site [nucleotide binding]; other site 314275004720 B3/4 domain; Region: B3_4; pfam03483 314275004721 tRNA synthetase B5 domain; Region: B5; smart00874 314275004722 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 314275004723 dimer interface [polypeptide binding]; other site 314275004724 motif 1; other site 314275004725 motif 3; other site 314275004726 motif 2; other site 314275004727 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 314275004728 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 314275004729 IHF dimer interface [polypeptide binding]; other site 314275004730 IHF - DNA interface [nucleotide binding]; other site 314275004731 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 314275004732 putative deacylase active site [active] 314275004733 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 314275004734 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 314275004735 active site 314275004736 beta-hexosaminidase; Provisional; Region: PRK05337 314275004737 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 314275004738 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 314275004739 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 314275004740 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 314275004741 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 314275004742 transcription-repair coupling factor; Provisional; Region: PRK10689 314275004743 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 314275004744 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 314275004745 ATP binding site [chemical binding]; other site 314275004746 putative Mg++ binding site [ion binding]; other site 314275004747 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 314275004748 nucleotide binding region [chemical binding]; other site 314275004749 ATP-binding site [chemical binding]; other site 314275004750 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 314275004751 PilZ domain; Region: PilZ; pfam07238 314275004752 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314275004753 FtsX-like permease family; Region: FtsX; pfam02687 314275004754 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314275004755 active site 314275004756 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 314275004757 dimer interface [polypeptide binding]; other site 314275004758 phosphorylation site [posttranslational modification] 314275004759 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 314275004760 ATP binding site [chemical binding]; other site 314275004761 Mg2+ binding site [ion binding]; other site 314275004762 G-X-G motif; other site 314275004763 FIST N domain; Region: FIST; pfam08495 314275004764 FIST C domain; Region: FIST_C; pfam10442 314275004765 Predicted membrane protein [Function unknown]; Region: COG3235 314275004766 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 314275004767 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 314275004768 putative catalytic site [active] 314275004769 putative phosphate binding site [ion binding]; other site 314275004770 active site 314275004771 metal binding site A [ion binding]; metal-binding site 314275004772 DNA binding site [nucleotide binding] 314275004773 putative AP binding site [nucleotide binding]; other site 314275004774 putative metal binding site B [ion binding]; other site 314275004775 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 314275004776 Fe-S metabolism associated domain; Region: SufE; cl00951 314275004777 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 314275004778 HDOD domain; Region: HDOD; pfam08668 314275004779 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 314275004780 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 314275004781 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 314275004782 active site 314275004783 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 314275004784 active site 2 [active] 314275004785 active site 1 [active] 314275004786 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 314275004787 D-galactonate transporter; Region: 2A0114; TIGR00893 314275004788 putative substrate translocation pore; other site 314275004789 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 314275004790 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 314275004791 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 314275004792 ligand binding site; other site 314275004793 oligomer interface; other site 314275004794 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 314275004795 dimer interface [polypeptide binding]; other site 314275004796 N-terminal domain interface [polypeptide binding]; other site 314275004797 sulfate 1 binding site; other site 314275004798 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 314275004799 putative hydrophobic ligand binding site [chemical binding]; other site 314275004800 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 314275004801 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 314275004802 active site 314275004803 catalytic residues [active] 314275004804 metal binding site [ion binding]; metal-binding site 314275004805 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 314275004806 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314275004807 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314275004808 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 314275004809 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 314275004810 carboxyltransferase (CT) interaction site; other site 314275004811 biotinylation site [posttranslational modification]; other site 314275004812 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 314275004813 enoyl-CoA hydratase; Provisional; Region: PRK05995 314275004814 substrate binding site [chemical binding]; other site 314275004815 oxyanion hole (OAH) forming residues; other site 314275004816 trimer interface [polypeptide binding]; other site 314275004817 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 314275004818 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 314275004819 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 314275004820 isovaleryl-CoA dehydrogenase; Region: PLN02519 314275004821 substrate binding site [chemical binding]; other site 314275004822 FAD binding site [chemical binding]; other site 314275004823 catalytic base [active] 314275004824 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 314275004825 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 314275004826 DNA binding residues [nucleotide binding] 314275004827 putative dimer interface [polypeptide binding]; other site 314275004828 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 314275004829 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 314275004830 dimer interface [polypeptide binding]; other site 314275004831 active site 314275004832 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314275004833 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314275004834 kynureninase; Region: kynureninase; TIGR01814 314275004835 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 314275004836 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275004837 catalytic residue [active] 314275004838 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314275004839 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 314275004840 substrate binding pocket [chemical binding]; other site 314275004841 membrane-bound complex binding site; other site 314275004842 hinge residues; other site 314275004843 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275004844 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004845 metal binding site [ion binding]; metal-binding site 314275004846 active site 314275004847 I-site; other site 314275004848 Protein of unknown function (DUF342); Region: DUF342; pfam03961 314275004849 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 314275004850 exonuclease I; Provisional; Region: sbcB; PRK11779 314275004851 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 314275004852 active site 314275004853 catalytic site [active] 314275004854 substrate binding site [chemical binding]; other site 314275004855 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 314275004856 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314275004857 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 314275004858 putative active site [active] 314275004859 heme pocket [chemical binding]; other site 314275004860 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 314275004861 phosphorylation site [posttranslational modification] 314275004862 dimer interface [polypeptide binding]; other site 314275004863 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 314275004864 ATP binding site [chemical binding]; other site 314275004865 Mg2+ binding site [ion binding]; other site 314275004866 G-X-G motif; other site 314275004867 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275004868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275004869 active site 314275004870 phosphorylation site [posttranslational modification] 314275004871 intermolecular recognition site; other site 314275004872 dimerization interface [polypeptide binding]; other site 314275004873 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 314275004874 catalytic nucleophile [active] 314275004875 FOG: CBS domain [General function prediction only]; Region: COG0517 314275004876 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_16; cd04629 314275004877 Phytase; Region: Phytase; cl17685 314275004878 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 314275004879 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314275004880 active site 314275004881 metal binding site [ion binding]; metal-binding site 314275004882 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 314275004883 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275004884 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275004885 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275004886 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275004887 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275004888 metal binding site [ion binding]; metal-binding site 314275004889 active site 314275004890 I-site; other site 314275004891 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 314275004892 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 314275004893 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 314275004894 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 314275004895 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 314275004896 ATP binding site [chemical binding]; other site 314275004897 putative Mg++ binding site [ion binding]; other site 314275004898 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 314275004899 nucleotide binding region [chemical binding]; other site 314275004900 ATP-binding site [chemical binding]; other site 314275004901 Helicase associated domain (HA2); Region: HA2; pfam04408 314275004902 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 314275004903 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 314275004904 PilZ domain; Region: PilZ; pfam07238 314275004905 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 314275004906 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 314275004907 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 314275004908 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 314275004909 putative RNA binding site [nucleotide binding]; other site 314275004910 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 314275004911 S-adenosylmethionine binding site [chemical binding]; other site 314275004912 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 314275004913 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 314275004914 NAD(P) binding site [chemical binding]; other site 314275004915 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 314275004916 RNA/DNA hybrid binding site [nucleotide binding]; other site 314275004917 active site 314275004918 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 314275004919 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 314275004920 active site 314275004921 catalytic site [active] 314275004922 substrate binding site [chemical binding]; other site 314275004923 TIGR03503 family protein; Region: TIGR03503 314275004924 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 314275004925 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 314275004926 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 314275004927 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 314275004928 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314275004929 Walker A/P-loop; other site 314275004930 ATP binding site [chemical binding]; other site 314275004931 Q-loop/lid; other site 314275004932 ABC transporter signature motif; other site 314275004933 Walker B; other site 314275004934 D-loop; other site 314275004935 H-loop/switch region; other site 314275004936 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 314275004937 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314275004938 FtsX-like permease family; Region: FtsX; pfam02687 314275004939 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314275004940 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 314275004941 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 314275004942 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 314275004943 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 314275004944 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 314275004945 succinylarginine dihydrolase; Provisional; Region: PRK13281 314275004946 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 314275004947 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 314275004948 active site 314275004949 interdomain interaction site; other site 314275004950 putative metal-binding site [ion binding]; other site 314275004951 nucleotide binding site [chemical binding]; other site 314275004952 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 314275004953 domain I; other site 314275004954 DNA binding groove [nucleotide binding] 314275004955 phosphate binding site [ion binding]; other site 314275004956 domain II; other site 314275004957 domain III; other site 314275004958 nucleotide binding site [chemical binding]; other site 314275004959 catalytic site [active] 314275004960 domain IV; other site 314275004961 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314275004962 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314275004963 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 314275004964 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 314275004965 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 314275004966 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 314275004967 Leishmanolysin; Region: Peptidase_M8; pfam01457 314275004968 active site 314275004969 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 314275004970 GTP binding site; other site 314275004971 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 314275004972 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 314275004973 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 314275004974 putative molybdopterin cofactor binding site [chemical binding]; other site 314275004975 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 314275004976 putative molybdopterin cofactor binding site; other site 314275004977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275004978 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314275004979 Coenzyme A binding pocket [chemical binding]; other site 314275004980 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 314275004981 motif II; other site 314275004982 Ecdysteroid kinase; Region: EcKinase; cl17738 314275004983 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 314275004984 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 314275004985 homodimer interface [polypeptide binding]; other site 314275004986 oligonucleotide binding site [chemical binding]; other site 314275004987 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 314275004988 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 314275004989 RNA binding surface [nucleotide binding]; other site 314275004990 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314275004991 active site 314275004992 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 314275004993 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 314275004994 motif II; other site 314275004995 Maf-like protein; Region: Maf; pfam02545 314275004996 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 314275004997 active site 314275004998 dimer interface [polypeptide binding]; other site 314275004999 hypothetical protein; Provisional; Region: PRK11193 314275005000 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 314275005001 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 314275005002 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314275005003 acyl carrier protein; Provisional; Region: acpP; PRK00982 314275005004 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 314275005005 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 314275005006 dimer interface [polypeptide binding]; other site 314275005007 active site 314275005008 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 314275005009 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 314275005010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275005011 catalytic residue [active] 314275005012 YceG-like family; Region: YceG; pfam02618 314275005013 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 314275005014 dimerization interface [polypeptide binding]; other site 314275005015 thymidylate kinase; Validated; Region: tmk; PRK00698 314275005016 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 314275005017 TMP-binding site; other site 314275005018 ATP-binding site [chemical binding]; other site 314275005019 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 314275005020 DNA polymerase III subunit delta'; Validated; Region: PRK08485 314275005021 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 314275005022 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314275005023 active site 314275005024 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 314275005025 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 314275005026 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 314275005027 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314275005028 NAD(P) binding site [chemical binding]; other site 314275005029 putative active site [active] 314275005030 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 314275005031 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 314275005032 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275005033 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275005034 metal binding site [ion binding]; metal-binding site 314275005035 active site 314275005036 I-site; other site 314275005037 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 314275005038 active site 314275005039 Zn binding site [ion binding]; other site 314275005040 Tic20-like protein; Region: Tic20; pfam09685 314275005041 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 314275005042 classical (c) SDRs; Region: SDR_c; cd05233 314275005043 NAD(P) binding site [chemical binding]; other site 314275005044 active site 314275005045 haloalkane dehalogenase; Provisional; Region: PRK00870 314275005046 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 314275005047 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 314275005048 substrate binding site [chemical binding]; other site 314275005049 oxyanion hole (OAH) forming residues; other site 314275005050 trimer interface [polypeptide binding]; other site 314275005051 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 314275005052 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314275005053 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314275005054 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 314275005055 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 314275005056 dimer interface [polypeptide binding]; other site 314275005057 active site 314275005058 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 314275005059 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 314275005060 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275005061 active site 314275005062 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 314275005063 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 314275005064 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 314275005065 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 314275005066 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 314275005067 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 314275005068 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 314275005069 motif II; other site 314275005070 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 314275005071 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 314275005072 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 314275005073 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 314275005074 Transposase domain (DUF772); Region: DUF772; pfam05598 314275005075 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 314275005076 DDE superfamily endonuclease; Region: DDE_4; cl17710 314275005077 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 314275005078 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 314275005079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275005080 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 314275005081 substrate binding pocket [chemical binding]; other site 314275005082 dimerization interface [polypeptide binding]; other site 314275005083 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 314275005084 active site 2 [active] 314275005085 active site 1 [active] 314275005086 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275005087 Conserved TM helix; Region: TM_helix; pfam05552 314275005088 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275005089 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275005090 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275005091 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275005092 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 314275005093 aromatic arch; other site 314275005094 DCoH dimer interaction site [polypeptide binding]; other site 314275005095 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 314275005096 DCoH tetramer interaction site [polypeptide binding]; other site 314275005097 substrate binding site [chemical binding]; other site 314275005098 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 314275005099 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 314275005100 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 314275005101 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 314275005102 PAS domain S-box; Region: sensory_box; TIGR00229 314275005103 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 314275005104 putative active site [active] 314275005105 heme pocket [chemical binding]; other site 314275005106 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 314275005107 PAS fold; Region: PAS_3; pfam08447 314275005108 putative active site [active] 314275005109 heme pocket [chemical binding]; other site 314275005110 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 314275005111 dimer interface [polypeptide binding]; other site 314275005112 phosphorylation site [posttranslational modification] 314275005113 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 314275005114 ATP binding site [chemical binding]; other site 314275005115 Mg2+ binding site [ion binding]; other site 314275005116 G-X-G motif; other site 314275005117 Response regulator receiver domain; Region: Response_reg; pfam00072 314275005118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275005119 active site 314275005120 phosphorylation site [posttranslational modification] 314275005121 intermolecular recognition site; other site 314275005122 dimerization interface [polypeptide binding]; other site 314275005123 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 314275005124 putative binding surface; other site 314275005125 active site 314275005126 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 314275005127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275005128 active site 314275005129 phosphorylation site [posttranslational modification] 314275005130 intermolecular recognition site; other site 314275005131 dimerization interface [polypeptide binding]; other site 314275005132 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275005133 Zn2+ binding site [ion binding]; other site 314275005134 Mg2+ binding site [ion binding]; other site 314275005135 ribosome maturation protein RimP; Reviewed; Region: PRK00092 314275005136 Sm and related proteins; Region: Sm_like; cl00259 314275005137 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 314275005138 putative oligomer interface [polypeptide binding]; other site 314275005139 putative RNA binding site [nucleotide binding]; other site 314275005140 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 314275005141 NusA N-terminal domain; Region: NusA_N; pfam08529 314275005142 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 314275005143 RNA binding site [nucleotide binding]; other site 314275005144 homodimer interface [polypeptide binding]; other site 314275005145 NusA-like KH domain; Region: KH_5; pfam13184 314275005146 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 314275005147 G-X-X-G motif; other site 314275005148 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 314275005149 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 314275005150 translation initiation factor IF-2; Region: IF-2; TIGR00487 314275005151 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 314275005152 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 314275005153 G1 box; other site 314275005154 putative GEF interaction site [polypeptide binding]; other site 314275005155 GTP/Mg2+ binding site [chemical binding]; other site 314275005156 Switch I region; other site 314275005157 G2 box; other site 314275005158 G3 box; other site 314275005159 Switch II region; other site 314275005160 G4 box; other site 314275005161 G5 box; other site 314275005162 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 314275005163 Translation-initiation factor 2; Region: IF-2; pfam11987 314275005164 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 314275005165 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 314275005166 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 314275005167 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 314275005168 RNA binding site [nucleotide binding]; other site 314275005169 active site 314275005170 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 314275005171 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 314275005172 16S/18S rRNA binding site [nucleotide binding]; other site 314275005173 S13e-L30e interaction site [polypeptide binding]; other site 314275005174 25S rRNA binding site [nucleotide binding]; other site 314275005175 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 314275005176 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 314275005177 RNA binding surface [nucleotide binding]; other site 314275005178 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 314275005179 probable active site [active] 314275005180 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 314275005181 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 314275005182 Predicted amidohydrolase [General function prediction only]; Region: COG0388 314275005183 putative active site [active] 314275005184 catalytic triad [active] 314275005185 putative dimer interface [polypeptide binding]; other site 314275005186 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 314275005187 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 314275005188 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 314275005189 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275005190 active site 314275005191 phosphorylation site [posttranslational modification] 314275005192 intermolecular recognition site; other site 314275005193 dimerization interface [polypeptide binding]; other site 314275005194 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 314275005195 generic binding surface I; other site 314275005196 generic binding surface II; other site 314275005197 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 314275005198 putative catalytic site [active] 314275005199 putative metal binding site [ion binding]; other site 314275005200 putative phosphate binding site [ion binding]; other site 314275005201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 314275005202 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 314275005203 peroxiredoxin; Region: AhpC; TIGR03137 314275005204 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 314275005205 dimer interface [polypeptide binding]; other site 314275005206 decamer (pentamer of dimers) interface [polypeptide binding]; other site 314275005207 catalytic triad [active] 314275005208 peroxidatic and resolving cysteines [active] 314275005209 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 314275005210 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 314275005211 catalytic residue [active] 314275005212 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 314275005213 catalytic residues [active] 314275005214 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275005215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275005216 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 314275005217 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 314275005218 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 314275005219 diiron binding motif [ion binding]; other site 314275005220 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 314275005221 Strictosidine synthase; Region: Str_synth; pfam03088 314275005222 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 314275005223 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 314275005224 Active site serine [active] 314275005225 hypothetical protein; Provisional; Region: PRK01254 314275005226 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 314275005227 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 314275005228 EVE domain; Region: EVE; cl00728 314275005229 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275005230 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275005231 N-terminal plug; other site 314275005232 ligand-binding site [chemical binding]; other site 314275005233 Uncharacterized conserved protein [Function unknown]; Region: COG0398 314275005234 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314275005235 mercuric reductase; Validated; Region: PRK06370 314275005236 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275005237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275005238 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314275005239 Protein of unknown function, DUF547; Region: DUF547; pfam04784 314275005240 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 314275005241 hypothetical protein; Provisional; Region: PRK11622 314275005242 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 314275005243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 314275005244 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 314275005245 dimer interface [polypeptide binding]; other site 314275005246 conserved gate region; other site 314275005247 putative PBP binding loops; other site 314275005248 ABC-ATPase subunit interface; other site 314275005249 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 314275005250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275005251 Walker A/P-loop; other site 314275005252 ATP binding site [chemical binding]; other site 314275005253 Q-loop/lid; other site 314275005254 ABC transporter signature motif; other site 314275005255 Walker B; other site 314275005256 D-loop; other site 314275005257 H-loop/switch region; other site 314275005258 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 314275005259 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 314275005260 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 314275005261 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 314275005262 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 314275005263 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275005264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275005265 active site 314275005266 I-site; other site 314275005267 metal binding site [ion binding]; metal-binding site 314275005268 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 314275005269 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 314275005270 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 314275005271 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 314275005272 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314275005273 Walker A/P-loop; other site 314275005274 ATP binding site [chemical binding]; other site 314275005275 Q-loop/lid; other site 314275005276 ABC transporter signature motif; other site 314275005277 Walker B; other site 314275005278 D-loop; other site 314275005279 H-loop/switch region; other site 314275005280 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 314275005281 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 314275005282 putative active site [active] 314275005283 putative FMN binding site [chemical binding]; other site 314275005284 putative substrate binding site [chemical binding]; other site 314275005285 putative catalytic residue [active] 314275005286 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 314275005287 SmpB-tmRNA interface; other site 314275005288 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 314275005289 putative coenzyme Q binding site [chemical binding]; other site 314275005290 hypothetical protein; Validated; Region: PRK01777 314275005291 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314275005292 MarR family; Region: MarR; pfam01047 314275005293 BCCT family transporter; Region: BCCT; cl00569 314275005294 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275005295 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314275005296 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275005297 TPR repeat; Region: TPR_11; pfam13414 314275005298 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 314275005299 binding surface 314275005300 TPR motif; other site 314275005301 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 314275005302 TPR motif; other site 314275005303 Tetratricopeptide repeat; Region: TPR_16; pfam13432 314275005304 binding surface 314275005305 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 314275005306 binding surface 314275005307 TPR motif; other site 314275005308 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 314275005309 binding surface 314275005310 TPR motif; other site 314275005311 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 314275005312 PEP synthetase regulatory protein; Provisional; Region: PRK05339 314275005313 phosphoenolpyruvate synthase; Validated; Region: PRK06464 314275005314 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 314275005315 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314275005316 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314275005317 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275005318 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275005319 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275005320 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 314275005321 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 314275005322 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314275005323 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314275005324 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 314275005325 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 314275005326 catalytic loop [active] 314275005327 iron binding site [ion binding]; other site 314275005328 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 314275005329 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 314275005330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 314275005331 Uncharacterized conserved protein [Function unknown]; Region: COG2850 314275005332 Cupin-like domain; Region: Cupin_8; pfam13621 314275005333 cyclase homology domain; Region: CHD; cd07302 314275005334 nucleotidyl binding site; other site 314275005335 metal binding site [ion binding]; metal-binding site 314275005336 dimer interface [polypeptide binding]; other site 314275005337 adenylosuccinate lyase; Provisional; Region: PRK09285 314275005338 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 314275005339 tetramer interface [polypeptide binding]; other site 314275005340 active site 314275005341 putative lysogenization regulator; Reviewed; Region: PRK00218 314275005342 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 314275005343 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 314275005344 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 314275005345 pseudouridine synthase; Region: TIGR00093 314275005346 probable active site [active] 314275005347 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 314275005348 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 314275005349 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 314275005350 DNA-binding site [nucleotide binding]; DNA binding site 314275005351 RNA-binding motif; other site 314275005352 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 314275005353 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 314275005354 rRNA binding site [nucleotide binding]; other site 314275005355 predicted 30S ribosome binding site; other site 314275005356 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 314275005357 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 314275005358 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 314275005359 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 314275005360 thioredoxin reductase; Provisional; Region: PRK10262 314275005361 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275005362 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275005363 Protein of unknown function, DUF412; Region: DUF412; pfam04217 314275005364 SprT-like family; Region: SprT-like; pfam10263 314275005365 SprT homologues; Region: SprT; cl01182 314275005366 protease 4; Provisional; Region: PRK10949 314275005367 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 314275005368 tandem repeat interface [polypeptide binding]; other site 314275005369 oligomer interface [polypeptide binding]; other site 314275005370 active site residues [active] 314275005371 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 314275005372 tandem repeat interface [polypeptide binding]; other site 314275005373 oligomer interface [polypeptide binding]; other site 314275005374 active site residues [active] 314275005375 DoxX; Region: DoxX; pfam07681 314275005376 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 314275005377 putative FMN binding site [chemical binding]; other site 314275005378 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 314275005379 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 314275005380 active site 314275005381 homodimer interface [polypeptide binding]; other site 314275005382 lipoyl synthase; Provisional; Region: PRK05481 314275005383 lipoate-protein ligase B; Provisional; Region: PRK14342 314275005384 hypothetical protein; Provisional; Region: PRK04998 314275005385 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 314275005386 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 314275005387 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 314275005388 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 314275005389 rare lipoprotein A; Region: rlpA; TIGR00413 314275005390 Sporulation related domain; Region: SPOR; pfam05036 314275005391 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 314275005392 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 314275005393 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314275005394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314275005395 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 314275005396 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 314275005397 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 314275005398 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 314275005399 active site 314275005400 (T/H)XGH motif; other site 314275005401 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 314275005402 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 314275005403 Lipopolysaccharide-assembly; Region: LptE; cl01125 314275005404 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 314275005405 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 314275005406 HIGH motif; other site 314275005407 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314275005408 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314275005409 active site 314275005410 KMSKS motif; other site 314275005411 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 314275005412 tRNA binding surface [nucleotide binding]; other site 314275005413 AAA domain; Region: AAA_32; pfam13654 314275005414 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 314275005415 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314275005416 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275005417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275005418 metal binding site [ion binding]; metal-binding site 314275005419 active site 314275005420 I-site; other site 314275005421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 314275005422 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 314275005423 NAD binding site [chemical binding]; other site 314275005424 homodimer interface [polypeptide binding]; other site 314275005425 homotetramer interface [polypeptide binding]; other site 314275005426 active site 314275005427 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 314275005428 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 314275005429 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 314275005430 Walker A motif; other site 314275005431 ATP binding site [chemical binding]; other site 314275005432 Walker B motif; other site 314275005433 arginine finger; other site 314275005434 Peptidase family M41; Region: Peptidase_M41; pfam01434 314275005435 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 314275005436 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 314275005437 active site 314275005438 substrate binding site [chemical binding]; other site 314275005439 metal binding site [ion binding]; metal-binding site 314275005440 triosephosphate isomerase; Provisional; Region: PRK14567 314275005441 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 314275005442 substrate binding site [chemical binding]; other site 314275005443 dimer interface [polypeptide binding]; other site 314275005444 catalytic triad [active] 314275005445 Preprotein translocase SecG subunit; Region: SecG; pfam03840 314275005446 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 314275005447 dimerization interface [polypeptide binding]; other site 314275005448 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275005449 metal binding site [ion binding]; metal-binding site 314275005450 active site 314275005451 I-site; other site 314275005452 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 314275005453 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 314275005454 Hemerythrin-like domain; Region: Hr-like; cd12108 314275005455 Fe binding site [ion binding]; other site 314275005456 glutamate dehydrogenase; Provisional; Region: PRK09414 314275005457 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 314275005458 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 314275005459 NAD(P) binding pocket [chemical binding]; other site 314275005460 hypothetical protein; Provisional; Region: PRK12361 314275005461 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 314275005462 active site 314275005463 catalytic residues [active] 314275005464 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 314275005465 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 314275005466 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 314275005467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275005468 NAD(P) binding site [chemical binding]; other site 314275005469 active site 314275005470 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 314275005471 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 314275005472 active site 314275005473 motif I; other site 314275005474 motif II; other site 314275005475 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314275005476 enterobactin exporter EntS; Provisional; Region: PRK10489 314275005477 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 314275005478 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 314275005479 active site 314275005480 DNA binding site [nucleotide binding] 314275005481 Int/Topo IB signature motif; other site 314275005482 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 314275005483 Na binding site [ion binding]; other site 314275005484 gamma-glutamyl kinase; Provisional; Region: PRK13402 314275005485 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 314275005486 nucleotide binding site [chemical binding]; other site 314275005487 homotetrameric interface [polypeptide binding]; other site 314275005488 putative phosphate binding site [ion binding]; other site 314275005489 putative allosteric binding site; other site 314275005490 PUA domain; Region: PUA; cl00607 314275005491 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 314275005492 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 314275005493 putative catalytic cysteine [active] 314275005494 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275005495 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275005496 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 314275005497 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 314275005498 active site 314275005499 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 314275005500 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 314275005501 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275005502 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 314275005503 S-adenosylmethionine binding site [chemical binding]; other site 314275005504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275005505 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275005506 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275005507 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314275005508 Beta-lactamase; Region: Beta-lactamase; pfam00144 314275005509 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275005510 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 314275005511 active site 314275005512 metal binding site [ion binding]; metal-binding site 314275005513 CcdB protein; Region: CcdB; cl03380 314275005514 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 314275005515 Transposase; Region: HTH_Tnp_1; cl17663 314275005516 Integrase core domain; Region: rve; pfam00665 314275005517 DDE domain; Region: DDE_Tnp_IS240; pfam13610 314275005518 Integrase core domain; Region: rve_3; pfam13683 314275005519 Transposase; Region: HTH_Tnp_1; cl17663 314275005520 Integrase core domain; Region: rve; pfam00665 314275005521 DDE domain; Region: DDE_Tnp_IS240; pfam13610 314275005522 Integrase core domain; Region: rve_3; pfam13683 314275005523 MAPEG family; Region: MAPEG; cl09190 314275005524 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 314275005525 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 314275005526 active site 314275005527 catalytic motif [active] 314275005528 Zn binding site [ion binding]; other site 314275005529 lipoprotein NlpI; Provisional; Region: PRK11189 314275005530 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 314275005531 binding surface 314275005532 TPR motif; other site 314275005533 putative sulfate transport protein CysZ; Validated; Region: PRK04949 314275005534 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 314275005535 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 314275005536 Walker A/P-loop; other site 314275005537 ATP binding site [chemical binding]; other site 314275005538 Q-loop/lid; other site 314275005539 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 314275005540 ABC transporter signature motif; other site 314275005541 Walker B; other site 314275005542 D-loop; other site 314275005543 H-loop/switch region; other site 314275005544 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 314275005545 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 314275005546 FtsZ protein binding site [polypeptide binding]; other site 314275005547 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 314275005548 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 314275005549 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 314275005550 Competence protein; Region: Competence; pfam03772 314275005551 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 314275005552 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275005553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275005554 Walker A/P-loop; other site 314275005555 ATP binding site [chemical binding]; other site 314275005556 Q-loop/lid; other site 314275005557 ABC transporter signature motif; other site 314275005558 Walker B; other site 314275005559 D-loop; other site 314275005560 H-loop/switch region; other site 314275005561 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 314275005562 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 314275005563 Uncharacterized conserved protein [Function unknown]; Region: COG2835 314275005564 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 314275005565 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 314275005566 Ligand binding site; other site 314275005567 oligomer interface; other site 314275005568 C factor cell-cell signaling protein; Provisional; Region: PRK09009 314275005569 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 314275005570 NADP binding site [chemical binding]; other site 314275005571 homodimer interface [polypeptide binding]; other site 314275005572 active site 314275005573 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 314275005574 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 314275005575 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 314275005576 FeS/SAM binding site; other site 314275005577 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 314275005578 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 314275005579 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 314275005580 putative ATP binding site [chemical binding]; other site 314275005581 putative substrate interface [chemical binding]; other site 314275005582 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 314275005583 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 314275005584 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 314275005585 putative dimer interface [polypeptide binding]; other site 314275005586 N-terminal domain interface [polypeptide binding]; other site 314275005587 putative substrate binding pocket (H-site) [chemical binding]; other site 314275005588 Pirin-related protein [General function prediction only]; Region: COG1741 314275005589 Pirin; Region: Pirin; pfam02678 314275005590 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 314275005591 phosphomannomutase CpsG; Provisional; Region: PRK15414 314275005592 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 314275005593 active site 314275005594 substrate binding site [chemical binding]; other site 314275005595 metal binding site [ion binding]; metal-binding site 314275005596 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 314275005597 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 314275005598 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 314275005599 dimer interface [polypeptide binding]; other site 314275005600 active site 314275005601 citrylCoA binding site [chemical binding]; other site 314275005602 NADH binding [chemical binding]; other site 314275005603 cationic pore residues; other site 314275005604 oxalacetate/citrate binding site [chemical binding]; other site 314275005605 coenzyme A binding site [chemical binding]; other site 314275005606 catalytic triad [active] 314275005607 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 314275005608 Iron-sulfur protein interface; other site 314275005609 proximal quinone binding site [chemical binding]; other site 314275005610 SdhD (CybS) interface [polypeptide binding]; other site 314275005611 proximal heme binding site [chemical binding]; other site 314275005612 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 314275005613 SdhC subunit interface [polypeptide binding]; other site 314275005614 proximal heme binding site [chemical binding]; other site 314275005615 cardiolipin binding site; other site 314275005616 Iron-sulfur protein interface; other site 314275005617 proximal quinone binding site [chemical binding]; other site 314275005618 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 314275005619 L-aspartate oxidase; Provisional; Region: PRK06175 314275005620 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 314275005621 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 314275005622 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 314275005623 catalytic loop [active] 314275005624 iron binding site [ion binding]; other site 314275005625 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 314275005626 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 314275005627 TPP-binding site [chemical binding]; other site 314275005628 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 314275005629 dimer interface [polypeptide binding]; other site 314275005630 PYR/PP interface [polypeptide binding]; other site 314275005631 TPP binding site [chemical binding]; other site 314275005632 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 314275005633 E3 interaction surface; other site 314275005634 lipoyl attachment site [posttranslational modification]; other site 314275005635 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 314275005636 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 314275005637 E3 interaction surface; other site 314275005638 lipoyl attachment site [posttranslational modification]; other site 314275005639 e3 binding domain; Region: E3_binding; pfam02817 314275005640 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314275005641 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 314275005642 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 314275005643 CoA-ligase; Region: Ligase_CoA; pfam00549 314275005644 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 314275005645 CoA binding domain; Region: CoA_binding; pfam02629 314275005646 CoA-ligase; Region: Ligase_CoA; pfam00549 314275005647 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275005648 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275005649 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275005650 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 314275005651 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275005652 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275005653 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275005654 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 314275005655 carbohydrate binding site [chemical binding]; other site 314275005656 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 314275005657 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 314275005658 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 314275005659 Ca binding site [ion binding]; other site 314275005660 active site 314275005661 catalytic site [active] 314275005662 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 314275005663 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 314275005664 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 314275005665 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 314275005666 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 314275005667 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 314275005668 active site 314275005669 nucleophile elbow; other site 314275005670 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 314275005671 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 314275005672 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 314275005673 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 314275005674 active site 314275005675 catalytic site [active] 314275005676 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 314275005677 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 314275005678 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 314275005679 Ca binding site [ion binding]; other site 314275005680 active site 314275005681 homodimer interface [polypeptide binding]; other site 314275005682 catalytic site [active] 314275005683 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 314275005684 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314275005685 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 314275005686 putative substrate translocation pore; other site 314275005687 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 314275005688 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 314275005689 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 314275005690 active site 314275005691 catalytic site [active] 314275005692 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314275005693 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314275005694 DNA binding site [nucleotide binding] 314275005695 domain linker motif; other site 314275005696 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 314275005697 putative dimerization interface [polypeptide binding]; other site 314275005698 putative ligand binding site [chemical binding]; other site 314275005699 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 314275005700 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314275005701 active site 314275005702 HIGH motif; other site 314275005703 nucleotide binding site [chemical binding]; other site 314275005704 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 314275005705 KMSKS motif; other site 314275005706 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 314275005707 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 314275005708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275005709 NAD(P) binding site [chemical binding]; other site 314275005710 active site 314275005711 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 314275005712 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 314275005713 Penicillin amidase; Region: Penicil_amidase; pfam01804 314275005714 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 314275005715 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 314275005716 active site 314275005717 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 314275005718 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 314275005719 putative inner membrane peptidase; Provisional; Region: PRK11778 314275005720 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 314275005721 tandem repeat interface [polypeptide binding]; other site 314275005722 oligomer interface [polypeptide binding]; other site 314275005723 active site residues [active] 314275005724 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314275005725 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275005726 Uncharacterized conserved protein [Function unknown]; Region: COG0327 314275005727 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 314275005728 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275005729 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 314275005730 S-adenosylmethionine binding site [chemical binding]; other site 314275005731 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 314275005732 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 314275005733 putative ligand binding site [chemical binding]; other site 314275005734 putative NAD binding site [chemical binding]; other site 314275005735 catalytic site [active] 314275005736 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 314275005737 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314275005738 catalytic residues [active] 314275005739 dimer interface [polypeptide binding]; other site 314275005740 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 314275005741 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 314275005742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275005743 active site 314275005744 phosphorylation site [posttranslational modification] 314275005745 intermolecular recognition site; other site 314275005746 dimerization interface [polypeptide binding]; other site 314275005747 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 314275005748 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 314275005749 substrate binding pocket [chemical binding]; other site 314275005750 FAD binding site [chemical binding]; other site 314275005751 catalytic base [active] 314275005752 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 314275005753 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 314275005754 substrate binding site [chemical binding]; other site 314275005755 oxyanion hole (OAH) forming residues; other site 314275005756 trimer interface [polypeptide binding]; other site 314275005757 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 314275005758 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 314275005759 Methyltransferase domain; Region: Methyltransf_11; pfam08241 314275005760 S-adenosylmethionine binding site [chemical binding]; other site 314275005761 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 314275005762 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 314275005763 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 314275005764 Nucleoid-associated protein [General function prediction only]; Region: COG3081 314275005765 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 314275005766 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 314275005767 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314275005768 Peptidase family M23; Region: Peptidase_M23; pfam01551 314275005769 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 314275005770 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 314275005771 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 314275005772 protein binding site [polypeptide binding]; other site 314275005773 Flagellar protein YcgR; Region: YcgR_2; pfam12945 314275005774 PilZ domain; Region: PilZ; pfam07238 314275005775 Protein of unknown function (DUF962); Region: DUF962; cl01879 314275005776 Histidine kinase; Region: His_kinase; pfam06580 314275005777 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 314275005778 ATP binding site [chemical binding]; other site 314275005779 Mg2+ binding site [ion binding]; other site 314275005780 G-X-G motif; other site 314275005781 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 314275005782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275005783 active site 314275005784 phosphorylation site [posttranslational modification] 314275005785 intermolecular recognition site; other site 314275005786 dimerization interface [polypeptide binding]; other site 314275005787 LytTr DNA-binding domain; Region: LytTR; smart00850 314275005788 6-phosphofructokinase; Provisional; Region: PRK03202 314275005789 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 314275005790 active site 314275005791 ADP/pyrophosphate binding site [chemical binding]; other site 314275005792 dimerization interface [polypeptide binding]; other site 314275005793 allosteric effector site; other site 314275005794 fructose-1,6-bisphosphate binding site; other site 314275005795 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 314275005796 CoenzymeA binding site [chemical binding]; other site 314275005797 subunit interaction site [polypeptide binding]; other site 314275005798 PHB binding site; other site 314275005799 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314275005800 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 314275005801 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314275005802 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 314275005803 Transposase [DNA replication, recombination, and repair]; Region: COG5433 314275005804 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314275005805 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 314275005806 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314275005807 putative NAD(P) binding site [chemical binding]; other site 314275005808 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 314275005809 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314275005810 putative NAD(P) binding site [chemical binding]; other site 314275005811 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 314275005812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275005813 NAD(P) binding site [chemical binding]; other site 314275005814 active site 314275005815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275005816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275005817 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 314275005818 putative effector binding pocket; other site 314275005819 dimerization interface [polypeptide binding]; other site 314275005820 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 314275005821 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 314275005822 active site 314275005823 substrate binding sites [chemical binding]; other site 314275005824 Winged helix-turn helix; Region: HTH_29; pfam13551 314275005825 Homeodomain-like domain; Region: HTH_32; pfam13565 314275005826 Integrase core domain; Region: rve; pfam00665 314275005827 Winged helix-turn helix; Region: HTH_29; pfam13551 314275005828 Helix-turn-helix domain; Region: HTH_28; pfam13518 314275005829 Homeodomain-like domain; Region: HTH_32; pfam13565 314275005830 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 314275005831 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 314275005832 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 314275005833 FeS/SAM binding site; other site 314275005834 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275005835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275005836 active site 314275005837 phosphorylation site [posttranslational modification] 314275005838 intermolecular recognition site; other site 314275005839 dimerization interface [polypeptide binding]; other site 314275005840 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 314275005841 binding surface 314275005842 TPR motif; other site 314275005843 TPR repeat; Region: TPR_11; pfam13414 314275005844 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 314275005845 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 314275005846 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 314275005847 active site residue [active] 314275005848 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 314275005849 EF-hand domain pair; Region: EF_hand_5; pfam13499 314275005850 Ca2+ binding site [ion binding]; other site 314275005851 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 314275005852 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314275005853 ATP binding site [chemical binding]; other site 314275005854 Mg++ binding site [ion binding]; other site 314275005855 motif III; other site 314275005856 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 314275005857 nucleotide binding region [chemical binding]; other site 314275005858 ATP-binding site [chemical binding]; other site 314275005859 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 314275005860 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 314275005861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275005862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275005863 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 314275005864 putative dimerization interface [polypeptide binding]; other site 314275005865 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275005866 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 314275005867 ATP binding site [chemical binding]; other site 314275005868 Mg2+ binding site [ion binding]; other site 314275005869 G-X-G motif; other site 314275005870 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 314275005871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275005872 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 314275005873 substrate binding site [chemical binding]; other site 314275005874 dimerization interface [polypeptide binding]; other site 314275005875 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 314275005876 putative active site [active] 314275005877 putative CoA binding site [chemical binding]; other site 314275005878 nudix motif; other site 314275005879 metal binding site [ion binding]; metal-binding site 314275005880 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 314275005881 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 314275005882 chorismate binding enzyme; Region: Chorismate_bind; cl10555 314275005883 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 314275005884 Fumarase C-terminus; Region: Fumerase_C; pfam05683 314275005885 RmuC family; Region: RmuC; pfam02646 314275005886 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 314275005887 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 314275005888 active site 314275005889 catalytic residues [active] 314275005890 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 314275005891 PA/protease or protease-like domain interface [polypeptide binding]; other site 314275005892 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 314275005893 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 314275005894 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 314275005895 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314275005896 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 314275005897 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 314275005898 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 314275005899 tetramer interface [polypeptide binding]; other site 314275005900 TPP-binding site [chemical binding]; other site 314275005901 heterodimer interface [polypeptide binding]; other site 314275005902 phosphorylation loop region [posttranslational modification] 314275005903 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 314275005904 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 314275005905 alpha subunit interface [polypeptide binding]; other site 314275005906 TPP binding site [chemical binding]; other site 314275005907 heterodimer interface [polypeptide binding]; other site 314275005908 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314275005909 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 314275005910 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 314275005911 E3 interaction surface; other site 314275005912 lipoyl attachment site [posttranslational modification]; other site 314275005913 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 314275005914 E3 interaction surface; other site 314275005915 lipoyl attachment site [posttranslational modification]; other site 314275005916 e3 binding domain; Region: E3_binding; pfam02817 314275005917 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314275005918 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 314275005919 Protein kinase domain; Region: Pkinase; pfam00069 314275005920 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 314275005921 active site 314275005922 ATP binding site [chemical binding]; other site 314275005923 substrate binding site [chemical binding]; other site 314275005924 activation loop (A-loop); other site 314275005925 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 314275005926 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 314275005927 trimer interface [polypeptide binding]; other site 314275005928 putative metal binding site [ion binding]; other site 314275005929 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 314275005930 homodimer interface [polypeptide binding]; other site 314275005931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275005932 catalytic residue [active] 314275005933 Uncharacterized conserved protein [Function unknown]; Region: COG2968 314275005934 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 314275005935 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 314275005936 GAF domain; Region: GAF_2; pfam13185 314275005937 ProP expression regulator; Provisional; Region: PRK04950 314275005938 ProQ/FINO family; Region: ProQ; pfam04352 314275005939 carboxy-terminal protease; Provisional; Region: PRK11186 314275005940 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 314275005941 protein binding site [polypeptide binding]; other site 314275005942 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 314275005943 Catalytic dyad [active] 314275005944 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 314275005945 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 314275005946 Na2 binding site [ion binding]; other site 314275005947 putative substrate binding site 1 [chemical binding]; other site 314275005948 Na binding site 1 [ion binding]; other site 314275005949 putative substrate binding site 2 [chemical binding]; other site 314275005950 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 314275005951 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 314275005952 aminopeptidase N; Provisional; Region: pepN; PRK14015 314275005953 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 314275005954 Zn binding site [ion binding]; other site 314275005955 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 314275005956 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 314275005957 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 314275005958 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 314275005959 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 314275005960 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 314275005961 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 314275005962 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 314275005963 quinone interaction residues [chemical binding]; other site 314275005964 active site 314275005965 catalytic residues [active] 314275005966 FMN binding site [chemical binding]; other site 314275005967 substrate binding site [chemical binding]; other site 314275005968 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 314275005969 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 314275005970 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 314275005971 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 314275005972 putative RNA binding site [nucleotide binding]; other site 314275005973 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 314275005974 S-adenosylmethionine binding site [chemical binding]; other site 314275005975 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 314275005976 ABC transporter ATPase component; Reviewed; Region: PRK11147 314275005977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314275005978 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314275005979 ABC transporter; Region: ABC_tran_2; pfam12848 314275005980 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314275005981 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 314275005982 Ribosome modulation factor; Region: RMF; pfam04957 314275005983 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 314275005984 active site 1 [active] 314275005985 dimer interface [polypeptide binding]; other site 314275005986 active site 2 [active] 314275005987 DNA photolyase; Region: DNA_photolyase; pfam00875 314275005988 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 314275005989 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 314275005990 DNA photolyase; Region: DNA_photolyase; pfam00875 314275005991 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 314275005992 DNA photolyase; Region: DNA_photolyase; pfam00875 314275005993 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 314275005994 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 314275005995 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 314275005996 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 314275005997 Predicted membrane protein [Function unknown]; Region: COG4325 314275005998 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 314275005999 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 314275006000 SprT-like family; Region: SprT-like; pfam10263 314275006001 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 314275006002 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 314275006003 DNA binding residues [nucleotide binding] 314275006004 dimer interface [polypeptide binding]; other site 314275006005 putative metal binding site [ion binding]; other site 314275006006 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314275006007 Outer membrane efflux protein; Region: OEP; pfam02321 314275006008 Outer membrane efflux protein; Region: OEP; pfam02321 314275006009 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 314275006010 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 314275006011 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 314275006012 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314275006013 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 314275006014 Outer membrane efflux protein; Region: OEP; pfam02321 314275006015 Outer membrane efflux protein; Region: OEP; pfam02321 314275006016 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275006017 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275006018 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275006019 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314275006020 Protein export membrane protein; Region: SecD_SecF; cl14618 314275006021 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 314275006022 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275006023 N-terminal plug; other site 314275006024 ligand-binding site [chemical binding]; other site 314275006025 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 314275006026 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 314275006027 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 314275006028 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 314275006029 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314275006030 Helix-turn-helix domain; Region: HTH_18; pfam12833 314275006031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314275006032 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 314275006033 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 314275006034 Int/Topo IB signature motif; other site 314275006035 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 314275006036 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 314275006037 DNA binding residues [nucleotide binding] 314275006038 dimer interface [polypeptide binding]; other site 314275006039 mercury binding site [ion binding]; other site 314275006040 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 314275006041 metal-binding site [ion binding] 314275006042 putative mercuric reductase; Provisional; Region: PRK14727 314275006043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275006044 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314275006045 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 314275006046 active site 314275006047 DNA binding site [nucleotide binding] 314275006048 Int/Topo IB signature motif; other site 314275006049 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 314275006050 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 314275006051 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 314275006052 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 314275006053 active site 314275006054 FMN binding site [chemical binding]; other site 314275006055 substrate binding site [chemical binding]; other site 314275006056 3Fe-4S cluster binding site [ion binding]; other site 314275006057 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 314275006058 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314275006059 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 314275006060 TrkA-N domain; Region: TrkA_N; pfam02254 314275006061 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 314275006062 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 314275006063 heme binding site [chemical binding]; other site 314275006064 ferroxidase pore; other site 314275006065 ferroxidase diiron center [ion binding]; other site 314275006066 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 314275006067 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 314275006068 heme binding site [chemical binding]; other site 314275006069 ferroxidase pore; other site 314275006070 ferroxidase diiron center [ion binding]; other site 314275006071 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 314275006072 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 314275006073 Low-spin heme binding site [chemical binding]; other site 314275006074 Putative water exit pathway; other site 314275006075 Binuclear center (active site) [active] 314275006076 Putative proton exit pathway; other site 314275006077 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 314275006078 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 314275006079 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 314275006080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 314275006081 FixH; Region: FixH; pfam05751 314275006082 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 314275006083 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 314275006084 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 314275006085 metal-binding site [ion binding] 314275006086 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314275006087 Soluble P-type ATPase [General function prediction only]; Region: COG4087 314275006088 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 314275006089 Family description; Region: DsbD_2; pfam13386 314275006090 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 314275006091 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 314275006092 ligand binding site [chemical binding]; other site 314275006093 flexible hinge region; other site 314275006094 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 314275006095 putative switch regulator; other site 314275006096 non-specific DNA interactions [nucleotide binding]; other site 314275006097 DNA binding site [nucleotide binding] 314275006098 sequence specific DNA binding site [nucleotide binding]; other site 314275006099 putative cAMP binding site [chemical binding]; other site 314275006100 universal stress protein UspE; Provisional; Region: PRK11175 314275006101 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 314275006102 Ligand Binding Site [chemical binding]; other site 314275006103 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 314275006104 Ligand Binding Site [chemical binding]; other site 314275006105 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 314275006106 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 314275006107 Ligand Binding Site [chemical binding]; other site 314275006108 hypothetical protein; Provisional; Region: PRK10279 314275006109 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 314275006110 nucleophile elbow; other site 314275006111 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 314275006112 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 314275006113 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 314275006114 LysE type translocator; Region: LysE; cl00565 314275006115 NAD-dependent deacetylase; Provisional; Region: PRK00481 314275006116 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 314275006117 NAD+ binding site [chemical binding]; other site 314275006118 substrate binding site [chemical binding]; other site 314275006119 Zn binding site [ion binding]; other site 314275006120 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 314275006121 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 314275006122 active site residue [active] 314275006123 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 314275006124 active site residue [active] 314275006125 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 314275006126 dimer interface [polypeptide binding]; other site 314275006127 catalytic triad [active] 314275006128 peroxidatic and resolving cysteines [active] 314275006129 Uncharacterized conserved protein [Function unknown]; Region: COG3148 314275006130 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 314275006131 active site 314275006132 metal binding site [ion binding]; metal-binding site 314275006133 interdomain interaction site; other site 314275006134 Domain of unknown function (DUF927); Region: DUF927; pfam06048 314275006135 Transposase; Region: HTH_Tnp_1; pfam01527 314275006136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314275006137 putative transposase OrfB; Reviewed; Region: PHA02517 314275006138 HTH-like domain; Region: HTH_21; pfam13276 314275006139 Integrase core domain; Region: rve; pfam00665 314275006140 Integrase core domain; Region: rve_3; pfam13683 314275006141 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 314275006142 integrase; Provisional; Region: PRK09692 314275006143 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 314275006144 active site 314275006145 Int/Topo IB signature motif; other site 314275006146 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 314275006147 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 314275006148 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 314275006149 GIY-YIG motif/motif A; other site 314275006150 active site 314275006151 catalytic site [active] 314275006152 putative DNA binding site [nucleotide binding]; other site 314275006153 metal binding site [ion binding]; metal-binding site 314275006154 UvrB/uvrC motif; Region: UVR; pfam02151 314275006155 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 314275006156 Helix-hairpin-helix motif; Region: HHH; pfam00633 314275006157 response regulator; Provisional; Region: PRK09483 314275006158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006159 active site 314275006160 phosphorylation site [posttranslational modification] 314275006161 intermolecular recognition site; other site 314275006162 dimerization interface [polypeptide binding]; other site 314275006163 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 314275006164 DNA binding residues [nucleotide binding] 314275006165 dimerization interface [polypeptide binding]; other site 314275006166 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 314275006167 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 314275006168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006169 homodimer interface [polypeptide binding]; other site 314275006170 catalytic residue [active] 314275006171 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 314275006172 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 314275006173 putative active site [active] 314275006174 metal binding site [ion binding]; metal-binding site 314275006175 Predicted membrane protein [Function unknown]; Region: COG2259 314275006176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275006177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275006178 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 314275006179 putative effector binding pocket; other site 314275006180 dimerization interface [polypeptide binding]; other site 314275006181 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 314275006182 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 314275006183 YccA-like proteins; Region: YccA_like; cd10433 314275006184 DsrE/DsrF-like family; Region: DrsE; cl00672 314275006185 DsrC like protein; Region: DsrC; pfam04358 314275006186 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 314275006187 Protein required for attachment to host cells; Region: Host_attach; pfam10116 314275006188 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 314275006189 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275006190 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275006191 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275006192 seryl-tRNA synthetase; Provisional; Region: PRK05431 314275006193 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 314275006194 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 314275006195 dimer interface [polypeptide binding]; other site 314275006196 active site 314275006197 motif 1; other site 314275006198 motif 2; other site 314275006199 motif 3; other site 314275006200 CrcB-like protein; Region: CRCB; cl09114 314275006201 recombination factor protein RarA; Reviewed; Region: PRK13342 314275006202 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 314275006203 Walker A motif; other site 314275006204 ATP binding site [chemical binding]; other site 314275006205 Walker B motif; other site 314275006206 arginine finger; other site 314275006207 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 314275006208 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 314275006209 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 314275006210 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 314275006211 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 314275006212 putative DNA binding site [nucleotide binding]; other site 314275006213 putative Zn2+ binding site [ion binding]; other site 314275006214 AsnC family; Region: AsnC_trans_reg; pfam01037 314275006215 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 314275006216 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 314275006217 hexamer interface [polypeptide binding]; other site 314275006218 ligand binding site [chemical binding]; other site 314275006219 putative active site [active] 314275006220 NAD(P) binding site [chemical binding]; other site 314275006221 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 314275006222 active site 314275006223 dimer interface [polypeptide binding]; other site 314275006224 tetratricopeptide repeat protein; Provisional; Region: PRK11788 314275006225 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 314275006226 binding surface 314275006227 TPR motif; other site 314275006228 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 314275006229 binding surface 314275006230 TPR motif; other site 314275006231 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 314275006232 PilZ domain; Region: PilZ; pfam07238 314275006233 cytidylate kinase; Provisional; Region: cmk; PRK00023 314275006234 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 314275006235 CMP-binding site; other site 314275006236 The sites determining sugar specificity; other site 314275006237 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 314275006238 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 314275006239 hinge; other site 314275006240 active site 314275006241 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 314275006242 homodimer interface [polypeptide binding]; other site 314275006243 substrate-cofactor binding pocket; other site 314275006244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006245 catalytic residue [active] 314275006246 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 314275006247 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 314275006248 S-adenosylmethionine binding site [chemical binding]; other site 314275006249 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 314275006250 ATP cone domain; Region: ATP-cone; pfam03477 314275006251 Class I ribonucleotide reductase; Region: RNR_I; cd01679 314275006252 active site 314275006253 dimer interface [polypeptide binding]; other site 314275006254 catalytic residues [active] 314275006255 effector binding site; other site 314275006256 R2 peptide binding site; other site 314275006257 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 314275006258 dimer interface [polypeptide binding]; other site 314275006259 putative radical transfer pathway; other site 314275006260 diiron center [ion binding]; other site 314275006261 tyrosyl radical; other site 314275006262 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 314275006263 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 314275006264 catalytic loop [active] 314275006265 iron binding site [ion binding]; other site 314275006266 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 314275006267 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 314275006268 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 314275006269 putative active site [active] 314275006270 putative FMN binding site [chemical binding]; other site 314275006271 putative substrate binding site [chemical binding]; other site 314275006272 putative catalytic residue [active] 314275006273 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314275006274 GAF domain; Region: GAF; pfam01590 314275006275 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314275006276 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 314275006277 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275006278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275006279 metal binding site [ion binding]; metal-binding site 314275006280 active site 314275006281 I-site; other site 314275006282 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 314275006283 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 314275006284 EamA-like transporter family; Region: EamA; pfam00892 314275006285 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 314275006286 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 314275006287 ATP binding site [chemical binding]; other site 314275006288 active site 314275006289 substrate binding site [chemical binding]; other site 314275006290 lipoprotein; Provisional; Region: PRK11679 314275006291 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 314275006292 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 314275006293 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 314275006294 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 314275006295 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 314275006296 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 314275006297 catalytic triad [active] 314275006298 Domain of unknown function DUF20; Region: UPF0118; pfam01594 314275006299 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 314275006300 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 314275006301 Peptidase family M48; Region: Peptidase_M48; pfam01435 314275006302 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 314275006303 TPR motif; other site 314275006304 binding surface 314275006305 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 314275006306 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314275006307 catalytic residues [active] 314275006308 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 314275006309 ArsC family; Region: ArsC; pfam03960 314275006310 catalytic residues [active] 314275006311 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314275006312 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314275006313 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 314275006314 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 314275006315 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 314275006316 Walker A motif; other site 314275006317 ATP binding site [chemical binding]; other site 314275006318 Walker B motif; other site 314275006319 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 314275006320 arginine finger; other site 314275006321 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 314275006322 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 314275006323 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 314275006324 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 314275006325 dimerization interface [polypeptide binding]; other site 314275006326 putative ATP binding site [chemical binding]; other site 314275006327 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 314275006328 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 314275006329 active site 314275006330 substrate binding site [chemical binding]; other site 314275006331 cosubstrate binding site; other site 314275006332 catalytic site [active] 314275006333 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 314275006334 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 314275006335 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 314275006336 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 314275006337 active site 314275006338 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 314275006339 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 314275006340 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275006341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006342 active site 314275006343 phosphorylation site [posttranslational modification] 314275006344 intermolecular recognition site; other site 314275006345 dimerization interface [polypeptide binding]; other site 314275006346 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 314275006347 DNA binding residues [nucleotide binding] 314275006348 dimerization interface [polypeptide binding]; other site 314275006349 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 314275006350 S-adenosylmethionine binding site [chemical binding]; other site 314275006351 Methyltransferase domain; Region: Methyltransf_31; pfam13847 314275006352 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 314275006353 S-adenosylmethionine binding site [chemical binding]; other site 314275006354 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 314275006355 active site 314275006356 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 314275006357 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 314275006358 active site 314275006359 motif I; other site 314275006360 motif II; other site 314275006361 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 314275006362 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 314275006363 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 314275006364 trehalose synthase; Region: treS_nterm; TIGR02456 314275006365 active site 314275006366 homodimer interface [polypeptide binding]; other site 314275006367 catalytic site [active] 314275006368 phosphoglycolate phosphatase; Provisional; Region: PRK13222 314275006369 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 314275006370 motif II; other site 314275006371 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 314275006372 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 314275006373 dimer interface [polypeptide binding]; other site 314275006374 putative functional site; other site 314275006375 putative MPT binding site; other site 314275006376 multidrug efflux protein; Reviewed; Region: PRK01766 314275006377 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 314275006378 cation binding site [ion binding]; other site 314275006379 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 314275006380 Ligand binding site; other site 314275006381 metal-binding site 314275006382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 314275006383 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314275006384 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 314275006385 Walker A motif; other site 314275006386 ATP binding site [chemical binding]; other site 314275006387 Walker B motif; other site 314275006388 arginine finger; other site 314275006389 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 314275006390 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 314275006391 dimer interface [polypeptide binding]; other site 314275006392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006393 catalytic residue [active] 314275006394 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 314275006395 outer membrane protein A; Reviewed; Region: PRK10808 314275006396 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275006397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275006398 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275006399 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275006400 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275006401 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275006402 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 314275006403 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 314275006404 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 314275006405 Predicted transcriptional regulator [Transcription]; Region: COG2944 314275006406 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 314275006407 salt bridge; other site 314275006408 non-specific DNA binding site [nucleotide binding]; other site 314275006409 sequence-specific DNA binding site [nucleotide binding]; other site 314275006410 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 314275006411 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275006412 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275006413 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 314275006414 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 314275006415 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 314275006416 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 314275006417 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 314275006418 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 314275006419 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 314275006420 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314275006421 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 314275006422 catalytic residues [active] 314275006423 dimer interface [polypeptide binding]; other site 314275006424 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314275006425 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314275006426 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 314275006427 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 314275006428 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 314275006429 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 314275006430 CHRD domain; Region: CHRD; pfam07452 314275006431 CHRD domain; Region: CHRD; pfam07452 314275006432 CHRD domain; Region: CHRD; pfam07452 314275006433 hypothetical protein; Provisional; Region: PRK05939 314275006434 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 314275006435 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275006436 catalytic residue [active] 314275006437 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314275006438 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 314275006439 putative acyl-acceptor binding pocket; other site 314275006440 NRDE protein; Region: NRDE; cl01315 314275006441 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 314275006442 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 314275006443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006444 homodimer interface [polypeptide binding]; other site 314275006445 catalytic residue [active] 314275006446 Peptidase S46; Region: Peptidase_S46; pfam10459 314275006447 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 314275006448 short chain dehydrogenase; Provisional; Region: PRK07035 314275006449 classical (c) SDRs; Region: SDR_c; cd05233 314275006450 NAD(P) binding site [chemical binding]; other site 314275006451 active site 314275006452 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 314275006453 classical (c) SDRs; Region: SDR_c; cd05233 314275006454 NAD(P) binding site [chemical binding]; other site 314275006455 active site 314275006456 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 314275006457 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 314275006458 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275006459 active site 314275006460 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 314275006461 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 314275006462 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 314275006463 conserved cys residue [active] 314275006464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314275006465 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275006466 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275006467 N-terminal plug; other site 314275006468 ligand-binding site [chemical binding]; other site 314275006469 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 314275006470 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 314275006471 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314275006472 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275006473 Protein export membrane protein; Region: SecD_SecF; cl14618 314275006474 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275006475 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275006476 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 314275006477 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 314275006478 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 314275006479 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 314275006480 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 314275006481 Ligand binding site [chemical binding]; other site 314275006482 Electron transfer flavoprotein domain; Region: ETF; pfam01012 314275006483 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 314275006484 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275006485 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 314275006486 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 314275006487 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 314275006488 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 314275006489 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 314275006490 PGAP1-like protein; Region: PGAP1; pfam07819 314275006491 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 314275006492 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 314275006493 flavodoxin FldA; Validated; Region: PRK09267 314275006494 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314275006495 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275006496 dimerization interface [polypeptide binding]; other site 314275006497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275006498 dimer interface [polypeptide binding]; other site 314275006499 putative CheW interface [polypeptide binding]; other site 314275006500 ferric uptake regulator; Provisional; Region: fur; PRK09462 314275006501 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314275006502 metal binding site 2 [ion binding]; metal-binding site 314275006503 putative DNA binding helix; other site 314275006504 metal binding site 1 [ion binding]; metal-binding site 314275006505 dimer interface [polypeptide binding]; other site 314275006506 structural Zn2+ binding site [ion binding]; other site 314275006507 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 314275006508 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 314275006509 homodimer interface [polypeptide binding]; other site 314275006510 substrate-cofactor binding pocket; other site 314275006511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006512 catalytic residue [active] 314275006513 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 314275006514 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 314275006515 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 314275006516 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 314275006517 putative active site [active] 314275006518 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 314275006519 S1 domain; Region: S1_2; pfam13509 314275006520 OsmC-like protein; Region: OsmC; cl00767 314275006521 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275006522 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275006523 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275006524 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 314275006525 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314275006526 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 314275006527 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 314275006528 aminotransferase AlaT; Validated; Region: PRK09265 314275006529 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 314275006530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006531 homodimer interface [polypeptide binding]; other site 314275006532 catalytic residue [active] 314275006533 5'-nucleotidase; Provisional; Region: PRK03826 314275006534 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 314275006535 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 314275006536 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 314275006537 TMAO/DMSO reductase; Reviewed; Region: PRK05363 314275006538 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 314275006539 Moco binding site; other site 314275006540 metal coordination site [ion binding]; other site 314275006541 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 314275006542 Predicted membrane protein [Function unknown]; Region: COG1238 314275006543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 314275006544 SEC-C motif; Region: SEC-C; pfam02810 314275006545 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314275006546 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 314275006547 NAD(P) binding site [chemical binding]; other site 314275006548 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 314275006549 Phosphotransferase enzyme family; Region: APH; pfam01636 314275006550 putative active site [active] 314275006551 putative substrate binding site [chemical binding]; other site 314275006552 ATP binding site [chemical binding]; other site 314275006553 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 314275006554 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275006555 active site 314275006556 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 314275006557 catalytic core [active] 314275006558 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 314275006559 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275006560 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275006561 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 314275006562 XdhC Rossmann domain; Region: XdhC_C; pfam13478 314275006563 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 314275006564 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 314275006565 catalytic residues [active] 314275006566 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 314275006567 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 314275006568 FeS/SAM binding site; other site 314275006569 HemN C-terminal domain; Region: HemN_C; pfam06969 314275006570 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 314275006571 ATP-binding cassette domain of the binding protein-dependent transport systems; Region: ABC_Class3; cd03229 314275006572 Walker A/P-loop; other site 314275006573 ATP binding site [chemical binding]; other site 314275006574 Q-loop/lid; other site 314275006575 ABC transporter signature motif; other site 314275006576 Walker B; other site 314275006577 D-loop; other site 314275006578 H-loop/switch region; other site 314275006579 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 314275006580 putative PBP binding loops; other site 314275006581 ABC-ATPase subunit interface; other site 314275006582 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 314275006583 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 314275006584 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 314275006585 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 314275006586 MoaE homodimer interface [polypeptide binding]; other site 314275006587 MoaD interaction [polypeptide binding]; other site 314275006588 active site residues [active] 314275006589 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 314275006590 MoaE interaction surface [polypeptide binding]; other site 314275006591 MoeB interaction surface [polypeptide binding]; other site 314275006592 thiocarboxylated glycine; other site 314275006593 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 314275006594 trimer interface [polypeptide binding]; other site 314275006595 dimer interface [polypeptide binding]; other site 314275006596 putative active site [active] 314275006597 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 314275006598 MPT binding site; other site 314275006599 trimer interface [polypeptide binding]; other site 314275006600 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 314275006601 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 314275006602 ATP binding site [chemical binding]; other site 314275006603 substrate interface [chemical binding]; other site 314275006604 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 314275006605 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 314275006606 active site 314275006607 Zn binding site [ion binding]; other site 314275006608 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 314275006609 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 314275006610 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 314275006611 active site 314275006612 aminotransferase; Validated; Region: PRK07337 314275006613 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 314275006614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006615 homodimer interface [polypeptide binding]; other site 314275006616 catalytic residue [active] 314275006617 Uncharacterized conserved protein [Function unknown]; Region: COG3268 314275006618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275006619 NAD(P) binding site [chemical binding]; other site 314275006620 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 314275006621 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 314275006622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275006623 homodimer interface [polypeptide binding]; other site 314275006624 catalytic residue [active] 314275006625 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 314275006626 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 314275006627 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 314275006628 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional; Region: PRK08575 314275006629 substrate binding site [chemical binding]; other site 314275006630 THF binding site; other site 314275006631 zinc-binding site [ion binding]; other site 314275006632 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275006633 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275006634 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 314275006635 active site 2 [active] 314275006636 active site 1 [active] 314275006637 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 314275006638 EamA-like transporter family; Region: EamA; pfam00892 314275006639 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 314275006640 AAA domain; Region: AAA_30; pfam13604 314275006641 Family description; Region: UvrD_C_2; pfam13538 314275006642 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 314275006643 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 314275006644 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 314275006645 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 314275006646 dUTPase; Region: dUTPase_2; pfam08761 314275006647 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 314275006648 active site 314275006649 homodimer interface [polypeptide binding]; other site 314275006650 metal binding site [ion binding]; metal-binding site 314275006651 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 314275006652 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 314275006653 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 314275006654 acyl-activating enzyme (AAE) consensus motif; other site 314275006655 putative AMP binding site [chemical binding]; other site 314275006656 putative active site [active] 314275006657 putative CoA binding site [chemical binding]; other site 314275006658 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 314275006659 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 314275006660 PAS domain; Region: PAS_9; pfam13426 314275006661 putative active site [active] 314275006662 heme pocket [chemical binding]; other site 314275006663 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275006664 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275006665 metal binding site [ion binding]; metal-binding site 314275006666 active site 314275006667 I-site; other site 314275006668 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 314275006669 conserved hypothetical protein; Region: MG423; TIGR00649 314275006670 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314275006671 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 314275006672 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 314275006673 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 314275006674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275006675 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314275006676 dimerization interface [polypeptide binding]; other site 314275006677 Protein of unknown function, DUF; Region: DUF413; pfam04219 314275006678 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 314275006679 dimerization interface [polypeptide binding]; other site 314275006680 putative DNA binding site [nucleotide binding]; other site 314275006681 putative Zn2+ binding site [ion binding]; other site 314275006682 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 314275006683 active site residue [active] 314275006684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275006685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275006686 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314275006687 dimerization interface [polypeptide binding]; other site 314275006688 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 314275006689 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 314275006690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006691 active site 314275006692 phosphorylation site [posttranslational modification] 314275006693 intermolecular recognition site; other site 314275006694 dimerization interface [polypeptide binding]; other site 314275006695 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 314275006696 Walker A motif; other site 314275006697 ATP binding site [chemical binding]; other site 314275006698 Walker B motif; other site 314275006699 arginine finger; other site 314275006700 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314275006701 CHASE3 domain; Region: CHASE3; pfam05227 314275006702 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 314275006703 dimer interface [polypeptide binding]; other site 314275006704 phosphorylation site [posttranslational modification] 314275006705 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 314275006706 ATP binding site [chemical binding]; other site 314275006707 Mg2+ binding site [ion binding]; other site 314275006708 G-X-G motif; other site 314275006709 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275006710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006711 active site 314275006712 phosphorylation site [posttranslational modification] 314275006713 intermolecular recognition site; other site 314275006714 dimerization interface [polypeptide binding]; other site 314275006715 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275006716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006717 active site 314275006718 phosphorylation site [posttranslational modification] 314275006719 intermolecular recognition site; other site 314275006720 dimerization interface [polypeptide binding]; other site 314275006721 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275006722 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 314275006723 dimer interface [polypeptide binding]; other site 314275006724 phosphorylation site [posttranslational modification] 314275006725 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 314275006726 ATP binding site [chemical binding]; other site 314275006727 Mg2+ binding site [ion binding]; other site 314275006728 G-X-G motif; other site 314275006729 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275006730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006731 active site 314275006732 phosphorylation site [posttranslational modification] 314275006733 intermolecular recognition site; other site 314275006734 dimerization interface [polypeptide binding]; other site 314275006735 Response regulator receiver domain; Region: Response_reg; pfam00072 314275006736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006737 active site 314275006738 phosphorylation site [posttranslational modification] 314275006739 intermolecular recognition site; other site 314275006740 dimerization interface [polypeptide binding]; other site 314275006741 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314275006742 HD domain; Region: HD_3; cl17350 314275006743 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 314275006744 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 314275006745 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 314275006746 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 314275006747 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 314275006748 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314275006749 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 314275006750 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 314275006751 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314275006752 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 314275006753 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 314275006754 putative active site [active] 314275006755 Zn binding site [ion binding]; other site 314275006756 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 314275006757 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 314275006758 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 314275006759 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 314275006760 methionine sulfoxide reductase B; Provisional; Region: PRK00222 314275006761 SelR domain; Region: SelR; pfam01641 314275006762 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 314275006763 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 314275006764 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 314275006765 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 314275006766 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 314275006767 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 314275006768 active site 314275006769 catalytic site [active] 314275006770 glycogen branching enzyme; Provisional; Region: PRK05402 314275006771 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 314275006772 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 314275006773 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 314275006774 active site 314275006775 catalytic site [active] 314275006776 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 314275006777 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 314275006778 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 314275006779 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 314275006780 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 314275006781 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 314275006782 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 314275006783 active site 314275006784 phosphate binding residues; other site 314275006785 catalytic residues [active] 314275006786 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 314275006787 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 314275006788 active site 314275006789 intersubunit interface [polypeptide binding]; other site 314275006790 catalytic residue [active] 314275006791 glucokinase; Provisional; Region: glk; PRK00292 314275006792 glucokinase, proteobacterial type; Region: glk; TIGR00749 314275006793 phosphogluconate dehydratase; Validated; Region: PRK09054 314275006794 6-phosphogluconate dehydratase; Region: edd; TIGR01196 314275006795 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 314275006796 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 314275006797 putative active site [active] 314275006798 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 314275006799 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 314275006800 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 314275006801 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 314275006802 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314275006803 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 314275006804 putative active site [active] 314275006805 pyruvate kinase; Provisional; Region: PRK05826 314275006806 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 314275006807 domain interfaces; other site 314275006808 active site 314275006809 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 314275006810 Alginate lyase; Region: Alginate_lyase2; pfam08787 314275006811 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 314275006812 BON domain; Region: BON; pfam04972 314275006813 BON domain; Region: BON; pfam04972 314275006814 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 314275006815 putative catalytic site [active] 314275006816 putative metal binding site [ion binding]; other site 314275006817 putative phosphate binding site [ion binding]; other site 314275006818 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 314275006819 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 314275006820 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 314275006821 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 314275006822 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 314275006823 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 314275006824 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 314275006825 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 314275006826 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 314275006827 dimer interface [polypeptide binding]; other site 314275006828 phosphorylation site [posttranslational modification] 314275006829 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 314275006830 ATP binding site [chemical binding]; other site 314275006831 Mg2+ binding site [ion binding]; other site 314275006832 G-X-G motif; other site 314275006833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006834 active site 314275006835 phosphorylation site [posttranslational modification] 314275006836 intermolecular recognition site; other site 314275006837 Response regulator receiver domain; Region: Response_reg; pfam00072 314275006838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275006839 active site 314275006840 phosphorylation site [posttranslational modification] 314275006841 intermolecular recognition site; other site 314275006842 dimerization interface [polypeptide binding]; other site 314275006843 WYL domain; Region: WYL; pfam13280 314275006844 PEP-CTERM motif; Region: VPEP; pfam07589 314275006845 Endonuclease I; Region: Endonuclease_1; pfam04231 314275006846 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 314275006847 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 314275006848 generic binding surface I; other site 314275006849 generic binding surface II; other site 314275006850 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 314275006851 putative active site [active] 314275006852 putative catalytic site [active] 314275006853 putative Mg binding site IVb [ion binding]; other site 314275006854 putative phosphate binding site [ion binding]; other site 314275006855 putative DNA binding site [nucleotide binding]; other site 314275006856 putative Mg binding site IVa [ion binding]; other site 314275006857 HAMP domain; Region: HAMP; pfam00672 314275006858 dimerization interface [polypeptide binding]; other site 314275006859 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275006860 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275006861 dimer interface [polypeptide binding]; other site 314275006862 putative CheW interface [polypeptide binding]; other site 314275006863 DNA topoisomerase I; Validated; Region: PRK07219 314275006864 PBP superfamily domain; Region: PBP_like_2; cl17296 314275006865 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275006866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275006867 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 314275006868 dimerization interface [polypeptide binding]; other site 314275006869 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 314275006870 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 314275006871 dimer interface [polypeptide binding]; other site 314275006872 active site 314275006873 metal binding site [ion binding]; metal-binding site 314275006874 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275006875 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275006876 metal binding site [ion binding]; metal-binding site 314275006877 active site 314275006878 I-site; other site 314275006879 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 314275006880 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 314275006881 putative FMN binding site [chemical binding]; other site 314275006882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 314275006883 active site 314275006884 phosphorylation site [posttranslational modification] 314275006885 intermolecular recognition site; other site 314275006886 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 314275006887 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 314275006888 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275006889 Zn2+ binding site [ion binding]; other site 314275006890 Mg2+ binding site [ion binding]; other site 314275006891 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314275006892 GAF domain; Region: GAF; pfam01590 314275006893 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275006894 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 314275006895 dimer interface [polypeptide binding]; other site 314275006896 phosphorylation site [posttranslational modification] 314275006897 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 314275006898 ATP binding site [chemical binding]; other site 314275006899 Mg2+ binding site [ion binding]; other site 314275006900 G-X-G motif; other site 314275006901 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314275006902 integrase; Provisional; Region: int; PHA02601 314275006903 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 314275006904 active site 314275006905 DNA binding site [nucleotide binding] 314275006906 Int/Topo IB signature motif; other site 314275006907 multiple promoter invertase; Provisional; Region: mpi; PRK13413 314275006908 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 314275006909 catalytic residues [active] 314275006910 catalytic nucleophile [active] 314275006911 Presynaptic Site I dimer interface [polypeptide binding]; other site 314275006912 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 314275006913 Synaptic Flat tetramer interface [polypeptide binding]; other site 314275006914 Synaptic Site I dimer interface [polypeptide binding]; other site 314275006915 DNA binding site [nucleotide binding] 314275006916 Helix-turn-helix domain; Region: HTH_38; pfam13936 314275006917 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 314275006918 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 314275006919 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 314275006920 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 314275006921 transmembrane helices; other site 314275006922 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 314275006923 trimer interface [polypeptide binding]; other site 314275006924 active site 314275006925 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 314275006926 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 314275006927 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 314275006928 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 314275006929 active site 314275006930 HIGH motif; other site 314275006931 KMSKS motif; other site 314275006932 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 314275006933 anticodon binding site; other site 314275006934 tRNA binding surface [nucleotide binding]; other site 314275006935 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 314275006936 dimer interface [polypeptide binding]; other site 314275006937 putative tRNA-binding site [nucleotide binding]; other site 314275006938 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275006939 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275006940 Methyltransferase domain; Region: Methyltransf_11; pfam08241 314275006941 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 314275006942 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 314275006943 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 314275006944 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314275006945 catalytic residue [active] 314275006946 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314275006947 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314275006948 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314275006949 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 314275006950 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 314275006951 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 314275006952 active site 314275006953 HIGH motif; other site 314275006954 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 314275006955 KMSKS motif; other site 314275006956 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 314275006957 tRNA binding surface [nucleotide binding]; other site 314275006958 anticodon binding site; other site 314275006959 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 314275006960 substrate binding site [chemical binding]; other site 314275006961 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 314275006962 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314275006963 putative active site [active] 314275006964 putative metal binding site [ion binding]; other site 314275006965 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 314275006966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 314275006967 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 314275006968 sucrose phosphorylase; Provisional; Region: PRK13840 314275006969 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 314275006970 active site 314275006971 homodimer interface [polypeptide binding]; other site 314275006972 catalytic site [active] 314275006973 Predicted transcriptional regulators [Transcription]; Region: COG1733 314275006974 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 314275006975 dimerization interface [polypeptide binding]; other site 314275006976 putative DNA binding site [nucleotide binding]; other site 314275006977 putative Zn2+ binding site [ion binding]; other site 314275006978 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 314275006979 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 314275006980 NADP binding site [chemical binding]; other site 314275006981 dimer interface [polypeptide binding]; other site 314275006982 hydroperoxidase II; Provisional; Region: katE; PRK11249 314275006983 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 314275006984 tetramer interface [polypeptide binding]; other site 314275006985 heme binding pocket [chemical binding]; other site 314275006986 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 314275006987 domain interactions; other site 314275006988 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 314275006989 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 314275006990 putative NAD(P) binding site [chemical binding]; other site 314275006991 dimer interface [polypeptide binding]; other site 314275006992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275006993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275006994 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 314275006995 putative effector binding pocket; other site 314275006996 dimerization interface [polypeptide binding]; other site 314275006997 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 314275006998 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 314275006999 Protein of unknown function, DUF479; Region: DUF479; cl01203 314275007000 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 314275007001 active site 314275007002 dinuclear metal binding site [ion binding]; other site 314275007003 dimerization interface [polypeptide binding]; other site 314275007004 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 314275007005 amidophosphoribosyltransferase; Provisional; Region: PRK09246 314275007006 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 314275007007 active site 314275007008 tetramer interface [polypeptide binding]; other site 314275007009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314275007010 active site 314275007011 cell division protein DedD; Provisional; Region: PRK11633 314275007012 Sporulation related domain; Region: SPOR; pfam05036 314275007013 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 314275007014 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314275007015 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 314275007016 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 314275007017 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 314275007018 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 314275007019 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 314275007020 dimerization interface 3.5A [polypeptide binding]; other site 314275007021 active site 314275007022 FimV N-terminal domain; Region: FimV_core; TIGR03505 314275007023 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 314275007024 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 314275007025 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 314275007026 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 314275007027 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 314275007028 ligand binding site [chemical binding]; other site 314275007029 NAD binding site [chemical binding]; other site 314275007030 catalytic site [active] 314275007031 homodimer interface [polypeptide binding]; other site 314275007032 aldolase II superfamily protein; Provisional; Region: PRK07044 314275007033 intersubunit interface [polypeptide binding]; other site 314275007034 active site 314275007035 Zn2+ binding site [ion binding]; other site 314275007036 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314275007037 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 314275007038 ligand binding site [chemical binding]; other site 314275007039 flexible hinge region; other site 314275007040 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 314275007041 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 314275007042 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 314275007043 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314275007044 Beta-lactamase; Region: Beta-lactamase; pfam00144 314275007045 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 314275007046 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 314275007047 dimer interface [polypeptide binding]; other site 314275007048 active site 314275007049 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 314275007050 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314275007051 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 314275007052 putative AMP binding site [chemical binding]; other site 314275007053 putative active site [active] 314275007054 acyl-activating enzyme (AAE) consensus motif; other site 314275007055 putative CoA binding site [chemical binding]; other site 314275007056 Kelch motif; Region: Kelch_6; pfam13964 314275007057 Uncharacterized conserved protein [Function unknown]; Region: COG4121 314275007058 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 314275007059 Predicted integral membrane protein [Function unknown]; Region: COG5616 314275007060 Predicted integral membrane protein [Function unknown]; Region: COG5616 314275007061 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 314275007062 active site 314275007063 metal binding site [ion binding]; metal-binding site 314275007064 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 314275007065 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275007066 Coenzyme A binding pocket [chemical binding]; other site 314275007067 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 314275007068 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 314275007069 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 314275007070 DNA binding residues [nucleotide binding] 314275007071 putative dimer interface [polypeptide binding]; other site 314275007072 putative metal binding residues [ion binding]; other site 314275007073 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314275007074 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314275007075 NAD(P) binding site [chemical binding]; other site 314275007076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275007077 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275007078 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275007079 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314275007080 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314275007081 Peptidase M15; Region: Peptidase_M15_3; cl01194 314275007082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 314275007083 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314275007084 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 314275007085 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 314275007086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275007087 Walker A/P-loop; other site 314275007088 ATP binding site [chemical binding]; other site 314275007089 ABC transporter; Region: ABC_tran; pfam00005 314275007090 Q-loop/lid; other site 314275007091 ABC transporter signature motif; other site 314275007092 Walker B; other site 314275007093 D-loop; other site 314275007094 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275007095 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 314275007096 Walker A/P-loop; other site 314275007097 ATP binding site [chemical binding]; other site 314275007098 Q-loop/lid; other site 314275007099 ABC transporter signature motif; other site 314275007100 Walker B; other site 314275007101 D-loop; other site 314275007102 H-loop/switch region; other site 314275007103 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 314275007104 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 314275007105 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 314275007106 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275007107 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 314275007108 dimer interface [polypeptide binding]; other site 314275007109 phosphorylation site [posttranslational modification] 314275007110 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 314275007111 ATP binding site [chemical binding]; other site 314275007112 Mg2+ binding site [ion binding]; other site 314275007113 G-X-G motif; other site 314275007114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275007115 Response regulator receiver domain; Region: Response_reg; pfam00072 314275007116 active site 314275007117 phosphorylation site [posttranslational modification] 314275007118 intermolecular recognition site; other site 314275007119 dimerization interface [polypeptide binding]; other site 314275007120 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275007121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275007122 active site 314275007123 phosphorylation site [posttranslational modification] 314275007124 intermolecular recognition site; other site 314275007125 dimerization interface [polypeptide binding]; other site 314275007126 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 314275007127 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314275007128 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314275007129 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275007130 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314275007131 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314275007132 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275007133 YfcL protein; Region: YfcL; pfam08891 314275007134 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 314275007135 Protein of unknown function, DUF462; Region: DUF462; pfam04315 314275007136 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 314275007137 active site 314275007138 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 314275007139 catalytic motif [active] 314275007140 Catalytic residue [active] 314275007141 HopJ type III effector protein; Region: HopJ; pfam08888 314275007142 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 314275007143 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 314275007144 active site 314275007145 FMN binding site [chemical binding]; other site 314275007146 2,4-decadienoyl-CoA binding site; other site 314275007147 catalytic residue [active] 314275007148 4Fe-4S cluster binding site [ion binding]; other site 314275007149 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 314275007150 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275007151 enoyl-CoA hydratase; Provisional; Region: PRK06142 314275007152 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 314275007153 substrate binding site [chemical binding]; other site 314275007154 oxyanion hole (OAH) forming residues; other site 314275007155 trimer interface [polypeptide binding]; other site 314275007156 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314275007157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275007158 WHG domain; Region: WHG; pfam13305 314275007159 choline dehydrogenase; Validated; Region: PRK02106 314275007160 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 314275007161 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 314275007162 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 314275007163 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 314275007164 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314275007165 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275007166 Bacterial transcriptional repressor; Region: TetR; pfam13972 314275007167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 314275007168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 314275007169 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 314275007170 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 314275007171 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 314275007172 active site 314275007173 nucleophile elbow; other site 314275007174 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 314275007175 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 314275007176 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314275007177 fatty acid metabolism regulator; Provisional; Region: PRK04984 314275007178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314275007179 DNA-binding site [nucleotide binding]; DNA binding site 314275007180 FadR C-terminal domain; Region: FadR_C; pfam07840 314275007181 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 314275007182 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 314275007183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314275007184 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314275007185 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 314275007186 hypothetical protein; Provisional; Region: PRK05170 314275007187 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 314275007188 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 314275007189 Transglycosylase SLT domain; Region: SLT_2; pfam13406 314275007190 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 314275007191 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314275007192 YcgL domain; Region: YcgL; pfam05166 314275007193 ribonuclease D; Provisional; Region: PRK10829 314275007194 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 314275007195 catalytic site [active] 314275007196 putative active site [active] 314275007197 putative substrate binding site [chemical binding]; other site 314275007198 HRDC domain; Region: HRDC; pfam00570 314275007199 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 314275007200 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 314275007201 acyl-activating enzyme (AAE) consensus motif; other site 314275007202 putative AMP binding site [chemical binding]; other site 314275007203 putative active site [active] 314275007204 putative CoA binding site [chemical binding]; other site 314275007205 PGAP1-like protein; Region: PGAP1; pfam07819 314275007206 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314275007207 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 314275007208 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 314275007209 Glycoprotease family; Region: Peptidase_M22; pfam00814 314275007210 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 314275007211 DEAD/DEAH box helicase; Region: DEAD; pfam00270 314275007212 DEAD_2; Region: DEAD_2; pfam06733 314275007213 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 314275007214 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 314275007215 Ca2+ binding site [ion binding]; other site 314275007216 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 314275007217 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 314275007218 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 314275007219 active site 314275007220 catalytic site [active] 314275007221 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 314275007222 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 314275007223 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 314275007224 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 314275007225 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275007226 N-terminal plug; other site 314275007227 ligand-binding site [chemical binding]; other site 314275007228 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 314275007229 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 314275007230 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 314275007231 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 314275007232 histidinol dehydrogenase; Region: hisD; TIGR00069 314275007233 NAD binding site [chemical binding]; other site 314275007234 dimerization interface [polypeptide binding]; other site 314275007235 product binding site; other site 314275007236 substrate binding site [chemical binding]; other site 314275007237 zinc binding site [ion binding]; other site 314275007238 catalytic residues [active] 314275007239 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 314275007240 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 314275007241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275007242 homodimer interface [polypeptide binding]; other site 314275007243 catalytic residue [active] 314275007244 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 314275007245 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 314275007246 active site 314275007247 motif I; other site 314275007248 motif II; other site 314275007249 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 314275007250 putative active site pocket [active] 314275007251 4-fold oligomerization interface [polypeptide binding]; other site 314275007252 metal binding residues [ion binding]; metal-binding site 314275007253 3-fold/trimer interface [polypeptide binding]; other site 314275007254 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 314275007255 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 314275007256 putative active site [active] 314275007257 oxyanion strand; other site 314275007258 catalytic triad [active] 314275007259 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 314275007260 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 314275007261 catalytic residues [active] 314275007262 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 314275007263 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 314275007264 substrate binding site [chemical binding]; other site 314275007265 glutamase interaction surface [polypeptide binding]; other site 314275007266 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 314275007267 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 314275007268 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 314275007269 metal binding site [ion binding]; metal-binding site 314275007270 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 314275007271 Cache domain; Region: Cache_1; pfam02743 314275007272 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314275007273 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275007274 dimerization interface [polypeptide binding]; other site 314275007275 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275007276 dimer interface [polypeptide binding]; other site 314275007277 putative CheW interface [polypeptide binding]; other site 314275007278 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314275007279 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314275007280 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275007281 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314275007282 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314275007283 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314275007284 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275007285 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275007286 N-terminal plug; other site 314275007287 ligand-binding site [chemical binding]; other site 314275007288 MAPEG family; Region: MAPEG; cl09190 314275007289 adenylate kinase; Reviewed; Region: adk; PRK00279 314275007290 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 314275007291 AMP-binding site [chemical binding]; other site 314275007292 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 314275007293 heat shock protein 90; Provisional; Region: PRK05218 314275007294 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 314275007295 ATP binding site [chemical binding]; other site 314275007296 Mg2+ binding site [ion binding]; other site 314275007297 G-X-G motif; other site 314275007298 recombination protein RecR; Reviewed; Region: recR; PRK00076 314275007299 RecR protein; Region: RecR; pfam02132 314275007300 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 314275007301 putative active site [active] 314275007302 putative metal-binding site [ion binding]; other site 314275007303 tetramer interface [polypeptide binding]; other site 314275007304 Response regulator receiver domain; Region: Response_reg; pfam00072 314275007305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275007306 active site 314275007307 phosphorylation site [posttranslational modification] 314275007308 intermolecular recognition site; other site 314275007309 dimerization interface [polypeptide binding]; other site 314275007310 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 314275007311 PAS domain; Region: PAS_9; pfam13426 314275007312 putative active site [active] 314275007313 heme pocket [chemical binding]; other site 314275007314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275007315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275007316 metal binding site [ion binding]; metal-binding site 314275007317 active site 314275007318 I-site; other site 314275007319 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 314275007320 PAS fold; Region: PAS_2; pfam08446 314275007321 GAF domain; Region: GAF; pfam01590 314275007322 Phytochrome region; Region: PHY; pfam00360 314275007323 hypothetical protein; Provisional; Region: PRK13559 314275007324 HWE histidine kinase; Region: HWE_HK; pfam07536 314275007325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275007326 Response regulator receiver domain; Region: Response_reg; pfam00072 314275007327 active site 314275007328 phosphorylation site [posttranslational modification] 314275007329 intermolecular recognition site; other site 314275007330 dimerization interface [polypeptide binding]; other site 314275007331 hypothetical protein; Validated; Region: PRK00153 314275007332 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 314275007333 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 314275007334 Walker A motif; other site 314275007335 ATP binding site [chemical binding]; other site 314275007336 Walker B motif; other site 314275007337 arginine finger; other site 314275007338 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 314275007339 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 314275007340 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314275007341 active site 314275007342 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 314275007343 hypothetical protein; Provisional; Region: PRK05409 314275007344 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 314275007345 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 314275007346 PAS domain; Region: PAS_9; pfam13426 314275007347 putative active site [active] 314275007348 heme pocket [chemical binding]; other site 314275007349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275007350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275007351 metal binding site [ion binding]; metal-binding site 314275007352 active site 314275007353 I-site; other site 314275007354 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 314275007355 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 314275007356 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 314275007357 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 314275007358 binding surface 314275007359 TPR motif; other site 314275007360 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 314275007361 TPR motif; other site 314275007362 binding surface 314275007363 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 314275007364 binding surface 314275007365 TPR motif; other site 314275007366 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 314275007367 TPR motif; other site 314275007368 binding surface 314275007369 D-lactate dehydrogenase; Provisional; Region: PRK11183 314275007370 FAD binding domain; Region: FAD_binding_4; pfam01565 314275007371 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 314275007372 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 314275007373 Clp amino terminal domain; Region: Clp_N; pfam02861 314275007374 Clp amino terminal domain; Region: Clp_N; pfam02861 314275007375 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 314275007376 Walker A motif; other site 314275007377 ATP binding site [chemical binding]; other site 314275007378 Walker B motif; other site 314275007379 arginine finger; other site 314275007380 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 314275007381 Walker A motif; other site 314275007382 ATP binding site [chemical binding]; other site 314275007383 Walker B motif; other site 314275007384 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314275007385 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 314275007386 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 314275007387 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 314275007388 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 314275007389 RNA binding surface [nucleotide binding]; other site 314275007390 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314275007391 active site 314275007392 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 314275007393 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 314275007394 Putative zinc-finger; Region: zf-HC2; pfam13490 314275007395 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 314275007396 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 314275007397 RNA polymerase sigma factor; Provisional; Region: PRK11924 314275007398 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275007399 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 314275007400 DNA binding residues [nucleotide binding] 314275007401 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 314275007402 SnoaL-like domain; Region: SnoaL_2; pfam12680 314275007403 short chain dehydrogenase; Provisional; Region: PRK06101 314275007404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275007405 NAD(P) binding site [chemical binding]; other site 314275007406 active site 314275007407 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 314275007408 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314275007409 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 314275007410 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 314275007411 Histone methylation protein DOT1; Region: DOT1; pfam08123 314275007412 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 314275007413 S-adenosylmethionine binding site [chemical binding]; other site 314275007414 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 314275007415 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 314275007416 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314275007417 ligand binding site [chemical binding]; other site 314275007418 flagellar motor protein PomA; Reviewed; Region: PRK08990 314275007419 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 314275007420 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 314275007421 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314275007422 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314275007423 substrate binding pocket [chemical binding]; other site 314275007424 chain length determination region; other site 314275007425 substrate-Mg2+ binding site; other site 314275007426 catalytic residues [active] 314275007427 aspartate-rich region 1; other site 314275007428 active site lid residues [active] 314275007429 aspartate-rich region 2; other site 314275007430 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 314275007431 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 314275007432 TPP-binding site; other site 314275007433 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 314275007434 PYR/PP interface [polypeptide binding]; other site 314275007435 dimer interface [polypeptide binding]; other site 314275007436 TPP binding site [chemical binding]; other site 314275007437 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314275007438 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 314275007439 tetramer interfaces [polypeptide binding]; other site 314275007440 binuclear metal-binding site [ion binding]; other site 314275007441 thiamine monophosphate kinase; Provisional; Region: PRK05731 314275007442 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 314275007443 ATP binding site [chemical binding]; other site 314275007444 dimerization interface [polypeptide binding]; other site 314275007445 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 314275007446 putative RNA binding site [nucleotide binding]; other site 314275007447 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 314275007448 homopentamer interface [polypeptide binding]; other site 314275007449 active site 314275007450 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 314275007451 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 314275007452 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 314275007453 dimerization interface [polypeptide binding]; other site 314275007454 active site 314275007455 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 314275007456 Lumazine binding domain; Region: Lum_binding; pfam00677 314275007457 Lumazine binding domain; Region: Lum_binding; pfam00677 314275007458 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 314275007459 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 314275007460 catalytic motif [active] 314275007461 Zn binding site [ion binding]; other site 314275007462 RibD C-terminal domain; Region: RibD_C; cl17279 314275007463 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 314275007464 ATP cone domain; Region: ATP-cone; pfam03477 314275007465 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 314275007466 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 314275007467 dimer interface [polypeptide binding]; other site 314275007468 active site 314275007469 glycine-pyridoxal phosphate binding site [chemical binding]; other site 314275007470 folate binding site [chemical binding]; other site 314275007471 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 314275007472 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 314275007473 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 314275007474 trimer interface [polypeptide binding]; other site 314275007475 active site 314275007476 UDP-GlcNAc binding site [chemical binding]; other site 314275007477 lipid binding site [chemical binding]; lipid-binding site 314275007478 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 314275007479 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314275007480 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314275007481 ABC transporter; Region: ABC_tran_2; pfam12848 314275007482 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314275007483 DNA repair protein RadA; Provisional; Region: PRK11823 314275007484 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 314275007485 Walker A motif/ATP binding site; other site 314275007486 ATP binding site [chemical binding]; other site 314275007487 Walker B motif; other site 314275007488 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 314275007489 PilZ domain; Region: PilZ; pfam07238 314275007490 phosphoserine phosphatase SerB; Region: serB; TIGR00338 314275007491 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 314275007492 motif II; other site 314275007493 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314275007494 active site 314275007495 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 314275007496 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 314275007497 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 314275007498 GTPase Era; Reviewed; Region: era; PRK00089 314275007499 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 314275007500 G1 box; other site 314275007501 GTP/Mg2+ binding site [chemical binding]; other site 314275007502 Switch I region; other site 314275007503 G2 box; other site 314275007504 Switch II region; other site 314275007505 G3 box; other site 314275007506 G4 box; other site 314275007507 G5 box; other site 314275007508 KH domain; Region: KH_2; pfam07650 314275007509 ribonuclease III; Reviewed; Region: rnc; PRK00102 314275007510 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 314275007511 dimerization interface [polypeptide binding]; other site 314275007512 active site 314275007513 metal binding site [ion binding]; metal-binding site 314275007514 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 314275007515 dsRNA binding site [nucleotide binding]; other site 314275007516 signal peptidase I; Provisional; Region: PRK10861 314275007517 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 314275007518 Catalytic site [active] 314275007519 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 314275007520 GTP-binding protein LepA; Provisional; Region: PRK05433 314275007521 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 314275007522 G1 box; other site 314275007523 putative GEF interaction site [polypeptide binding]; other site 314275007524 GTP/Mg2+ binding site [chemical binding]; other site 314275007525 Switch I region; other site 314275007526 G2 box; other site 314275007527 G3 box; other site 314275007528 Switch II region; other site 314275007529 G4 box; other site 314275007530 G5 box; other site 314275007531 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 314275007532 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 314275007533 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 314275007534 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 314275007535 anti-sigma E factor; Provisional; Region: rseB; PRK09455 314275007536 MucB/RseB family; Region: MucB_RseB; pfam03888 314275007537 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 314275007538 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 314275007539 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 314275007540 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275007541 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 314275007542 DNA binding residues [nucleotide binding] 314275007543 L-aspartate oxidase; Provisional; Region: PRK09077 314275007544 L-aspartate oxidase; Provisional; Region: PRK06175 314275007545 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 314275007546 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 314275007547 active site 2 [active] 314275007548 active site 1 [active] 314275007549 Uncharacterized conserved protein [Function unknown]; Region: COG2938 314275007550 putative global regulator; Reviewed; Region: PRK09559 314275007551 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 314275007552 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 314275007553 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314275007554 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 314275007555 Nitrogen regulatory protein P-II; Region: P-II; smart00938 314275007556 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 314275007557 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 314275007558 homodimer interface [polypeptide binding]; other site 314275007559 NAD binding pocket [chemical binding]; other site 314275007560 ATP binding pocket [chemical binding]; other site 314275007561 Mg binding site [ion binding]; other site 314275007562 active-site loop [active] 314275007563 Type II transport protein GspH; Region: GspH; pfam12019 314275007564 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 314275007565 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 314275007566 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 314275007567 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 314275007568 von Willebrand factor type A domain; Region: VWA_2; pfam13519 314275007569 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 314275007570 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 314275007571 PilX N-terminal; Region: PilX_N; pfam14341 314275007572 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 314275007573 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 314275007574 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 314275007575 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 314275007576 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 314275007577 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314275007578 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 314275007579 lipoprotein signal peptidase; Provisional; Region: PRK14787 314275007580 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 314275007581 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314275007582 active site 314275007583 HIGH motif; other site 314275007584 nucleotide binding site [chemical binding]; other site 314275007585 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314275007586 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 314275007587 active site 314275007588 KMSKS motif; other site 314275007589 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 314275007590 tRNA binding surface [nucleotide binding]; other site 314275007591 anticodon binding site; other site 314275007592 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314275007593 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 314275007594 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 314275007595 active site 314275007596 Riboflavin kinase; Region: Flavokinase; smart00904 314275007597 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 314275007598 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 314275007599 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 314275007600 Phosphotransferase enzyme family; Region: APH; pfam01636 314275007601 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 314275007602 putative active site [active] 314275007603 putative substrate binding site [chemical binding]; other site 314275007604 ATP binding site [chemical binding]; other site 314275007605 short chain dehydrogenase; Provisional; Region: PRK05650 314275007606 classical (c) SDRs; Region: SDR_c; cd05233 314275007607 NAD(P) binding site [chemical binding]; other site 314275007608 active site 314275007609 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 314275007610 Sodium Bile acid symporter family; Region: SBF; cl17470 314275007611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275007612 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314275007613 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314275007614 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 314275007615 putative active site [active] 314275007616 putative metal binding site [ion binding]; other site 314275007617 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 314275007618 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314275007619 putative acyl-acceptor binding pocket; other site 314275007620 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 314275007621 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 314275007622 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 314275007623 metal binding site [ion binding]; metal-binding site 314275007624 dimer interface [polypeptide binding]; other site 314275007625 periplasmic folding chaperone; Provisional; Region: PRK10788 314275007626 SurA N-terminal domain; Region: SurA_N_3; cl07813 314275007627 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 314275007628 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 314275007629 IHF dimer interface [polypeptide binding]; other site 314275007630 IHF - DNA interface [nucleotide binding]; other site 314275007631 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 314275007632 Found in ATP-dependent protease La (LON); Region: LON; smart00464 314275007633 Found in ATP-dependent protease La (LON); Region: LON; smart00464 314275007634 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 314275007635 Walker A motif; other site 314275007636 ATP binding site [chemical binding]; other site 314275007637 Walker B motif; other site 314275007638 arginine finger; other site 314275007639 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 314275007640 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 314275007641 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 314275007642 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 314275007643 Walker A motif; other site 314275007644 ATP binding site [chemical binding]; other site 314275007645 Walker B motif; other site 314275007646 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314275007647 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 314275007648 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 314275007649 oligomer interface [polypeptide binding]; other site 314275007650 active site residues [active] 314275007651 trigger factor; Provisional; Region: tig; PRK01490 314275007652 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314275007653 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 314275007654 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 314275007655 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 314275007656 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 314275007657 homodimer interface [polypeptide binding]; other site 314275007658 NADP binding site [chemical binding]; other site 314275007659 substrate binding site [chemical binding]; other site 314275007660 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 314275007661 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 314275007662 homodimer interaction site [polypeptide binding]; other site 314275007663 cofactor binding site; other site 314275007664 prolyl-tRNA synthetase; Provisional; Region: PRK09194 314275007665 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 314275007666 dimer interface [polypeptide binding]; other site 314275007667 motif 1; other site 314275007668 active site 314275007669 motif 2; other site 314275007670 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 314275007671 putative deacylase active site [active] 314275007672 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 314275007673 active site 314275007674 motif 3; other site 314275007675 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 314275007676 anticodon binding site; other site 314275007677 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 314275007678 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 314275007679 dimerization interface [polypeptide binding]; other site 314275007680 substrate binding site [chemical binding]; other site 314275007681 active site 314275007682 calcium binding site [ion binding]; other site 314275007683 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275007684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275007685 dimer interface [polypeptide binding]; other site 314275007686 putative CheW interface [polypeptide binding]; other site 314275007687 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 314275007688 GMP synthase; Reviewed; Region: guaA; PRK00074 314275007689 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 314275007690 AMP/PPi binding site [chemical binding]; other site 314275007691 candidate oxyanion hole; other site 314275007692 catalytic triad [active] 314275007693 potential glutamine specificity residues [chemical binding]; other site 314275007694 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 314275007695 ATP Binding subdomain [chemical binding]; other site 314275007696 Ligand Binding sites [chemical binding]; other site 314275007697 Dimerization subdomain; other site 314275007698 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 314275007699 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 314275007700 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 314275007701 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 314275007702 active site 314275007703 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 314275007704 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 314275007705 generic binding surface II; other site 314275007706 generic binding surface I; other site 314275007707 GTP-binding protein Der; Reviewed; Region: PRK00093 314275007708 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 314275007709 G1 box; other site 314275007710 GTP/Mg2+ binding site [chemical binding]; other site 314275007711 Switch I region; other site 314275007712 G2 box; other site 314275007713 Switch II region; other site 314275007714 G3 box; other site 314275007715 G4 box; other site 314275007716 G5 box; other site 314275007717 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 314275007718 G1 box; other site 314275007719 GTP/Mg2+ binding site [chemical binding]; other site 314275007720 Switch I region; other site 314275007721 G2 box; other site 314275007722 G3 box; other site 314275007723 Switch II region; other site 314275007724 G4 box; other site 314275007725 G5 box; other site 314275007726 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 314275007727 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 314275007728 Trp docking motif [polypeptide binding]; other site 314275007729 active site 314275007730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 314275007731 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 314275007732 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 314275007733 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 314275007734 dimer interface [polypeptide binding]; other site 314275007735 motif 1; other site 314275007736 active site 314275007737 motif 2; other site 314275007738 motif 3; other site 314275007739 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 314275007740 anticodon binding site; other site 314275007741 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 314275007742 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 314275007743 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 314275007744 cytoskeletal protein RodZ; Provisional; Region: PRK10856 314275007745 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 314275007746 non-specific DNA binding site [nucleotide binding]; other site 314275007747 salt bridge; other site 314275007748 sequence-specific DNA binding site [nucleotide binding]; other site 314275007749 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 314275007750 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 314275007751 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 314275007752 FeS/SAM binding site; other site 314275007753 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 314275007754 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 314275007755 putative active site [active] 314275007756 putative NTP binding site [chemical binding]; other site 314275007757 putative nucleic acid binding site [nucleotide binding]; other site 314275007758 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 314275007759 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 314275007760 active site 314275007761 multimer interface [polypeptide binding]; other site 314275007762 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 314275007763 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 314275007764 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 314275007765 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 314275007766 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 314275007767 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275007768 catalytic residue [active] 314275007769 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 314275007770 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 314275007771 FeS assembly ATPase SufC; Region: sufC; TIGR01978 314275007772 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 314275007773 Walker A/P-loop; other site 314275007774 ATP binding site [chemical binding]; other site 314275007775 Q-loop/lid; other site 314275007776 ABC transporter signature motif; other site 314275007777 Walker B; other site 314275007778 D-loop; other site 314275007779 H-loop/switch region; other site 314275007780 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 314275007781 putative ABC transporter; Region: ycf24; CHL00085 314275007782 cysteine desulfurase; Provisional; Region: PRK14012 314275007783 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 314275007784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275007785 catalytic residue [active] 314275007786 Transcriptional regulator; Region: Rrf2; cl17282 314275007787 Rrf2 family protein; Region: rrf2_super; TIGR00738 314275007788 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 314275007789 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 314275007790 serine O-acetyltransferase; Region: cysE; TIGR01172 314275007791 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 314275007792 trimer interface [polypeptide binding]; other site 314275007793 active site 314275007794 substrate binding site [chemical binding]; other site 314275007795 CoA binding site [chemical binding]; other site 314275007796 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 314275007797 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 314275007798 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314275007799 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 314275007800 active site 314275007801 dimerization interface [polypeptide binding]; other site 314275007802 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 314275007803 LytTr DNA-binding domain; Region: LytTR; smart00850 314275007804 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 314275007805 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 314275007806 Protein export membrane protein; Region: SecD_SecF; pfam02355 314275007807 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 314275007808 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 314275007809 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 314275007810 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 314275007811 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 314275007812 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 314275007813 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 314275007814 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 314275007815 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 314275007816 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 314275007817 PspA/IM30 family; Region: PspA_IM30; pfam04012 314275007818 Ion channel; Region: Ion_trans_2; pfam07885 314275007819 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 314275007820 Predicted membrane protein [Function unknown]; Region: COG3766 314275007821 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 314275007822 hypothetical protein; Provisional; Region: PRK11653 314275007823 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 314275007824 Rhomboid family; Region: Rhomboid; cl11446 314275007825 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314275007826 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314275007827 Walker A/P-loop; other site 314275007828 ATP binding site [chemical binding]; other site 314275007829 Q-loop/lid; other site 314275007830 ABC transporter signature motif; other site 314275007831 Walker B; other site 314275007832 D-loop; other site 314275007833 H-loop/switch region; other site 314275007834 FtsX-like permease family; Region: FtsX; pfam02687 314275007835 FtsX-like permease family; Region: FtsX; pfam02687 314275007836 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 314275007837 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 314275007838 glutaminase; Provisional; Region: PRK00971 314275007839 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 314275007840 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 314275007841 dimer interface [polypeptide binding]; other site 314275007842 active site 314275007843 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 314275007844 Response regulator receiver domain; Region: Response_reg; pfam00072 314275007845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275007846 active site 314275007847 phosphorylation site [posttranslational modification] 314275007848 intermolecular recognition site; other site 314275007849 dimerization interface [polypeptide binding]; other site 314275007850 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 314275007851 tetramer interface [polypeptide binding]; other site 314275007852 active site 314275007853 Mg2+/Mn2+ binding site [ion binding]; other site 314275007854 isocitrate lyase; Region: PLN02892 314275007855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275007856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275007857 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 314275007858 substrate binding pocket [chemical binding]; other site 314275007859 dimerization interface [polypeptide binding]; other site 314275007860 malate synthase G; Provisional; Region: PRK02999 314275007861 active site 314275007862 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 314275007863 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 314275007864 active site 314275007865 nucleophile elbow; other site 314275007866 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314275007867 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 314275007868 putative NAD(P) binding site [chemical binding]; other site 314275007869 active site 314275007870 putative substrate binding site [chemical binding]; other site 314275007871 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 314275007872 FAD binding domain; Region: FAD_binding_4; pfam01565 314275007873 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 314275007874 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 314275007875 putative active site [active] 314275007876 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 314275007877 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275007878 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 314275007879 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 314275007880 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 314275007881 TPR motif; other site 314275007882 binding surface 314275007883 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 314275007884 TPR motif; other site 314275007885 binding surface 314275007886 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 314275007887 binding surface 314275007888 TPR motif; other site 314275007889 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 314275007890 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 314275007891 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 314275007892 active site 314275007893 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275007894 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 314275007895 putative ADP-binding pocket [chemical binding]; other site 314275007896 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 314275007897 putative active site [active] 314275007898 putative catalytic site [active] 314275007899 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 314275007900 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 314275007901 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 314275007902 active site 314275007903 dimer interface [polypeptide binding]; other site 314275007904 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 314275007905 Ligand Binding Site [chemical binding]; other site 314275007906 Molecular Tunnel; other site 314275007907 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275007908 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 314275007909 putative ADP-binding pocket [chemical binding]; other site 314275007910 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 314275007911 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275007912 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 314275007913 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275007914 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 314275007915 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275007916 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 314275007917 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 314275007918 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 314275007919 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 314275007920 O-Antigen ligase; Region: Wzy_C; cl04850 314275007921 Predicted membrane protein [Function unknown]; Region: COG2246 314275007922 GtrA-like protein; Region: GtrA; pfam04138 314275007923 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 314275007924 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275007925 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 314275007926 Ligand binding site; other site 314275007927 Putative Catalytic site; other site 314275007928 DXD motif; other site 314275007929 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 314275007930 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275007931 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 314275007932 Transposase; Region: HTH_Tnp_1; cl17663 314275007933 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 314275007934 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 314275007935 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275007936 Protein of unknown function, DUF; Region: DUF413; pfam04219 314275007937 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275007938 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 314275007939 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 314275007940 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275007941 active site 314275007942 colanic acid exporter; Provisional; Region: PRK10459 314275007943 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 314275007944 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 314275007945 WbqC-like protein family; Region: WbqC; pfam08889 314275007946 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 314275007947 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 314275007948 inhibitor-cofactor binding pocket; inhibition site 314275007949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275007950 catalytic residue [active] 314275007951 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275007952 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 314275007953 active site 314275007954 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 314275007955 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314275007956 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 314275007957 active site 314275007958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275007959 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 314275007960 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275007961 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 314275007962 Ligand binding site; other site 314275007963 Putative Catalytic site; other site 314275007964 DXD motif; other site 314275007965 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 314275007966 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 314275007967 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 314275007968 trimer interface [polypeptide binding]; other site 314275007969 active site 314275007970 substrate binding site [chemical binding]; other site 314275007971 CoA binding site [chemical binding]; other site 314275007972 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 314275007973 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314275007974 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275007975 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 314275007976 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 314275007977 exosortase A; Region: exosortase_1; TIGR03109 314275007978 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 314275007979 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 314275007980 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 314275007981 putative active site [active] 314275007982 putative catalytic site [active] 314275007983 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 314275007984 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314275007985 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314275007986 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 314275007987 SLBB domain; Region: SLBB; pfam10531 314275007988 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 314275007989 Chain length determinant protein; Region: Wzz; cl15801 314275007990 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 314275007991 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314275007992 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 314275007993 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 314275007994 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314275007995 active site 314275007996 KMSKS motif; other site 314275007997 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 314275007998 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 314275007999 putative ADP binding site [chemical binding]; other site 314275008000 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314275008001 active site 314275008002 HIGH motif; other site 314275008003 nucleotide binding site [chemical binding]; other site 314275008004 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 314275008005 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 314275008006 GIY-YIG motif/motif A; other site 314275008007 putative active site [active] 314275008008 putative metal binding site [ion binding]; other site 314275008009 Tricarboxylate carrier; Region: Mtc; cl04275 314275008010 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 314275008011 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314275008012 metal binding triad; other site 314275008013 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 314275008014 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314275008015 metal binding triad; other site 314275008016 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 314275008017 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 314275008018 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 314275008019 putative acyl-acceptor binding pocket; other site 314275008020 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 314275008021 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314275008022 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 314275008023 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275008024 active site 314275008025 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 314275008026 Integrase core domain; Region: rve; pfam00665 314275008027 DDE domain; Region: DDE_Tnp_IS240; pfam13610 314275008028 Integrase core domain; Region: rve_3; pfam13683 314275008029 Transposase; Region: HTH_Tnp_1; cl17663 314275008030 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 314275008031 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 314275008032 putative active site [active] 314275008033 putative NTP binding site [chemical binding]; other site 314275008034 putative nucleic acid binding site [nucleotide binding]; other site 314275008035 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 314275008036 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275008037 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314275008038 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275008039 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275008040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275008041 metal binding site [ion binding]; metal-binding site 314275008042 active site 314275008043 I-site; other site 314275008044 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 314275008045 thymidine kinase; Provisional; Region: PRK04296 314275008046 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275008047 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275008048 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275008049 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314275008050 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314275008051 DNA binding site [nucleotide binding] 314275008052 domain linker motif; other site 314275008053 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 314275008054 putative dimerization interface [polypeptide binding]; other site 314275008055 putative ligand binding site [chemical binding]; other site 314275008056 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314275008057 active site 314275008058 Pectinacetylesterase; Region: PAE; pfam03283 314275008059 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 314275008060 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 314275008061 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 314275008062 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 314275008063 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 314275008064 GTP/Mg2+ binding site [chemical binding]; other site 314275008065 G4 box; other site 314275008066 G5 box; other site 314275008067 G1 box; other site 314275008068 Switch I region; other site 314275008069 G2 box; other site 314275008070 G3 box; other site 314275008071 Switch II region; other site 314275008072 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 314275008073 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 314275008074 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314275008075 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 314275008076 substrate binding site [chemical binding]; other site 314275008077 oxyanion hole (OAH) forming residues; other site 314275008078 trimer interface [polypeptide binding]; other site 314275008079 Predicted membrane protein [Function unknown]; Region: COG4539 314275008080 META domain; Region: META; pfam03724 314275008081 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 314275008082 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 314275008083 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 314275008084 NAD(P) binding site [chemical binding]; other site 314275008085 catalytic residues [active] 314275008086 choline dehydrogenase; Validated; Region: PRK02106 314275008087 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 314275008088 BCCT family transporter; Region: BCCT; cl00569 314275008089 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 314275008090 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 314275008091 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 314275008092 S-adenosylmethionine binding site [chemical binding]; other site 314275008093 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 314275008094 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 314275008095 active site 314275008096 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 314275008097 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275008098 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 314275008099 active site 314275008100 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 314275008101 RES domain; Region: RES; pfam08808 314275008102 DsrE/DsrF-like family; Region: DrsE; pfam02635 314275008103 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 314275008104 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 314275008105 dimer interface [polypeptide binding]; other site 314275008106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008107 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314275008108 active site 314275008109 phosphorylation site [posttranslational modification] 314275008110 intermolecular recognition site; other site 314275008111 dimerization interface [polypeptide binding]; other site 314275008112 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 314275008113 DNA binding site [nucleotide binding] 314275008114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275008115 HAMP domain; Region: HAMP; pfam00672 314275008116 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 314275008117 dimer interface [polypeptide binding]; other site 314275008118 phosphorylation site [posttranslational modification] 314275008119 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 314275008120 ATP binding site [chemical binding]; other site 314275008121 Mg2+ binding site [ion binding]; other site 314275008122 G-X-G motif; other site 314275008123 adenylate cyclase; Provisional; Region: cyaA; PRK09450 314275008124 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 314275008125 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 314275008126 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 314275008127 Penicillinase repressor; Region: Pencillinase_R; pfam03965 314275008128 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 314275008129 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 314275008130 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 314275008131 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 314275008132 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 314275008133 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 314275008134 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275008135 dimer interface [polypeptide binding]; other site 314275008136 active site 314275008137 metal binding site [ion binding]; metal-binding site 314275008138 glutathione binding site [chemical binding]; other site 314275008139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 314275008140 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 314275008141 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 314275008142 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 314275008143 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 314275008144 catalytic loop [active] 314275008145 iron binding site [ion binding]; other site 314275008146 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 314275008147 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 314275008148 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 314275008149 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 314275008150 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 314275008151 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314275008152 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 314275008153 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 314275008154 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275008155 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 314275008156 hypothetical protein; Provisional; Region: PRK06194 314275008157 classical (c) SDRs; Region: SDR_c; cd05233 314275008158 NAD(P) binding site [chemical binding]; other site 314275008159 active site 314275008160 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 314275008161 classical (c) SDRs; Region: SDR_c; cd05233 314275008162 NAD(P) binding site [chemical binding]; other site 314275008163 active site 314275008164 intracellular protease, PfpI family; Region: PfpI; TIGR01382 314275008165 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 314275008166 proposed catalytic triad [active] 314275008167 conserved cys residue [active] 314275008168 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 314275008169 YaeQ protein; Region: YaeQ; pfam07152 314275008170 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 314275008171 catalytic motif [active] 314275008172 Catalytic residue [active] 314275008173 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 314275008174 putative FMN binding site [chemical binding]; other site 314275008175 putative dimer interface [polypeptide binding]; other site 314275008176 sugar efflux transporter; Region: 2A0120; TIGR00899 314275008177 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 314275008178 putative substrate translocation pore; other site 314275008179 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 314275008180 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314275008181 NADP binding site [chemical binding]; other site 314275008182 dimer interface [polypeptide binding]; other site 314275008183 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 314275008184 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 314275008185 ATP binding site [chemical binding]; other site 314275008186 putative Mg++ binding site [ion binding]; other site 314275008187 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 314275008188 nucleotide binding region [chemical binding]; other site 314275008189 ATP-binding site [chemical binding]; other site 314275008190 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 314275008191 putative hydrophobic ligand binding site [chemical binding]; other site 314275008192 protein interface [polypeptide binding]; other site 314275008193 gate; other site 314275008194 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 314275008195 active site 314275008196 homodimer interface [polypeptide binding]; other site 314275008197 SAM binding site [chemical binding]; other site 314275008198 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314275008199 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 314275008200 binding surface 314275008201 TPR motif; other site 314275008202 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 314275008203 binding surface 314275008204 TPR motif; other site 314275008205 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314275008206 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275008207 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 314275008208 dimer interface [polypeptide binding]; other site 314275008209 phosphorylation site [posttranslational modification] 314275008210 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 314275008211 ATP binding site [chemical binding]; other site 314275008212 Mg2+ binding site [ion binding]; other site 314275008213 G-X-G motif; other site 314275008214 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008216 active site 314275008217 phosphorylation site [posttranslational modification] 314275008218 intermolecular recognition site; other site 314275008219 dimerization interface [polypeptide binding]; other site 314275008220 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275008221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008222 active site 314275008223 phosphorylation site [posttranslational modification] 314275008224 intermolecular recognition site; other site 314275008225 dimerization interface [polypeptide binding]; other site 314275008226 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 314275008227 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 314275008228 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 314275008229 Phytochrome region; Region: PHY; pfam00360 314275008230 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 314275008231 dimer interface [polypeptide binding]; other site 314275008232 phosphorylation site [posttranslational modification] 314275008233 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 314275008234 ATP binding site [chemical binding]; other site 314275008235 Mg2+ binding site [ion binding]; other site 314275008236 G-X-G motif; other site 314275008237 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008239 active site 314275008240 phosphorylation site [posttranslational modification] 314275008241 intermolecular recognition site; other site 314275008242 dimerization interface [polypeptide binding]; other site 314275008243 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 314275008244 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 314275008245 Beta-lactamase; Region: Beta-lactamase; pfam00144 314275008246 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314275008247 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 314275008248 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314275008249 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 314275008250 UreF; Region: UreF; pfam01730 314275008251 urease accessory protein UreE; Provisional; Region: PRK14113 314275008252 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 314275008253 dimer interface [polypeptide binding]; other site 314275008254 catalytic residues [active] 314275008255 urease subunit alpha; Reviewed; Region: ureC; PRK13207 314275008256 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 314275008257 subunit interactions [polypeptide binding]; other site 314275008258 active site 314275008259 flap region; other site 314275008260 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 314275008261 gamma-beta subunit interface [polypeptide binding]; other site 314275008262 alpha-beta subunit interface [polypeptide binding]; other site 314275008263 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 314275008264 alpha-gamma subunit interface [polypeptide binding]; other site 314275008265 beta-gamma subunit interface [polypeptide binding]; other site 314275008266 UreD urease accessory protein; Region: UreD; pfam01774 314275008267 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 314275008268 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 314275008269 Walker A/P-loop; other site 314275008270 ATP binding site [chemical binding]; other site 314275008271 Q-loop/lid; other site 314275008272 ABC transporter signature motif; other site 314275008273 Walker B; other site 314275008274 D-loop; other site 314275008275 H-loop/switch region; other site 314275008276 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 314275008277 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 314275008278 Walker A/P-loop; other site 314275008279 ATP binding site [chemical binding]; other site 314275008280 Q-loop/lid; other site 314275008281 ABC transporter signature motif; other site 314275008282 Walker B; other site 314275008283 D-loop; other site 314275008284 H-loop/switch region; other site 314275008285 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 314275008286 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 314275008287 TM-ABC transporter signature motif; other site 314275008288 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 314275008289 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 314275008290 TM-ABC transporter signature motif; other site 314275008291 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 314275008292 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 314275008293 putative ligand binding site [chemical binding]; other site 314275008294 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 314275008295 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 314275008296 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 314275008297 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 314275008298 dimer interface [polypeptide binding]; other site 314275008299 phosphorylation site [posttranslational modification] 314275008300 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 314275008301 ATP binding site [chemical binding]; other site 314275008302 Mg2+ binding site [ion binding]; other site 314275008303 G-X-G motif; other site 314275008304 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275008305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008306 active site 314275008307 phosphorylation site [posttranslational modification] 314275008308 intermolecular recognition site; other site 314275008309 dimerization interface [polypeptide binding]; other site 314275008310 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008312 active site 314275008313 phosphorylation site [posttranslational modification] 314275008314 intermolecular recognition site; other site 314275008315 dimerization interface [polypeptide binding]; other site 314275008316 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 314275008317 DNA binding residues [nucleotide binding] 314275008318 dimerization interface [polypeptide binding]; other site 314275008319 Fic family protein [Function unknown]; Region: COG3177 314275008320 Fic/DOC family; Region: Fic; pfam02661 314275008321 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 314275008322 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 314275008323 KilA-N domain; Region: KilA-N; pfam04383 314275008324 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 314275008325 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 314275008326 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 314275008327 CT1975-like protein; Region: Cas_CT1975; pfam09344 314275008328 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 314275008329 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 314275008330 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 314275008331 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314275008332 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 314275008333 WYL domain; Region: WYL; pfam13280 314275008334 glycine dehydrogenase; Provisional; Region: PRK05367 314275008335 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 314275008336 tetramer interface [polypeptide binding]; other site 314275008337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275008338 catalytic residue [active] 314275008339 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 314275008340 tetramer interface [polypeptide binding]; other site 314275008341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275008342 catalytic residue [active] 314275008343 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 314275008344 lipoyl attachment site [posttranslational modification]; other site 314275008345 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 314275008346 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 314275008347 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 314275008348 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 314275008349 active site 314275008350 dimer interface [polypeptide binding]; other site 314275008351 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 314275008352 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275008353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275008354 LysR substrate binding domain; Region: LysR_substrate; pfam03466 314275008355 dimerization interface [polypeptide binding]; other site 314275008356 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 314275008357 L-lactate permease; Region: Lactate_perm; cl00701 314275008358 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 314275008359 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 314275008360 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 314275008361 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 314275008362 active site 314275008363 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314275008364 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 314275008365 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 314275008366 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314275008367 proline aminopeptidase P II; Provisional; Region: PRK10879 314275008368 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 314275008369 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 314275008370 active site 314275008371 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 314275008372 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 314275008373 active site 314275008374 catalytic site [active] 314275008375 substrate binding site [chemical binding]; other site 314275008376 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 314275008377 sequence-specific DNA binding site [nucleotide binding]; other site 314275008378 salt bridge; other site 314275008379 Peptidase M15; Region: Peptidase_M15_3; cl01194 314275008380 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 314275008381 Fibronectin type III protein; Region: DUF3672; pfam12421 314275008382 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 314275008383 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 314275008384 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 314275008385 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; cl17442 314275008386 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 314275008387 thioester formation/cholesterol transfer; other site 314275008388 Homing endonuclease; Region: Hom_end; pfam05204 314275008389 Terminase-like family; Region: Terminase_6; pfam03237 314275008390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 314275008391 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 314275008392 Bacterial Na+/H+ antiporter B (NhaB); Region: NhaB; cl17323 314275008393 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314275008394 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 314275008395 Walker A motif; other site 314275008396 ATP binding site [chemical binding]; other site 314275008397 Walker B motif; other site 314275008398 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 314275008399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 314275008400 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 314275008401 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 314275008402 active site 314275008403 substrate binding site [chemical binding]; other site 314275008404 catalytic site [active] 314275008405 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 314275008406 active site 314275008407 DNA binding site [nucleotide binding] 314275008408 catalytic site [active] 314275008409 Global regulator protein family; Region: CsrA; cl00670 314275008410 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 314275008411 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314275008412 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 314275008413 ATP binding site [chemical binding]; other site 314275008414 putative Mg++ binding site [ion binding]; other site 314275008415 nucleotide binding region [chemical binding]; other site 314275008416 helicase superfamily c-terminal domain; Region: HELICc; smart00490 314275008417 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 314275008418 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 314275008419 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 314275008420 active site 314275008421 DNA binding site [nucleotide binding] 314275008422 Int/Topo IB signature motif; other site 314275008423 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314275008424 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 314275008425 substrate binding site [chemical binding]; other site 314275008426 dimer interface [polypeptide binding]; other site 314275008427 ATP binding site [chemical binding]; other site 314275008428 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 314275008429 active site 314275008430 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314275008431 GAF domain; Region: GAF; pfam01590 314275008432 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275008433 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 314275008434 dimer interface [polypeptide binding]; other site 314275008435 phosphorylation site [posttranslational modification] 314275008436 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 314275008437 ATP binding site [chemical binding]; other site 314275008438 Mg2+ binding site [ion binding]; other site 314275008439 G-X-G motif; other site 314275008440 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008442 active site 314275008443 phosphorylation site [posttranslational modification] 314275008444 intermolecular recognition site; other site 314275008445 dimerization interface [polypeptide binding]; other site 314275008446 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 314275008447 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 314275008448 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 314275008449 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314275008450 active site 314275008451 dimer interface [polypeptide binding]; other site 314275008452 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 314275008453 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 314275008454 ligand binding site [chemical binding]; other site 314275008455 NAD binding site [chemical binding]; other site 314275008456 tetramer interface [polypeptide binding]; other site 314275008457 catalytic site [active] 314275008458 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 314275008459 L-serine binding site [chemical binding]; other site 314275008460 ACT domain interface; other site 314275008461 Protein of unknown function, DUF481; Region: DUF481; pfam04338 314275008462 Protein of unknown function, DUF481; Region: DUF481; pfam04338 314275008463 HDOD domain; Region: HDOD; pfam08668 314275008464 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 314275008465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 314275008466 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 314275008467 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314275008468 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275008469 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275008470 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 314275008471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275008472 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 314275008473 substrate binding pocket [chemical binding]; other site 314275008474 dimerization interface [polypeptide binding]; other site 314275008475 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 314275008476 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314275008477 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275008478 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314275008479 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 314275008480 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 314275008481 E3 interaction surface; other site 314275008482 lipoyl attachment site [posttranslational modification]; other site 314275008483 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 314275008484 E3 interaction surface; other site 314275008485 lipoyl attachment site [posttranslational modification]; other site 314275008486 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 314275008487 E3 interaction surface; other site 314275008488 lipoyl attachment site [posttranslational modification]; other site 314275008489 e3 binding domain; Region: E3_binding; pfam02817 314275008490 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314275008491 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 314275008492 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 314275008493 dimer interface [polypeptide binding]; other site 314275008494 TPP-binding site [chemical binding]; other site 314275008495 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 314275008496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314275008497 DNA-binding site [nucleotide binding]; DNA binding site 314275008498 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 314275008499 regulatory protein AmpE; Provisional; Region: PRK10987 314275008500 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 314275008501 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 314275008502 amidase catalytic site [active] 314275008503 Zn binding residues [ion binding]; other site 314275008504 substrate binding site [chemical binding]; other site 314275008505 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 314275008506 catalytic motif [active] 314275008507 Catalytic residue [active] 314275008508 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 314275008509 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 314275008510 dimerization interface [polypeptide binding]; other site 314275008511 active site 314275008512 Pilin (bacterial filament); Region: Pilin; pfam00114 314275008513 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 314275008514 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314275008515 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314275008516 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 314275008517 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 314275008518 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 314275008519 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 314275008520 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 314275008521 CoA-binding site [chemical binding]; other site 314275008522 ATP-binding [chemical binding]; other site 314275008523 hypothetical protein; Provisional; Region: PRK05287 314275008524 Domain of unknown function (DUF329); Region: DUF329; pfam03884 314275008525 aspartoacylase; Provisional; Region: PRK02259 314275008526 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 314275008527 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314275008528 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008530 active site 314275008531 phosphorylation site [posttranslational modification] 314275008532 intermolecular recognition site; other site 314275008533 dimerization interface [polypeptide binding]; other site 314275008534 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 314275008535 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 314275008536 P-loop; other site 314275008537 Magnesium ion binding site [ion binding]; other site 314275008538 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 314275008539 Magnesium ion binding site [ion binding]; other site 314275008540 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 314275008541 putative binding surface; other site 314275008542 active site 314275008543 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 314275008544 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 314275008545 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 314275008546 ATP binding site [chemical binding]; other site 314275008547 Mg2+ binding site [ion binding]; other site 314275008548 G-X-G motif; other site 314275008549 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 314275008550 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008552 active site 314275008553 phosphorylation site [posttranslational modification] 314275008554 intermolecular recognition site; other site 314275008555 dimerization interface [polypeptide binding]; other site 314275008556 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 314275008557 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 314275008558 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 314275008559 HEAT repeats; Region: HEAT_2; pfam13646 314275008560 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 314275008561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008562 active site 314275008563 phosphorylation site [posttranslational modification] 314275008564 intermolecular recognition site; other site 314275008565 CheB methylesterase; Region: CheB_methylest; pfam01339 314275008566 CheW-like domain; Region: CheW; pfam01584 314275008567 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 314275008568 CheW-like domain; Region: CheW; pfam01584 314275008569 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314275008570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275008571 dimer interface [polypeptide binding]; other site 314275008572 putative CheW interface [polypeptide binding]; other site 314275008573 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275008574 dimer interface [polypeptide binding]; other site 314275008575 putative CheW interface [polypeptide binding]; other site 314275008576 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 314275008577 active site 314275008578 8-oxo-dGMP binding site [chemical binding]; other site 314275008579 nudix motif; other site 314275008580 metal binding site [ion binding]; metal-binding site 314275008581 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 314275008582 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 314275008583 SEC-C motif; Region: SEC-C; pfam02810 314275008584 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314275008585 Peptidase family M23; Region: Peptidase_M23; pfam01551 314275008586 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 314275008587 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 314275008588 cell division protein FtsZ; Validated; Region: PRK09330 314275008589 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 314275008590 nucleotide binding site [chemical binding]; other site 314275008591 SulA interaction site; other site 314275008592 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 314275008593 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314275008594 nucleotide binding site [chemical binding]; other site 314275008595 Cell division protein FtsA; Region: FtsA; pfam14450 314275008596 cell division protein FtsQ; Provisional; Region: PRK10775 314275008597 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 314275008598 Cell division protein FtsQ; Region: FtsQ; pfam03799 314275008599 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 314275008600 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 314275008601 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314275008602 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 314275008603 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314275008604 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314275008605 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314275008606 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 314275008607 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 314275008608 active site 314275008609 homodimer interface [polypeptide binding]; other site 314275008610 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 314275008611 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 314275008612 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314275008613 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314275008614 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 314275008615 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 314275008616 Mg++ binding site [ion binding]; other site 314275008617 putative catalytic motif [active] 314275008618 putative substrate binding site [chemical binding]; other site 314275008619 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 314275008620 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314275008621 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314275008622 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314275008623 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 314275008624 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314275008625 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314275008626 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314275008627 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 314275008628 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314275008629 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314275008630 Cell division protein FtsL; Region: FtsL; pfam04999 314275008631 MraW methylase family; Region: Methyltransf_5; pfam01795 314275008632 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 314275008633 cell division protein MraZ; Reviewed; Region: PRK00326 314275008634 MraZ protein; Region: MraZ; pfam02381 314275008635 MraZ protein; Region: MraZ; pfam02381 314275008636 SapC; Region: SapC; pfam07277 314275008637 Outer membrane efflux protein; Region: OEP; pfam02321 314275008638 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314275008639 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314275008640 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 314275008641 catalytic triad [active] 314275008642 dimer interface [polypeptide binding]; other site 314275008643 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314275008644 ParA-like protein; Provisional; Region: PHA02518 314275008645 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 314275008646 P-loop; other site 314275008647 Magnesium ion binding site [ion binding]; other site 314275008648 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314275008649 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 314275008650 TPR motif; other site 314275008651 binding surface 314275008652 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314275008653 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275008654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275008655 metal binding site [ion binding]; metal-binding site 314275008656 active site 314275008657 I-site; other site 314275008658 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 314275008659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008660 active site 314275008661 phosphorylation site [posttranslational modification] 314275008662 intermolecular recognition site; other site 314275008663 dimerization interface [polypeptide binding]; other site 314275008664 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 314275008665 Walker A motif; other site 314275008666 ATP binding site [chemical binding]; other site 314275008667 Walker B motif; other site 314275008668 arginine finger; other site 314275008669 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314275008670 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 314275008671 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 314275008672 ATP binding site [chemical binding]; other site 314275008673 Mg2+ binding site [ion binding]; other site 314275008674 G-X-G motif; other site 314275008675 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 314275008676 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 314275008677 active site 314275008678 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275008679 Peptidase family M48; Region: Peptidase_M48; pfam01435 314275008680 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275008681 RNA methyltransferase, RsmE family; Region: TIGR00046 314275008682 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 314275008683 glutathione synthetase; Provisional; Region: PRK05246 314275008684 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 314275008685 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 314275008686 hypothetical protein; Validated; Region: PRK00228 314275008687 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 314275008688 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 314275008689 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 314275008690 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 314275008691 ATP binding site [chemical binding]; other site 314275008692 Walker B motif; other site 314275008693 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 314275008694 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 314275008695 Walker A motif; other site 314275008696 ATP binding site [chemical binding]; other site 314275008697 Walker B motif; other site 314275008698 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 314275008699 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314275008700 catalytic residue [active] 314275008701 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 314275008702 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 314275008703 YGGT family; Region: YGGT; pfam02325 314275008704 YGGT family; Region: YGGT; pfam02325 314275008705 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 314275008706 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 314275008707 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 314275008708 active site 314275008709 FMN binding site [chemical binding]; other site 314275008710 2,4-decadienoyl-CoA binding site; other site 314275008711 catalytic residue [active] 314275008712 4Fe-4S cluster binding site [ion binding]; other site 314275008713 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 314275008714 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275008715 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 314275008716 active site 314275008717 metal binding site [ion binding]; metal-binding site 314275008718 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 314275008719 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314275008720 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 314275008721 putative C-terminal domain interface [polypeptide binding]; other site 314275008722 putative GSH binding site (G-site) [chemical binding]; other site 314275008723 putative dimer interface [polypeptide binding]; other site 314275008724 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314275008725 dimer interface [polypeptide binding]; other site 314275008726 N-terminal domain interface [polypeptide binding]; other site 314275008727 substrate binding pocket (H-site) [chemical binding]; other site 314275008728 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 314275008729 E-class dimer interface [polypeptide binding]; other site 314275008730 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 314275008731 P-class dimer interface [polypeptide binding]; other site 314275008732 active site 314275008733 Cu2+ binding site [ion binding]; other site 314275008734 Zn2+ binding site [ion binding]; other site 314275008735 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 314275008736 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 314275008737 Predicted membrane protein [Function unknown]; Region: COG2323 314275008738 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 314275008739 AzlC protein; Region: AzlC; pfam03591 314275008740 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314275008741 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 314275008742 non-specific DNA binding site [nucleotide binding]; other site 314275008743 salt bridge; other site 314275008744 sequence-specific DNA binding site [nucleotide binding]; other site 314275008745 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 314275008746 MFS transport protein AraJ; Provisional; Region: PRK10091 314275008747 putative substrate translocation pore; other site 314275008748 RNA recognition motif; Region: RRM; smart00360 314275008749 hypothetical protein; Validated; Region: PRK02101 314275008750 transaldolase-like protein; Provisional; Region: PTZ00411 314275008751 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 314275008752 active site 314275008753 dimer interface [polypeptide binding]; other site 314275008754 catalytic residue [active] 314275008755 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 314275008756 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 314275008757 active site 314275008758 dimer interface [polypeptide binding]; other site 314275008759 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 314275008760 dimer interface [polypeptide binding]; other site 314275008761 active site 314275008762 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 314275008763 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 314275008764 ligand binding site [chemical binding]; other site 314275008765 active site 314275008766 UGI interface [polypeptide binding]; other site 314275008767 catalytic site [active] 314275008768 threonine synthase; Validated; Region: PRK09225 314275008769 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 314275008770 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275008771 catalytic residue [active] 314275008772 homoserine kinase; Provisional; Region: PRK01212 314275008773 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 314275008774 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 314275008775 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 314275008776 putative catalytic residues [active] 314275008777 putative nucleotide binding site [chemical binding]; other site 314275008778 putative aspartate binding site [chemical binding]; other site 314275008779 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 314275008780 dimer interface [polypeptide binding]; other site 314275008781 putative threonine allosteric regulatory site; other site 314275008782 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 314275008783 putative threonine allosteric regulatory site; other site 314275008784 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 314275008785 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 314275008786 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314275008787 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 314275008788 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275008789 ABC transporter signature motif; other site 314275008790 Walker B; other site 314275008791 D-loop; other site 314275008792 H-loop/switch region; other site 314275008793 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275008794 Walker A/P-loop; other site 314275008795 ATP binding site [chemical binding]; other site 314275008796 Q-loop/lid; other site 314275008797 ABC transporter signature motif; other site 314275008798 Walker B; other site 314275008799 D-loop; other site 314275008800 H-loop/switch region; other site 314275008801 LysR family transcriptional regulator; Provisional; Region: PRK14997 314275008802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275008803 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314275008804 dimerization interface [polypeptide binding]; other site 314275008805 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 314275008806 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 314275008807 substrate binding site [chemical binding]; other site 314275008808 catalytic Zn binding site [ion binding]; other site 314275008809 NAD binding site [chemical binding]; other site 314275008810 structural Zn binding site [ion binding]; other site 314275008811 dimer interface [polypeptide binding]; other site 314275008812 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 314275008813 catalytic residues [active] 314275008814 active site 314275008815 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 314275008816 dimerization interface [polypeptide binding]; other site 314275008817 putative DNA binding site [nucleotide binding]; other site 314275008818 putative Zn2+ binding site [ion binding]; other site 314275008819 Low molecular weight phosphatase family; Region: LMWPc; cd00115 314275008820 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 314275008821 active site 314275008822 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 314275008823 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314275008824 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 314275008825 arsenical-resistance protein; Region: acr3; TIGR00832 314275008826 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008828 active site 314275008829 phosphorylation site [posttranslational modification] 314275008830 intermolecular recognition site; other site 314275008831 dimerization interface [polypeptide binding]; other site 314275008832 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 314275008833 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 314275008834 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314275008835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008836 active site 314275008837 phosphorylation site [posttranslational modification] 314275008838 intermolecular recognition site; other site 314275008839 dimerization interface [polypeptide binding]; other site 314275008840 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 314275008841 DNA binding site [nucleotide binding] 314275008842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275008843 HAMP domain; Region: HAMP; pfam00672 314275008844 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 314275008845 dimer interface [polypeptide binding]; other site 314275008846 phosphorylation site [posttranslational modification] 314275008847 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 314275008848 ATP binding site [chemical binding]; other site 314275008849 Mg2+ binding site [ion binding]; other site 314275008850 G-X-G motif; other site 314275008851 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 314275008852 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 314275008853 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 314275008854 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275008855 catalytic residue [active] 314275008856 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 314275008857 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 314275008858 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 314275008859 active site 314275008860 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 314275008861 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 314275008862 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 314275008863 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 314275008864 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314275008865 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 314275008866 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 314275008867 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 314275008868 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 314275008869 dimer interface [polypeptide binding]; other site 314275008870 active site 314275008871 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314275008872 catalytic residues [active] 314275008873 substrate binding site [chemical binding]; other site 314275008874 Predicted methyltransferases [General function prediction only]; Region: COG0313 314275008875 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 314275008876 putative SAM binding site [chemical binding]; other site 314275008877 putative homodimer interface [polypeptide binding]; other site 314275008878 LppC putative lipoprotein; Region: LppC; pfam04348 314275008879 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 314275008880 putative ligand binding site [chemical binding]; other site 314275008881 hypothetical protein; Reviewed; Region: PRK12497 314275008882 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 314275008883 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275008884 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 314275008885 dimer interface [polypeptide binding]; other site 314275008886 active site 314275008887 BON domain; Region: BON; pfam04972 314275008888 BON domain; Region: BON; pfam04972 314275008889 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 314275008890 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314275008891 putative substrate translocation pore; other site 314275008892 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 314275008893 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 314275008894 Histidine kinase; Region: HisKA_3; pfam07730 314275008895 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275008896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008897 active site 314275008898 phosphorylation site [posttranslational modification] 314275008899 intermolecular recognition site; other site 314275008900 dimerization interface [polypeptide binding]; other site 314275008901 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 314275008902 DNA binding residues [nucleotide binding] 314275008903 dimerization interface [polypeptide binding]; other site 314275008904 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314275008905 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275008906 N-terminal plug; other site 314275008907 ligand-binding site [chemical binding]; other site 314275008908 Transcriptional regulators [Transcription]; Region: GntR; COG1802 314275008909 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314275008910 DNA-binding site [nucleotide binding]; DNA binding site 314275008911 FCD domain; Region: FCD; pfam07729 314275008912 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 314275008913 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 314275008914 tetramer interface [polypeptide binding]; other site 314275008915 active site 314275008916 Mg2+/Mn2+ binding site [ion binding]; other site 314275008917 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 314275008918 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 314275008919 dimer interface [polypeptide binding]; other site 314275008920 active site 314275008921 citrylCoA binding site [chemical binding]; other site 314275008922 oxalacetate/citrate binding site [chemical binding]; other site 314275008923 coenzyme A binding site [chemical binding]; other site 314275008924 catalytic triad [active] 314275008925 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 314275008926 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 314275008927 substrate binding site [chemical binding]; other site 314275008928 ligand binding site [chemical binding]; other site 314275008929 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 314275008930 substrate binding site [chemical binding]; other site 314275008931 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 314275008932 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275008933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008934 active site 314275008935 phosphorylation site [posttranslational modification] 314275008936 intermolecular recognition site; other site 314275008937 dimerization interface [polypeptide binding]; other site 314275008938 Response regulator receiver domain; Region: Response_reg; pfam00072 314275008939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008940 active site 314275008941 phosphorylation site [posttranslational modification] 314275008942 intermolecular recognition site; other site 314275008943 dimerization interface [polypeptide binding]; other site 314275008944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275008945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275008946 metal binding site [ion binding]; metal-binding site 314275008947 active site 314275008948 I-site; other site 314275008949 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 314275008950 non-specific DNA interactions [nucleotide binding]; other site 314275008951 DNA binding site [nucleotide binding] 314275008952 sequence specific DNA binding site [nucleotide binding]; other site 314275008953 putative cAMP binding site [chemical binding]; other site 314275008954 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 314275008955 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 314275008956 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 314275008957 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 314275008958 MOFRL family; Region: MOFRL; pfam05161 314275008959 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 314275008960 Na binding site [ion binding]; other site 314275008961 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275008962 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275008963 Trehalase; Region: Trehalase; cl17346 314275008964 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 314275008965 dimerization interface [polypeptide binding]; other site 314275008966 putative active cleft [active] 314275008967 Predicted membrane protein [Function unknown]; Region: COG3428 314275008968 Bacterial PH domain; Region: DUF304; pfam03703 314275008969 Bacterial PH domain; Region: DUF304; pfam03703 314275008970 Bacterial PH domain; Region: DUF304; cl01348 314275008971 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 314275008972 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 314275008973 putative active site [active] 314275008974 heme pocket [chemical binding]; other site 314275008975 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 314275008976 dimer interface [polypeptide binding]; other site 314275008977 phosphorylation site [posttranslational modification] 314275008978 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 314275008979 ATP binding site [chemical binding]; other site 314275008980 Mg2+ binding site [ion binding]; other site 314275008981 G-X-G motif; other site 314275008982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275008983 active site 314275008984 phosphorylation site [posttranslational modification] 314275008985 intermolecular recognition site; other site 314275008986 dimerization interface [polypeptide binding]; other site 314275008987 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 314275008988 putative binding surface; other site 314275008989 active site 314275008990 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 314275008991 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 314275008992 amidase catalytic site [active] 314275008993 Zn binding residues [ion binding]; other site 314275008994 substrate binding site [chemical binding]; other site 314275008995 Bacterial SH3 domain; Region: SH3_3; pfam08239 314275008996 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 314275008997 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 314275008998 active site 314275008999 dimer interface [polypeptide binding]; other site 314275009000 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 314275009001 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 314275009002 active site 314275009003 FMN binding site [chemical binding]; other site 314275009004 substrate binding site [chemical binding]; other site 314275009005 3Fe-4S cluster binding site [ion binding]; other site 314275009006 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 314275009007 domain interface; other site 314275009008 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 314275009009 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 314275009010 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275009011 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 314275009012 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 314275009013 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 314275009014 CobD/Cbib protein; Region: CobD_Cbib; cl00561 314275009015 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 314275009016 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 314275009017 cobalamin binding residues [chemical binding]; other site 314275009018 putative BtuC binding residues; other site 314275009019 dimer interface [polypeptide binding]; other site 314275009020 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 314275009021 active site residue [active] 314275009022 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 314275009023 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275009024 Coenzyme A binding pocket [chemical binding]; other site 314275009025 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 314275009026 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 314275009027 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 314275009028 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 314275009029 active site 314275009030 HIGH motif; other site 314275009031 dimer interface [polypeptide binding]; other site 314275009032 KMSKS motif; other site 314275009033 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 314275009034 RNA binding surface [nucleotide binding]; other site 314275009035 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 314275009036 putative peptidase; Provisional; Region: PRK11649 314275009037 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 314275009038 Peptidase family M23; Region: Peptidase_M23; pfam01551 314275009039 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 314275009040 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 314275009041 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 314275009042 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 314275009043 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 314275009044 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 314275009045 FMN binding site [chemical binding]; other site 314275009046 active site 314275009047 substrate binding site [chemical binding]; other site 314275009048 catalytic residue [active] 314275009049 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 314275009050 putative hydrophobic ligand binding site [chemical binding]; other site 314275009051 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 314275009052 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 314275009053 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275009054 catalytic residue [active] 314275009055 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 314275009056 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 314275009057 NAD binding site [chemical binding]; other site 314275009058 ligand binding site [chemical binding]; other site 314275009059 catalytic site [active] 314275009060 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314275009061 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314275009062 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 314275009063 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 314275009064 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 314275009065 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 314275009066 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 314275009067 Switch I; other site 314275009068 Switch II; other site 314275009069 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 314275009070 septum formation inhibitor; Reviewed; Region: minC; PRK00339 314275009071 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 314275009072 fumarate hydratase; Reviewed; Region: fumC; PRK00485 314275009073 Class II fumarases; Region: Fumarase_classII; cd01362 314275009074 active site 314275009075 tetramer interface [polypeptide binding]; other site 314275009076 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 314275009077 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 314275009078 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 314275009079 Cl- selectivity filter; other site 314275009080 Cl- binding residues [ion binding]; other site 314275009081 pore gating glutamate residue; other site 314275009082 dimer interface [polypeptide binding]; other site 314275009083 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 314275009084 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 314275009085 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 314275009086 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 314275009087 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 314275009088 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 314275009089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275009090 homodimer interface [polypeptide binding]; other site 314275009091 catalytic residue [active] 314275009092 Response regulator receiver domain; Region: Response_reg; pfam00072 314275009093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009094 active site 314275009095 phosphorylation site [posttranslational modification] 314275009096 intermolecular recognition site; other site 314275009097 dimerization interface [polypeptide binding]; other site 314275009098 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 314275009099 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 314275009100 G1 box; other site 314275009101 putative GEF interaction site [polypeptide binding]; other site 314275009102 GTP/Mg2+ binding site [chemical binding]; other site 314275009103 Switch I region; other site 314275009104 G2 box; other site 314275009105 G3 box; other site 314275009106 Switch II region; other site 314275009107 G4 box; other site 314275009108 G5 box; other site 314275009109 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 314275009110 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 314275009111 glutamine synthetase; Provisional; Region: glnA; PRK09469 314275009112 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 314275009113 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 314275009114 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 314275009115 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 314275009116 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 314275009117 putative active site [active] 314275009118 heme pocket [chemical binding]; other site 314275009119 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 314275009120 dimer interface [polypeptide binding]; other site 314275009121 phosphorylation site [posttranslational modification] 314275009122 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 314275009123 ATP binding site [chemical binding]; other site 314275009124 Mg2+ binding site [ion binding]; other site 314275009125 G-X-G motif; other site 314275009126 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 314275009127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009128 active site 314275009129 phosphorylation site [posttranslational modification] 314275009130 intermolecular recognition site; other site 314275009131 dimerization interface [polypeptide binding]; other site 314275009132 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 314275009133 Walker A motif; other site 314275009134 ATP binding site [chemical binding]; other site 314275009135 Walker B motif; other site 314275009136 arginine finger; other site 314275009137 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314275009138 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 314275009139 putative binding surface; other site 314275009140 active site 314275009141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275009142 Zn2+ binding site [ion binding]; other site 314275009143 Mg2+ binding site [ion binding]; other site 314275009144 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 314275009145 putative acyl-acceptor binding pocket; other site 314275009146 RNase E inhibitor protein; Provisional; Region: PRK11191 314275009147 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 314275009148 PAS domain; Region: PAS; smart00091 314275009149 PAS domain; Region: PAS_9; pfam13426 314275009150 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 314275009151 putative active site [active] 314275009152 heme pocket [chemical binding]; other site 314275009153 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275009154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275009155 metal binding site [ion binding]; metal-binding site 314275009156 active site 314275009157 I-site; other site 314275009158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 314275009159 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 314275009160 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 314275009161 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 314275009162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275009163 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 314275009164 dimer interface [polypeptide binding]; other site 314275009165 phosphorylation site [posttranslational modification] 314275009166 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 314275009167 ATP binding site [chemical binding]; other site 314275009168 Mg2+ binding site [ion binding]; other site 314275009169 G-X-G motif; other site 314275009170 Response regulator receiver domain; Region: Response_reg; pfam00072 314275009171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009172 active site 314275009173 phosphorylation site [posttranslational modification] 314275009174 intermolecular recognition site; other site 314275009175 dimerization interface [polypeptide binding]; other site 314275009176 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 314275009177 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 314275009178 HIGH motif; other site 314275009179 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314275009180 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 314275009181 active site 314275009182 KMSKS motif; other site 314275009183 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 314275009184 tRNA binding surface [nucleotide binding]; other site 314275009185 anticodon binding site; other site 314275009186 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 314275009187 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 314275009188 multifunctional aminopeptidase A; Provisional; Region: PRK00913 314275009189 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 314275009190 interface (dimer of trimers) [polypeptide binding]; other site 314275009191 Substrate-binding/catalytic site; other site 314275009192 Zn-binding sites [ion binding]; other site 314275009193 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 314275009194 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 314275009195 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 314275009196 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 314275009197 RDD family; Region: RDD; pfam06271 314275009198 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275009199 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275009200 RNA polymerase sigma factor; Provisional; Region: PRK12514 314275009201 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275009202 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 314275009203 DNA binding residues [nucleotide binding] 314275009204 Anti-sigma-K factor rskA; Region: RskA; pfam10099 314275009205 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 314275009206 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 314275009207 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 314275009208 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 314275009209 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 314275009210 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 314275009211 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 314275009212 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 314275009213 homotrimer interaction site [polypeptide binding]; other site 314275009214 putative active site [active] 314275009215 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 314275009216 active site flap/lid [active] 314275009217 nucleophilic elbow; other site 314275009218 catalytic triad [active] 314275009219 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 314275009220 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314275009221 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 314275009222 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 314275009223 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 314275009224 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 314275009225 catalytic site [active] 314275009226 active site 314275009227 Transposase; Region: HTH_Tnp_1; pfam01527 314275009228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314275009229 putative transposase OrfB; Reviewed; Region: PHA02517 314275009230 HTH-like domain; Region: HTH_21; pfam13276 314275009231 Integrase core domain; Region: rve; pfam00665 314275009232 Integrase core domain; Region: rve_3; pfam13683 314275009233 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 314275009234 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275009235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 314275009236 Transposase; Region: DEDD_Tnp_IS110; pfam01548 314275009237 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 314275009238 Predicted periplasmic protein [Function unknown]; Region: COG3904 314275009239 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 314275009240 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 314275009241 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 314275009242 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 314275009243 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 314275009244 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314275009245 Walker A/P-loop; other site 314275009246 ATP binding site [chemical binding]; other site 314275009247 Q-loop/lid; other site 314275009248 ABC transporter signature motif; other site 314275009249 Walker B; other site 314275009250 D-loop; other site 314275009251 H-loop/switch region; other site 314275009252 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 314275009253 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 314275009254 ABC-ATPase subunit interface; other site 314275009255 dimer interface [polypeptide binding]; other site 314275009256 putative PBP binding regions; other site 314275009257 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 314275009258 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 314275009259 intersubunit interface [polypeptide binding]; other site 314275009260 HmuY protein; Region: HmuY; pfam14064 314275009261 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 314275009262 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 314275009263 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275009264 N-terminal plug; other site 314275009265 ligand-binding site [chemical binding]; other site 314275009266 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 314275009267 amphipathic channel; other site 314275009268 Asn-Pro-Ala signature motifs; other site 314275009269 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 314275009270 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275009271 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275009272 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314275009273 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275009274 N-terminal plug; other site 314275009275 ligand-binding site [chemical binding]; other site 314275009276 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 314275009277 Asp-box motif; other site 314275009278 catalytic site [active] 314275009279 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 314275009280 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 314275009281 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314275009282 Beta-Casp domain; Region: Beta-Casp; smart01027 314275009283 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 314275009284 Uncharacterized conserved protein [Function unknown]; Region: COG0397 314275009285 hypothetical protein; Validated; Region: PRK00029 314275009286 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 314275009287 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 314275009288 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 314275009289 active site 314275009290 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 314275009291 NAD binding site [chemical binding]; other site 314275009292 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 314275009293 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314275009294 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275009295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009296 active site 314275009297 phosphorylation site [posttranslational modification] 314275009298 intermolecular recognition site; other site 314275009299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 314275009300 Histidine kinase; Region: HisKA_3; pfam07730 314275009301 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 314275009302 ATP binding site [chemical binding]; other site 314275009303 Mg2+ binding site [ion binding]; other site 314275009304 G-X-G motif; other site 314275009305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275009306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275009307 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 314275009308 dimerization interface [polypeptide binding]; other site 314275009309 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 314275009310 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 314275009311 tetrameric interface [polypeptide binding]; other site 314275009312 NAD binding site [chemical binding]; other site 314275009313 catalytic residues [active] 314275009314 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 314275009315 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 314275009316 BCCT family transporter; Region: BCCT; pfam02028 314275009317 D-lactate dehydrogenase; Provisional; Region: PRK11183 314275009318 FAD binding domain; Region: FAD_binding_4; pfam01565 314275009319 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 314275009320 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275009321 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 314275009322 DNA binding residues [nucleotide binding] 314275009323 dimerization interface [polypeptide binding]; other site 314275009324 lipoprotein; Provisional; Region: PRK11443 314275009325 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 314275009326 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 314275009327 Curli assembly protein CsgE; Region: CsgE; pfam10627 314275009328 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 314275009329 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 314275009330 Curlin associated repeat; Region: Curlin_rpt; pfam07012 314275009331 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 314275009332 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 314275009333 catalytic triad [active] 314275009334 putative active site [active] 314275009335 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 314275009336 FOG: PKD repeat [General function prediction only]; Region: COG3291 314275009337 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 314275009338 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275009339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009340 active site 314275009341 phosphorylation site [posttranslational modification] 314275009342 intermolecular recognition site; other site 314275009343 dimerization interface [polypeptide binding]; other site 314275009344 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 314275009345 DNA binding residues [nucleotide binding] 314275009346 dimerization interface [polypeptide binding]; other site 314275009347 MASE1; Region: MASE1; cl17823 314275009348 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 314275009349 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 314275009350 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314275009351 ATP binding site [chemical binding]; other site 314275009352 Mg++ binding site [ion binding]; other site 314275009353 motif III; other site 314275009354 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 314275009355 nucleotide binding region [chemical binding]; other site 314275009356 ATP-binding site [chemical binding]; other site 314275009357 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275009358 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275009359 metal binding site [ion binding]; metal-binding site 314275009360 active site 314275009361 I-site; other site 314275009362 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 314275009363 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 314275009364 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 314275009365 active site 314275009366 intersubunit interface [polypeptide binding]; other site 314275009367 catalytic residue [active] 314275009368 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 314275009369 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314275009370 ATP binding site [chemical binding]; other site 314275009371 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 314275009372 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314275009373 Fungal tRNA ligase phosphodiesterase domain; Region: tRNA_lig_CPD; pfam08302 314275009374 Competence protein CoiA-like family; Region: CoiA; cl11541 314275009375 PemK-like protein; Region: PemK; cl00995 314275009376 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 314275009377 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314275009378 extended (e) SDRs; Region: SDR_e; cd08946 314275009379 NAD(P) binding site [chemical binding]; other site 314275009380 active site 314275009381 substrate binding site [chemical binding]; other site 314275009382 Vitamin K epoxide reductase family in bacteria; Region: VKOR_2; cd12919 314275009383 putative active site [active] 314275009384 redox center [active] 314275009385 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 314275009386 iron-sulfur cluster [ion binding]; other site 314275009387 [2Fe-2S] cluster binding site [ion binding]; other site 314275009388 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 314275009389 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275009390 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 314275009391 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 314275009392 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 314275009393 D-pathway; other site 314275009394 Putative ubiquinol binding site [chemical binding]; other site 314275009395 Low-spin heme (heme b) binding site [chemical binding]; other site 314275009396 Putative water exit pathway; other site 314275009397 Binuclear center (heme o3/CuB) [ion binding]; other site 314275009398 K-pathway; other site 314275009399 Putative proton exit pathway; other site 314275009400 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 314275009401 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 314275009402 Predicted membrane protein [Function unknown]; Region: COG4244 314275009403 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 314275009404 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314275009405 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 314275009406 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314275009407 Right handed beta helix region; Region: Beta_helix; pfam13229 314275009408 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 314275009409 Transcriptional regulators [Transcription]; Region: FadR; COG2186 314275009410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314275009411 DNA-binding site [nucleotide binding]; DNA binding site 314275009412 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 314275009413 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275009414 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275009415 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 314275009416 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 314275009417 heme binding site [chemical binding]; other site 314275009418 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 314275009419 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314275009420 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 314275009421 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 314275009422 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 314275009423 putative active site [active] 314275009424 putative active site [active] 314275009425 catalytic site [active] 314275009426 catalytic site [active] 314275009427 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 314275009428 putative active site [active] 314275009429 catalytic site [active] 314275009430 Uncharacterized conserved protein [Function unknown]; Region: COG0398 314275009431 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314275009432 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 314275009433 putative catalytic site [active] 314275009434 putative metal binding site [ion binding]; other site 314275009435 putative phosphate binding site [ion binding]; other site 314275009436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275009437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275009438 LysR substrate binding domain; Region: LysR_substrate; pfam03466 314275009439 dimerization interface [polypeptide binding]; other site 314275009440 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275009441 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275009442 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275009443 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314275009444 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 314275009445 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 314275009446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275009447 homodimer interface [polypeptide binding]; other site 314275009448 catalytic residue [active] 314275009449 Response regulator receiver domain; Region: Response_reg; pfam00072 314275009450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009451 active site 314275009452 phosphorylation site [posttranslational modification] 314275009453 intermolecular recognition site; other site 314275009454 dimerization interface [polypeptide binding]; other site 314275009455 CheC-like family; Region: CheC; pfam04509 314275009456 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 314275009457 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 314275009458 ATP binding site [chemical binding]; other site 314275009459 Mg2+ binding site [ion binding]; other site 314275009460 G-X-G motif; other site 314275009461 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314275009462 DNA polymerase II; Reviewed; Region: PRK05762 314275009463 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 314275009464 active site 314275009465 catalytic site [active] 314275009466 substrate binding site [chemical binding]; other site 314275009467 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 314275009468 active site 314275009469 metal-binding site 314275009470 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 314275009471 pseudo EF-hand loop; other site 314275009472 Ca2+ binding site [ion binding]; other site 314275009473 AMP-binding domain protein; Validated; Region: PRK08315 314275009474 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314275009475 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 314275009476 acyl-activating enzyme (AAE) consensus motif; other site 314275009477 acyl-activating enzyme (AAE) consensus motif; other site 314275009478 putative AMP binding site [chemical binding]; other site 314275009479 putative active site [active] 314275009480 putative CoA binding site [chemical binding]; other site 314275009481 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 314275009482 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 314275009483 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 314275009484 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 314275009485 S-adenosylmethionine binding site [chemical binding]; other site 314275009486 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 314275009487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275009488 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 314275009489 Di-iron ligands [ion binding]; other site 314275009490 Fatty acid desaturase; Region: FA_desaturase; pfam00487 314275009491 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 314275009492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275009493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275009494 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314275009495 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 314275009496 ligand binding site [chemical binding]; other site 314275009497 active site 314275009498 Response regulator receiver domain; Region: Response_reg; pfam00072 314275009499 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009500 active site 314275009501 phosphorylation site [posttranslational modification] 314275009502 intermolecular recognition site; other site 314275009503 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 314275009504 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275009505 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275009506 metal binding site [ion binding]; metal-binding site 314275009507 active site 314275009508 I-site; other site 314275009509 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 314275009510 TIGR03899 family protein; Region: TIGR03899 314275009511 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 314275009512 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 314275009513 Active Sites [active] 314275009514 sulfite reductase subunit beta; Provisional; Region: PRK13504 314275009515 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 314275009516 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 314275009517 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 314275009518 Flavodoxin; Region: Flavodoxin_1; pfam00258 314275009519 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 314275009520 FAD binding pocket [chemical binding]; other site 314275009521 FAD binding motif [chemical binding]; other site 314275009522 catalytic residues [active] 314275009523 NAD binding pocket [chemical binding]; other site 314275009524 phosphate binding motif [ion binding]; other site 314275009525 beta-alpha-beta structure motif; other site 314275009526 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 314275009527 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 314275009528 PspC domain; Region: PspC; pfam04024 314275009529 phage shock protein A; Region: phageshock_pspA; TIGR02977 314275009530 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 314275009531 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 314275009532 FMN binding site [chemical binding]; other site 314275009533 active site 314275009534 catalytic residues [active] 314275009535 substrate binding site [chemical binding]; other site 314275009536 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 314275009537 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 314275009538 active site 314275009539 Int/Topo IB signature motif; other site 314275009540 DNA binding site [nucleotide binding] 314275009541 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 314275009542 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 314275009543 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314275009544 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 314275009545 DNA binding site [nucleotide binding] 314275009546 active site 314275009547 Int/Topo IB signature motif; other site 314275009548 HNH endonuclease; Region: HNH_2; pfam13391 314275009549 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 314275009550 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 314275009551 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 314275009552 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 314275009553 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 314275009554 ATP binding site [chemical binding]; other site 314275009555 putative Mg++ binding site [ion binding]; other site 314275009556 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 314275009557 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 314275009558 HsdM N-terminal domain; Region: HsdM_N; pfam12161 314275009559 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 314275009560 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 314275009561 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314275009562 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 314275009563 non-specific DNA binding site [nucleotide binding]; other site 314275009564 salt bridge; other site 314275009565 sequence-specific DNA binding site [nucleotide binding]; other site 314275009566 Domain of unknown function (DUF955); Region: DUF955; pfam06114 314275009567 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 314275009568 hypothetical protein; Provisional; Region: PRK06153 314275009569 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 314275009570 ATP binding site [chemical binding]; other site 314275009571 substrate interface [chemical binding]; other site 314275009572 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 314275009573 hypothetical protein; Provisional; Region: PRK11281 314275009574 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314275009575 ligand binding site [chemical binding]; other site 314275009576 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 314275009577 Rab subfamily motif 1 (RabSF1); other site 314275009578 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 314275009579 G1 box; other site 314275009580 GTP/Mg2+ binding site [chemical binding]; other site 314275009581 Rab subfamily motif 2 (RabSF2); other site 314275009582 Switch I region; other site 314275009583 G2 box; other site 314275009584 effector interaction site; other site 314275009585 GDI interaction site; other site 314275009586 Rab family motif 1 (RabF1); other site 314275009587 GEF interaction site [polypeptide binding]; other site 314275009588 Rab family motif 2 (RabF2); other site 314275009589 G3 box; other site 314275009590 Switch II region; other site 314275009591 Rab family motif 3 (RabF3); other site 314275009592 Rab family motif 4 (RabF4); other site 314275009593 Rab family motif 5 (RabF5); other site 314275009594 Rab subfamily motif 3 (RabSF3); other site 314275009595 G4 box; other site 314275009596 G5 box; other site 314275009597 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275009598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275009599 metal binding site [ion binding]; metal-binding site 314275009600 active site 314275009601 I-site; other site 314275009602 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 314275009603 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 314275009604 S-formylglutathione hydrolase; Region: PLN02442 314275009605 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314275009606 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 314275009607 putative acyl-acceptor binding pocket; other site 314275009608 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314275009609 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 314275009610 putative acyl-acceptor binding pocket; other site 314275009611 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275009612 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275009613 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 314275009614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275009615 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 314275009616 NAD(P) binding site [chemical binding]; other site 314275009617 active site 314275009618 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 314275009619 Na2 binding site [ion binding]; other site 314275009620 putative substrate binding site 1 [chemical binding]; other site 314275009621 Na binding site 1 [ion binding]; other site 314275009622 putative substrate binding site 2 [chemical binding]; other site 314275009623 C factor cell-cell signaling protein; Provisional; Region: PRK09009 314275009624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275009625 NAD(P) binding site [chemical binding]; other site 314275009626 active site 314275009627 Protein of unknown function, DUF393; Region: DUF393; pfam04134 314275009628 methionine sulfoxide reductase A; Provisional; Region: PRK14054 314275009629 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 314275009630 metal binding site [ion binding]; metal-binding site 314275009631 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 314275009632 putative active site [active] 314275009633 putative metal binding site [ion binding]; other site 314275009634 flavodoxin FldB; Provisional; Region: PRK12359 314275009635 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314275009636 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 314275009637 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 314275009638 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 314275009639 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 314275009640 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 314275009641 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 314275009642 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 314275009643 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 314275009644 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314275009645 DXD motif; other site 314275009646 PilZ domain; Region: PilZ; pfam07238 314275009647 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 314275009648 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 314275009649 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 314275009650 S-adenosylmethionine binding site [chemical binding]; other site 314275009651 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 314275009652 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314275009653 NAD binding site [chemical binding]; other site 314275009654 active site 314275009655 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 314275009656 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 314275009657 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314275009658 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 314275009659 pentamer interface [polypeptide binding]; other site 314275009660 dodecaamer interface [polypeptide binding]; other site 314275009661 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 314275009662 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275009663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275009664 metal binding site [ion binding]; metal-binding site 314275009665 active site 314275009666 I-site; other site 314275009667 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 314275009668 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 314275009669 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 314275009670 tetramer interface [polypeptide binding]; other site 314275009671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314275009672 catalytic residue [active] 314275009673 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 314275009674 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 314275009675 active site 314275009676 amino acid transporter; Region: 2A0306; TIGR00909 314275009677 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 314275009678 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275009679 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 314275009680 active site 314275009681 metal binding site [ion binding]; metal-binding site 314275009682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275009683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275009684 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 314275009685 dimerization interface [polypeptide binding]; other site 314275009686 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 314275009687 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 314275009688 putative active site [active] 314275009689 putative dimer interface [polypeptide binding]; other site 314275009690 hypothetical protein; Provisional; Region: PRK11383 314275009691 yiaA/B two helix domain; Region: YiaAB; pfam05360 314275009692 yiaA/B two helix domain; Region: YiaAB; pfam05360 314275009693 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 314275009694 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 314275009695 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 314275009696 Na binding site [ion binding]; other site 314275009697 putative substrate binding site [chemical binding]; other site 314275009698 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275009699 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314275009700 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275009701 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 314275009702 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 314275009703 tetrameric interface [polypeptide binding]; other site 314275009704 NAD binding site [chemical binding]; other site 314275009705 catalytic residues [active] 314275009706 Flavin Reductases; Region: FlaRed; cl00801 314275009707 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 314275009708 putative FMN binding site [chemical binding]; other site 314275009709 pyrimidine utilization protein D; Region: RutD; TIGR03611 314275009710 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 314275009711 homotrimer interaction site [polypeptide binding]; other site 314275009712 putative active site [active] 314275009713 Isochorismatase family; Region: Isochorismatase; pfam00857 314275009714 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 314275009715 catalytic triad [active] 314275009716 conserved cis-peptide bond; other site 314275009717 pyrimidine utilization protein A; Region: RutA; TIGR03612 314275009718 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 314275009719 active site 314275009720 dimer interface [polypeptide binding]; other site 314275009721 non-prolyl cis peptide bond; other site 314275009722 insertion regions; other site 314275009723 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 314275009724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314275009725 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 314275009726 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314275009727 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 314275009728 ligand binding site [chemical binding]; other site 314275009729 flexible hinge region; other site 314275009730 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 314275009731 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 314275009732 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 314275009733 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314275009734 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 314275009735 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 314275009736 active site 314275009737 DNA polymerase IV; Validated; Region: PRK02406 314275009738 DNA binding site [nucleotide binding] 314275009739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 314275009740 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 314275009741 ApbE family; Region: ApbE; pfam02424 314275009742 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 314275009743 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 314275009744 FAD binding pocket [chemical binding]; other site 314275009745 FAD binding motif [chemical binding]; other site 314275009746 phosphate binding motif [ion binding]; other site 314275009747 beta-alpha-beta structure motif; other site 314275009748 NAD binding pocket [chemical binding]; other site 314275009749 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 314275009750 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 314275009751 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 314275009752 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 314275009753 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 314275009754 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 314275009755 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 314275009756 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 314275009757 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 314275009758 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 314275009759 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 314275009760 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 314275009761 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 314275009762 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314275009763 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 314275009764 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 314275009765 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 314275009766 heme binding site [chemical binding]; other site 314275009767 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 314275009768 heme binding site [chemical binding]; other site 314275009769 malate dehydrogenase; Provisional; Region: PRK05086 314275009770 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 314275009771 NAD binding site [chemical binding]; other site 314275009772 dimerization interface [polypeptide binding]; other site 314275009773 Substrate binding site [chemical binding]; other site 314275009774 arginine repressor; Provisional; Region: PRK05066 314275009775 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 314275009776 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 314275009777 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 314275009778 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 314275009779 potential catalytic triad [active] 314275009780 conserved cys residue [active] 314275009781 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 314275009782 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275009783 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275009784 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 314275009785 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 314275009786 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 314275009787 Sugar specificity; other site 314275009788 Pyrimidine base specificity; other site 314275009789 ATP-binding site [chemical binding]; other site 314275009790 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 314275009791 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 314275009792 Nucleoside recognition; Region: Gate; pfam07670 314275009793 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 314275009794 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 314275009795 TPR motif; other site 314275009796 TPR repeat; Region: TPR_11; pfam13414 314275009797 binding surface 314275009798 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 314275009799 binding surface 314275009800 TPR motif; other site 314275009801 TPR repeat; Region: TPR_11; pfam13414 314275009802 MAPEG family; Region: MAPEG; pfam01124 314275009803 Response regulator receiver domain; Region: Response_reg; pfam00072 314275009804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009805 active site 314275009806 phosphorylation site [posttranslational modification] 314275009807 intermolecular recognition site; other site 314275009808 dimerization interface [polypeptide binding]; other site 314275009809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275009810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275009811 metal binding site [ion binding]; metal-binding site 314275009812 active site 314275009813 I-site; other site 314275009814 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 314275009815 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 314275009816 active site 314275009817 catalytic site [active] 314275009818 substrate binding site [chemical binding]; other site 314275009819 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 314275009820 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 314275009821 ligand binding site [chemical binding]; other site 314275009822 flexible hinge region; other site 314275009823 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 314275009824 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314275009825 metal binding triad; other site 314275009826 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 314275009827 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 314275009828 Na binding site [ion binding]; other site 314275009829 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 314275009830 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 314275009831 Na binding site [ion binding]; other site 314275009832 PAS fold; Region: PAS_7; pfam12860 314275009833 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275009834 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 314275009835 dimer interface [polypeptide binding]; other site 314275009836 phosphorylation site [posttranslational modification] 314275009837 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 314275009838 ATP binding site [chemical binding]; other site 314275009839 Mg2+ binding site [ion binding]; other site 314275009840 G-X-G motif; other site 314275009841 Response regulator receiver domain; Region: Response_reg; pfam00072 314275009842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009843 active site 314275009844 phosphorylation site [posttranslational modification] 314275009845 intermolecular recognition site; other site 314275009846 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314275009847 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275009848 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 314275009849 RimK-like ATP-grasp domain; Region: RimK; pfam08443 314275009850 Predicted deacylase [General function prediction only]; Region: COG3608 314275009851 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 314275009852 putative active site [active] 314275009853 Zn binding site [ion binding]; other site 314275009854 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 314275009855 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275009856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275009857 active site 314275009858 phosphorylation site [posttranslational modification] 314275009859 intermolecular recognition site; other site 314275009860 dimerization interface [polypeptide binding]; other site 314275009861 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 314275009862 DNA binding residues [nucleotide binding] 314275009863 dimerization interface [polypeptide binding]; other site 314275009864 acetyl-CoA synthetase; Provisional; Region: PRK00174 314275009865 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 314275009866 active site 314275009867 CoA binding site [chemical binding]; other site 314275009868 acyl-activating enzyme (AAE) consensus motif; other site 314275009869 AMP binding site [chemical binding]; other site 314275009870 acetate binding site [chemical binding]; other site 314275009871 Porin subfamily; Region: Porin_2; pfam02530 314275009872 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 314275009873 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 314275009874 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 314275009875 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 314275009876 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314275009877 active site 314275009878 catalytic tetrad [active] 314275009879 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 314275009880 PAS domain S-box; Region: sensory_box; TIGR00229 314275009881 PAS domain S-box; Region: sensory_box; TIGR00229 314275009882 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 314275009883 putative active site [active] 314275009884 heme pocket [chemical binding]; other site 314275009885 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275009886 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275009887 metal binding site [ion binding]; metal-binding site 314275009888 active site 314275009889 I-site; other site 314275009890 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 314275009891 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 314275009892 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 314275009893 putative active site [active] 314275009894 putative nucleic acid binding site [nucleotide binding]; other site 314275009895 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 314275009896 elongation factor Tu; Reviewed; Region: PRK00049 314275009897 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 314275009898 G1 box; other site 314275009899 GEF interaction site [polypeptide binding]; other site 314275009900 GTP/Mg2+ binding site [chemical binding]; other site 314275009901 Switch I region; other site 314275009902 G2 box; other site 314275009903 G3 box; other site 314275009904 Switch II region; other site 314275009905 G4 box; other site 314275009906 G5 box; other site 314275009907 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 314275009908 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 314275009909 Antibiotic Binding Site [chemical binding]; other site 314275009910 Type III pantothenate kinase; Region: Pan_kinase; cl17198 314275009911 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 314275009912 putative DNA binding site [nucleotide binding]; other site 314275009913 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 314275009914 putative Zn2+ binding site [ion binding]; other site 314275009915 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 314275009916 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 314275009917 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 314275009918 FAD binding domain; Region: FAD_binding_4; pfam01565 314275009919 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 314275009920 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314275009921 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275009922 dimer interface [polypeptide binding]; other site 314275009923 putative CheW interface [polypeptide binding]; other site 314275009924 Outer membrane efflux protein; Region: OEP; pfam02321 314275009925 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314275009926 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275009927 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314275009928 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275009929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275009930 Q-loop/lid; other site 314275009931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314275009932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275009933 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314275009934 dimerization interface [polypeptide binding]; other site 314275009935 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 314275009936 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 314275009937 putative active site [active] 314275009938 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 314275009939 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314275009940 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 314275009941 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 314275009942 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 314275009943 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 314275009944 NAD binding site [chemical binding]; other site 314275009945 substrate binding site [chemical binding]; other site 314275009946 homodimer interface [polypeptide binding]; other site 314275009947 active site 314275009948 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 314275009949 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 314275009950 NADP binding site [chemical binding]; other site 314275009951 active site 314275009952 putative substrate binding site [chemical binding]; other site 314275009953 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 314275009954 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 314275009955 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 314275009956 substrate binding site; other site 314275009957 tetramer interface; other site 314275009958 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314275009959 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 314275009960 active site 314275009961 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 314275009962 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 314275009963 Integrase core domain; Region: rve; pfam00665 314275009964 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275009965 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 314275009966 Protein of unknown function (DUF563); Region: DUF563; pfam04577 314275009967 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 314275009968 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314275009969 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 314275009970 Probable Catalytic site; other site 314275009971 metal-binding site 314275009972 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314275009973 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 314275009974 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 314275009975 Sulfatase; Region: Sulfatase; pfam00884 314275009976 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 314275009977 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 314275009978 active site 314275009979 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 314275009980 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314275009981 Probable Catalytic site; other site 314275009982 metal-binding site 314275009983 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314275009984 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 314275009985 Probable Catalytic site; other site 314275009986 metal-binding site 314275009987 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 314275009988 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 314275009989 Substrate binding site; other site 314275009990 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 314275009991 phosphomannomutase CpsG; Provisional; Region: PRK15414 314275009992 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 314275009993 active site 314275009994 substrate binding site [chemical binding]; other site 314275009995 metal binding site [ion binding]; metal-binding site 314275009996 flagellin; Provisional; Region: PRK12806 314275009997 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314275009998 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 314275009999 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 314275010000 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 314275010001 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 314275010002 alphaNTD homodimer interface [polypeptide binding]; other site 314275010003 alphaNTD - beta interaction site [polypeptide binding]; other site 314275010004 alphaNTD - beta' interaction site [polypeptide binding]; other site 314275010005 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 314275010006 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 314275010007 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 314275010008 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 314275010009 RNA binding surface [nucleotide binding]; other site 314275010010 30S ribosomal protein S11; Validated; Region: PRK05309 314275010011 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 314275010012 30S ribosomal protein S13; Region: bact_S13; TIGR03631 314275010013 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 314275010014 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 314275010015 SecY translocase; Region: SecY; pfam00344 314275010016 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 314275010017 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 314275010018 23S rRNA binding site [nucleotide binding]; other site 314275010019 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 314275010020 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 314275010021 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 314275010022 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 314275010023 5S rRNA interface [nucleotide binding]; other site 314275010024 23S rRNA interface [nucleotide binding]; other site 314275010025 L5 interface [polypeptide binding]; other site 314275010026 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 314275010027 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314275010028 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314275010029 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 314275010030 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 314275010031 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 314275010032 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 314275010033 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 314275010034 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 314275010035 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 314275010036 RNA binding site [nucleotide binding]; other site 314275010037 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 314275010038 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 314275010039 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 314275010040 active site 314275010041 catalytic residues [active] 314275010042 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 314275010043 Abi-like protein; Region: Abi_2; cl01988 314275010044 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 314275010045 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 314275010046 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314275010047 ribonuclease R; Region: RNase_R; TIGR02063 314275010048 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 314275010049 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 314275010050 RNB domain; Region: RNB; pfam00773 314275010051 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 314275010052 RNA binding site [nucleotide binding]; other site 314275010053 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 314275010054 non-specific DNA binding site [nucleotide binding]; other site 314275010055 salt bridge; other site 314275010056 sequence-specific DNA binding site [nucleotide binding]; other site 314275010057 PhoD-like phosphatase; Region: PhoD; pfam09423 314275010058 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 314275010059 putative active site [active] 314275010060 putative metal binding site [ion binding]; other site 314275010061 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 314275010062 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 314275010063 Predicted transcriptional regulator [Transcription]; Region: COG3905 314275010064 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314275010065 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314275010066 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275010067 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 314275010068 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 314275010069 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314275010070 Sel1-like repeats; Region: SEL1; smart00671 314275010071 Phosphate-starvation-inducible E; Region: PsiE; cl01264 314275010072 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 314275010073 FMN reductase; Validated; Region: fre; PRK08051 314275010074 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 314275010075 FAD binding pocket [chemical binding]; other site 314275010076 FAD binding motif [chemical binding]; other site 314275010077 phosphate binding motif [ion binding]; other site 314275010078 beta-alpha-beta structure motif; other site 314275010079 NAD binding pocket [chemical binding]; other site 314275010080 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 314275010081 putative active site [active] 314275010082 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 314275010083 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 314275010084 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 314275010085 Peptidase family M28; Region: Peptidase_M28; pfam04389 314275010086 putative metal binding site [ion binding]; other site 314275010087 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 314275010088 Interdomain contacts; other site 314275010089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314275010090 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 314275010091 GAF domain; Region: GAF; pfam01590 314275010092 Phytochrome region; Region: PHY; pfam00360 314275010093 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 314275010094 dimer interface [polypeptide binding]; other site 314275010095 phosphorylation site [posttranslational modification] 314275010096 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 314275010097 ATP binding site [chemical binding]; other site 314275010098 Mg2+ binding site [ion binding]; other site 314275010099 G-X-G motif; other site 314275010100 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314275010101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275010102 active site 314275010103 phosphorylation site [posttranslational modification] 314275010104 intermolecular recognition site; other site 314275010105 dimerization interface [polypeptide binding]; other site 314275010106 Predicted transcriptional regulators [Transcription]; Region: COG1510 314275010107 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 314275010108 putative DNA binding site [nucleotide binding]; other site 314275010109 putative Zn2+ binding site [ion binding]; other site 314275010110 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 314275010111 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 314275010112 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 314275010113 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314275010114 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 314275010115 putative DNA binding site [nucleotide binding]; other site 314275010116 putative Zn2+ binding site [ion binding]; other site 314275010117 AsnC family; Region: AsnC_trans_reg; pfam01037 314275010118 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 314275010119 DNA-binding site [nucleotide binding]; DNA binding site 314275010120 RNA-binding motif; other site 314275010121 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 314275010122 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 314275010123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 314275010124 SCP-2 sterol transfer family; Region: SCP2; pfam02036 314275010125 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 314275010126 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 314275010127 S-adenosylmethionine binding site [chemical binding]; other site 314275010128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 314275010129 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 314275010130 oligopeptidase A; Provisional; Region: PRK10911 314275010131 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 314275010132 active site 314275010133 Zn binding site [ion binding]; other site 314275010134 Helix-turn-helix domain; Region: HTH_17; pfam12728 314275010135 Response regulator receiver domain; Region: Response_reg; pfam00072 314275010136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275010137 active site 314275010138 phosphorylation site [posttranslational modification] 314275010139 intermolecular recognition site; other site 314275010140 dimerization interface [polypeptide binding]; other site 314275010141 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 314275010142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 314275010143 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275010144 dimerization interface [polypeptide binding]; other site 314275010145 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 314275010146 ATP binding site [chemical binding]; other site 314275010147 Mg2+ binding site [ion binding]; other site 314275010148 G-X-G motif; other site 314275010149 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 314275010150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275010151 active site 314275010152 phosphorylation site [posttranslational modification] 314275010153 intermolecular recognition site; other site 314275010154 dimerization interface [polypeptide binding]; other site 314275010155 HD domain; Region: HD_5; pfam13487 314275010156 glutathione reductase; Validated; Region: PRK06116 314275010157 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314275010158 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314275010159 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314275010160 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 314275010161 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 314275010162 putative [Fe4-S4] binding site [ion binding]; other site 314275010163 putative molybdopterin cofactor binding site [chemical binding]; other site 314275010164 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 314275010165 putative molybdopterin cofactor binding site; other site 314275010166 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314275010167 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 314275010168 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 314275010169 Amidohydrolase; Region: Amidohydro_5; pfam13594 314275010170 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; cd01292 314275010171 active site 314275010172 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 314275010173 PEGA domain; Region: PEGA; pfam08308 314275010174 PEGA domain; Region: PEGA; pfam08308 314275010175 Uncharacterized conserved protein [Function unknown]; Region: COG1262 314275010176 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 314275010177 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 314275010178 metal ion-dependent adhesion site (MIDAS); other site 314275010179 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 314275010180 von Willebrand factor type A domain; Region: VWA_2; pfam13519 314275010181 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 314275010182 tetramerization interface [polypeptide binding]; other site 314275010183 substrate binding pocket [chemical binding]; other site 314275010184 catalytic residues [active] 314275010185 inhibitor binding sites; inhibition site 314275010186 NADP(H) binding site [chemical binding]; other site 314275010187 HlyD family secretion protein; Region: HlyD; pfam00529 314275010188 HlyD family secretion protein; Region: HlyD_3; pfam13437 314275010189 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 314275010190 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 314275010191 putative active site [active] 314275010192 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275010193 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275010194 Walker A/P-loop; other site 314275010195 ATP binding site [chemical binding]; other site 314275010196 Q-loop/lid; other site 314275010197 ABC transporter signature motif; other site 314275010198 Walker B; other site 314275010199 D-loop; other site 314275010200 H-loop/switch region; other site 314275010201 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314275010202 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 314275010203 DNA binding residues [nucleotide binding] 314275010204 dimerization interface [polypeptide binding]; other site 314275010205 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314275010206 putative regulator PrlF; Provisional; Region: PRK09974 314275010207 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 314275010208 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 314275010209 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 314275010210 Walker A motif; other site 314275010211 ATP binding site [chemical binding]; other site 314275010212 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 314275010213 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314275010214 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 314275010215 active site 314275010216 HslU subunit interaction site [polypeptide binding]; other site 314275010217 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 314275010218 Sporulation related domain; Region: SPOR; pfam05036 314275010219 primosome assembly protein PriA; Validated; Region: PRK05580 314275010220 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 314275010221 ATP binding site [chemical binding]; other site 314275010222 putative Mg++ binding site [ion binding]; other site 314275010223 helicase superfamily c-terminal domain; Region: HELICc; smart00490 314275010224 ATP-binding site [chemical binding]; other site 314275010225 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 314275010226 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 314275010227 Malic enzyme, N-terminal domain; Region: malic; pfam00390 314275010228 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 314275010229 putative NAD(P) binding site [chemical binding]; other site 314275010230 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 314275010231 dimerization interface [polypeptide binding]; other site 314275010232 DNA binding site [nucleotide binding] 314275010233 corepressor binding sites; other site 314275010234 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 314275010235 FAD binding site [chemical binding]; other site 314275010236 hypothetical protein; Reviewed; Region: PRK01637 314275010237 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 314275010238 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 314275010239 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 314275010240 putative active site [active] 314275010241 dimerization interface [polypeptide binding]; other site 314275010242 putative tRNAtyr binding site [nucleotide binding]; other site 314275010243 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 314275010244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314275010245 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314275010246 Coenzyme A binding pocket [chemical binding]; other site 314275010247 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 314275010248 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 314275010249 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275010250 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 314275010251 DNA binding residues [nucleotide binding] 314275010252 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 314275010253 EAL domain; Region: EAL; pfam00563 314275010254 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 314275010255 EAL domain; Region: EAL; pfam00563 314275010256 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 314275010257 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 314275010258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275010259 Walker A/P-loop; other site 314275010260 ATP binding site [chemical binding]; other site 314275010261 Q-loop/lid; other site 314275010262 ABC transporter signature motif; other site 314275010263 Walker B; other site 314275010264 D-loop; other site 314275010265 H-loop/switch region; other site 314275010266 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 314275010267 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 314275010268 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 314275010269 P loop; other site 314275010270 GTP binding site [chemical binding]; other site 314275010271 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 314275010272 S-adenosylmethionine binding site [chemical binding]; other site 314275010273 Protein of unknown function (DUF416); Region: DUF416; pfam04222 314275010274 MarC family integral membrane protein; Region: MarC; cl00919 314275010275 aminopeptidase B; Provisional; Region: PRK05015 314275010276 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 314275010277 interface (dimer of trimers) [polypeptide binding]; other site 314275010278 Substrate-binding/catalytic site; other site 314275010279 Zn-binding sites [ion binding]; other site 314275010280 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 314275010281 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 314275010282 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 314275010283 active site 314275010284 HIGH motif; other site 314275010285 nucleotide binding site [chemical binding]; other site 314275010286 KMSKS motif; other site 314275010287 poly(A) polymerase; Region: pcnB; TIGR01942 314275010288 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 314275010289 active site 314275010290 NTP binding site [chemical binding]; other site 314275010291 metal binding triad [ion binding]; metal-binding site 314275010292 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 314275010293 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 314275010294 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 314275010295 catalytic center binding site [active] 314275010296 ATP binding site [chemical binding]; other site 314275010297 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 314275010298 oligomerization interface [polypeptide binding]; other site 314275010299 active site 314275010300 metal binding site [ion binding]; metal-binding site 314275010301 pantoate--beta-alanine ligase; Region: panC; TIGR00018 314275010302 Pantoate-beta-alanine ligase; Region: PanC; cd00560 314275010303 active site 314275010304 ATP-binding site [chemical binding]; other site 314275010305 pantoate-binding site; other site 314275010306 HXXH motif; other site 314275010307 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 314275010308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314275010309 catalytic residue [active] 314275010310 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 314275010311 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 314275010312 S-adenosylmethionine binding site [chemical binding]; other site 314275010313 inner membrane transport permease; Provisional; Region: PRK15066 314275010314 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 314275010315 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314275010316 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314275010317 Walker A/P-loop; other site 314275010318 ATP binding site [chemical binding]; other site 314275010319 Q-loop/lid; other site 314275010320 ABC transporter signature motif; other site 314275010321 Walker B; other site 314275010322 D-loop; other site 314275010323 H-loop/switch region; other site 314275010324 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 314275010325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275010326 active site 314275010327 phosphorylation site [posttranslational modification] 314275010328 intermolecular recognition site; other site 314275010329 dimerization interface [polypeptide binding]; other site 314275010330 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 314275010331 DNA binding site [nucleotide binding] 314275010332 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 314275010333 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 314275010334 putative ligand binding site [chemical binding]; other site 314275010335 HAMP domain; Region: HAMP; pfam00672 314275010336 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 314275010337 dimer interface [polypeptide binding]; other site 314275010338 phosphorylation site [posttranslational modification] 314275010339 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 314275010340 ATP binding site [chemical binding]; other site 314275010341 Mg2+ binding site [ion binding]; other site 314275010342 G-X-G motif; other site 314275010343 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 314275010344 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275010345 N-terminal plug; other site 314275010346 ligand-binding site [chemical binding]; other site 314275010347 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 314275010348 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 314275010349 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 314275010350 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 314275010351 Domain of unknown function DUF21; Region: DUF21; pfam01595 314275010352 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 314275010353 Predicted permeases [General function prediction only]; Region: COG0701 314275010354 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 314275010355 Carbon starvation protein CstA; Region: CstA; pfam02554 314275010356 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 314275010357 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 314275010358 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 314275010359 TraB family; Region: TraB; pfam01963 314275010360 elongation factor Tu; Reviewed; Region: PRK00049 314275010361 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 314275010362 G1 box; other site 314275010363 GEF interaction site [polypeptide binding]; other site 314275010364 GTP/Mg2+ binding site [chemical binding]; other site 314275010365 Switch I region; other site 314275010366 G2 box; other site 314275010367 G3 box; other site 314275010368 Switch II region; other site 314275010369 G4 box; other site 314275010370 G5 box; other site 314275010371 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 314275010372 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 314275010373 Antibiotic Binding Site [chemical binding]; other site 314275010374 elongation factor G; Reviewed; Region: PRK00007 314275010375 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 314275010376 G1 box; other site 314275010377 putative GEF interaction site [polypeptide binding]; other site 314275010378 GTP/Mg2+ binding site [chemical binding]; other site 314275010379 Switch I region; other site 314275010380 G2 box; other site 314275010381 G3 box; other site 314275010382 Switch II region; other site 314275010383 G4 box; other site 314275010384 G5 box; other site 314275010385 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 314275010386 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 314275010387 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 314275010388 30S ribosomal protein S7; Validated; Region: PRK05302 314275010389 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 314275010390 S17 interaction site [polypeptide binding]; other site 314275010391 S8 interaction site; other site 314275010392 16S rRNA interaction site [nucleotide binding]; other site 314275010393 streptomycin interaction site [chemical binding]; other site 314275010394 23S rRNA interaction site [nucleotide binding]; other site 314275010395 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 314275010396 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 314275010397 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 314275010398 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 314275010399 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 314275010400 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 314275010401 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 314275010402 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 314275010403 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 314275010404 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 314275010405 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 314275010406 DNA binding site [nucleotide binding] 314275010407 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 314275010408 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 314275010409 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 314275010410 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 314275010411 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 314275010412 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 314275010413 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 314275010414 RPB3 interaction site [polypeptide binding]; other site 314275010415 RPB1 interaction site [polypeptide binding]; other site 314275010416 RPB11 interaction site [polypeptide binding]; other site 314275010417 RPB10 interaction site [polypeptide binding]; other site 314275010418 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 314275010419 23S rRNA interface [nucleotide binding]; other site 314275010420 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 314275010421 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 314275010422 mRNA/rRNA interface [nucleotide binding]; other site 314275010423 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 314275010424 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 314275010425 23S rRNA interface [nucleotide binding]; other site 314275010426 L7/L12 interface [polypeptide binding]; other site 314275010427 putative thiostrepton binding site; other site 314275010428 L25 interface [polypeptide binding]; other site 314275010429 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 314275010430 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 314275010431 putative homodimer interface [polypeptide binding]; other site 314275010432 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 314275010433 heterodimer interface [polypeptide binding]; other site 314275010434 homodimer interface [polypeptide binding]; other site 314275010435 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 314275010436 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314275010437 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275010438 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 314275010439 Walker A/P-loop; other site 314275010440 ATP binding site [chemical binding]; other site 314275010441 Q-loop/lid; other site 314275010442 ABC transporter signature motif; other site 314275010443 Walker B; other site 314275010444 D-loop; other site 314275010445 H-loop/switch region; other site 314275010446 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 314275010447 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 314275010448 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 314275010449 active site 314275010450 Zn binding site [ion binding]; other site 314275010451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 314275010452 ACT domain; Region: ACT_3; pfam10000 314275010453 Family description; Region: ACT_7; pfam13840 314275010454 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 314275010455 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 314275010456 ATP binding site [chemical binding]; other site 314275010457 Mg++ binding site [ion binding]; other site 314275010458 motif III; other site 314275010459 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 314275010460 nucleotide binding region [chemical binding]; other site 314275010461 ATP-binding site [chemical binding]; other site 314275010462 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 314275010463 putative RNA binding site [nucleotide binding]; other site 314275010464 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 314275010465 active site 314275010466 substrate binding pocket [chemical binding]; other site 314275010467 dimer interface [polypeptide binding]; other site 314275010468 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 314275010469 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 314275010470 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 314275010471 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314275010472 active site 314275010473 catalytic tetrad [active] 314275010474 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_1; cd08352 314275010475 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275010476 putative metal binding site [ion binding]; other site 314275010477 Conserved TM helix; Region: TM_helix; pfam05552 314275010478 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314275010479 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 314275010480 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 314275010481 putative substrate translocation pore; other site 314275010482 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 314275010483 trehalose synthase; Region: treS_nterm; TIGR02456 314275010484 active site 314275010485 catalytic site [active] 314275010486 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 314275010487 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 314275010488 active site 314275010489 dihydromonapterin reductase; Provisional; Region: PRK06483 314275010490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314275010491 NAD(P) binding site [chemical binding]; other site 314275010492 active site 314275010493 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 314275010494 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 314275010495 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 314275010496 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 314275010497 putative active site; other site 314275010498 catalytic triad [active] 314275010499 putative dimer interface [polypeptide binding]; other site 314275010500 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 314275010501 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314275010502 putative active site [active] 314275010503 putative metal binding site [ion binding]; other site 314275010504 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 314275010505 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 314275010506 putative Mg++ binding site [ion binding]; other site 314275010507 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 314275010508 nucleotide binding region [chemical binding]; other site 314275010509 ATP-binding site [chemical binding]; other site 314275010510 DEAD/H associated; Region: DEAD_assoc; pfam08494 314275010511 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 314275010512 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314275010513 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 314275010514 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 314275010515 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 314275010516 active site 314275010517 DNA binding site [nucleotide binding] 314275010518 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 314275010519 DNA binding site [nucleotide binding] 314275010520 elongation factor P; Provisional; Region: PRK04542 314275010521 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 314275010522 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 314275010523 RNA binding site [nucleotide binding]; other site 314275010524 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 314275010525 RNA binding site [nucleotide binding]; other site 314275010526 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314275010527 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 314275010528 putative substrate binding site [chemical binding]; other site 314275010529 putative ATP binding site [chemical binding]; other site 314275010530 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314275010531 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 314275010532 putative DNA binding site [nucleotide binding]; other site 314275010533 putative Zn2+ binding site [ion binding]; other site 314275010534 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 314275010535 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 314275010536 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 314275010537 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 314275010538 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 314275010539 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 314275010540 C-terminal domain interface [polypeptide binding]; other site 314275010541 GSH binding site (G-site) [chemical binding]; other site 314275010542 dimer interface [polypeptide binding]; other site 314275010543 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314275010544 N-terminal domain interface [polypeptide binding]; other site 314275010545 dimer interface [polypeptide binding]; other site 314275010546 substrate binding pocket (H-site) [chemical binding]; other site 314275010547 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314275010548 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 314275010549 putative C-terminal domain interface [polypeptide binding]; other site 314275010550 putative GSH binding site (G-site) [chemical binding]; other site 314275010551 putative dimer interface [polypeptide binding]; other site 314275010552 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314275010553 N-terminal domain interface [polypeptide binding]; other site 314275010554 dimer interface [polypeptide binding]; other site 314275010555 substrate binding pocket (H-site) [chemical binding]; other site 314275010556 lipase chaperone; Provisional; Region: PRK01294 314275010557 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 314275010558 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 314275010559 Putative serine esterase (DUF676); Region: DUF676; pfam05057 314275010560 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 314275010561 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 314275010562 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 314275010563 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 314275010564 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 314275010565 NAD(P) binding site [chemical binding]; other site 314275010566 catalytic residues [active] 314275010567 acetolactate synthase; Reviewed; Region: PRK08322 314275010568 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 314275010569 PYR/PP interface [polypeptide binding]; other site 314275010570 dimer interface [polypeptide binding]; other site 314275010571 TPP binding site [chemical binding]; other site 314275010572 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314275010573 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 314275010574 TPP-binding site [chemical binding]; other site 314275010575 dimer interface [polypeptide binding]; other site 314275010576 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 314275010577 ferrochelatase; Reviewed; Region: hemH; PRK00035 314275010578 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 314275010579 C-terminal domain interface [polypeptide binding]; other site 314275010580 active site 314275010581 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 314275010582 active site 314275010583 N-terminal domain interface [polypeptide binding]; other site 314275010584 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 314275010585 AbgT putative transporter family; Region: ABG_transport; pfam03806 314275010586 FtsH protease regulator HflC; Provisional; Region: PRK11029 314275010587 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 314275010588 FtsH protease regulator HflK; Provisional; Region: PRK10930 314275010589 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 314275010590 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 314275010591 GTPase HflX; Provisional; Region: PRK11058 314275010592 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 314275010593 HflX GTPase family; Region: HflX; cd01878 314275010594 G1 box; other site 314275010595 GTP/Mg2+ binding site [chemical binding]; other site 314275010596 Switch I region; other site 314275010597 G2 box; other site 314275010598 G3 box; other site 314275010599 Switch II region; other site 314275010600 G4 box; other site 314275010601 G5 box; other site 314275010602 bacterial Hfq-like; Region: Hfq; cd01716 314275010603 hexamer interface [polypeptide binding]; other site 314275010604 Sm1 motif; other site 314275010605 RNA binding site [nucleotide binding]; other site 314275010606 Sm2 motif; other site 314275010607 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 314275010608 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 314275010609 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 314275010610 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 314275010611 ATP binding site [chemical binding]; other site 314275010612 Mg2+ binding site [ion binding]; other site 314275010613 G-X-G motif; other site 314275010614 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 314275010615 ATP binding site [chemical binding]; other site 314275010616 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 314275010617 AMIN domain; Region: AMIN; pfam11741 314275010618 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 314275010619 active site 314275010620 metal binding site [ion binding]; metal-binding site 314275010621 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314275010622 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 314275010623 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 314275010624 putative carbohydrate kinase; Provisional; Region: PRK10565 314275010625 Uncharacterized conserved protein [Function unknown]; Region: COG0062 314275010626 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 314275010627 putative substrate binding site [chemical binding]; other site 314275010628 putative ATP binding site [chemical binding]; other site 314275010629 epoxyqueuosine reductase; Region: TIGR00276 314275010630 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 314275010631 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 314275010632 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 314275010633 substrate binding site [chemical binding]; other site 314275010634 active site 314275010635 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 314275010636 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 314275010637 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 314275010638 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 314275010639 putative NADH binding site [chemical binding]; other site 314275010640 putative active site [active] 314275010641 nudix motif; other site 314275010642 putative metal binding site [ion binding]; other site 314275010643 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 314275010644 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314275010645 metal binding site 2 [ion binding]; metal-binding site 314275010646 putative DNA binding helix; other site 314275010647 metal binding site 1 [ion binding]; metal-binding site 314275010648 dimer interface [polypeptide binding]; other site 314275010649 structural Zn2+ binding site [ion binding]; other site 314275010650 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 314275010651 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 314275010652 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 314275010653 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314275010654 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314275010655 ligand binding site [chemical binding]; other site 314275010656 replicative DNA helicase; Region: DnaB; TIGR00665 314275010657 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 314275010658 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 314275010659 Walker A motif; other site 314275010660 ATP binding site [chemical binding]; other site 314275010661 Walker B motif; other site 314275010662 DNA binding loops [nucleotide binding] 314275010663 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 314275010664 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 314275010665 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275010666 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 314275010667 DNA binding residues [nucleotide binding] 314275010668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 314275010669 MOSC domain; Region: MOSC; pfam03473 314275010670 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 314275010671 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 314275010672 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 314275010673 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 314275010674 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 314275010675 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 314275010676 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 314275010677 GAF domain; Region: GAF; pfam01590 314275010678 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275010679 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 314275010680 dimer interface [polypeptide binding]; other site 314275010681 phosphorylation site [posttranslational modification] 314275010682 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 314275010683 ATP binding site [chemical binding]; other site 314275010684 Mg2+ binding site [ion binding]; other site 314275010685 G-X-G motif; other site 314275010686 YebG protein; Region: YebG; pfam07130 314275010687 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314275010688 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314275010689 Walker A/P-loop; other site 314275010690 ATP binding site [chemical binding]; other site 314275010691 Q-loop/lid; other site 314275010692 ABC transporter signature motif; other site 314275010693 Walker B; other site 314275010694 D-loop; other site 314275010695 H-loop/switch region; other site 314275010696 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314275010697 FtsX-like permease family; Region: FtsX; pfam02687 314275010698 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 314275010699 PAS domain; Region: PAS_9; pfam13426 314275010700 putative active site [active] 314275010701 heme pocket [chemical binding]; other site 314275010702 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275010703 dimer interface [polypeptide binding]; other site 314275010704 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 314275010705 putative CheW interface [polypeptide binding]; other site 314275010706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275010707 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 314275010708 ATP binding site [chemical binding]; other site 314275010709 Mg2+ binding site [ion binding]; other site 314275010710 G-X-G motif; other site 314275010711 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314275010712 dimer interface [polypeptide binding]; other site 314275010713 putative CheW interface [polypeptide binding]; other site 314275010714 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 314275010715 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314275010716 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314275010717 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 314275010718 active site 314275010719 catalytic residues [active] 314275010720 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275010721 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275010722 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275010723 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 314275010724 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 314275010725 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 314275010726 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 314275010727 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 314275010728 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 314275010729 putative substrate translocation pore; other site 314275010730 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 314275010731 beta-galactosidase; Region: BGL; TIGR03356 314275010732 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314275010733 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314275010734 DNA binding site [nucleotide binding] 314275010735 domain linker motif; other site 314275010736 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 314275010737 dimerization interface (closed form) [polypeptide binding]; other site 314275010738 ligand binding site [chemical binding]; other site 314275010739 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 314275010740 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 314275010741 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 314275010742 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 314275010743 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 314275010744 Q-loop/lid; other site 314275010745 ABC transporter signature motif; other site 314275010746 Walker B; other site 314275010747 D-loop; other site 314275010748 H-loop/switch region; other site 314275010749 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314275010750 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 314275010751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275010752 Walker A/P-loop; other site 314275010753 ATP binding site [chemical binding]; other site 314275010754 Q-loop/lid; other site 314275010755 ABC transporter signature motif; other site 314275010756 Walker B; other site 314275010757 D-loop; other site 314275010758 H-loop/switch region; other site 314275010759 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 314275010760 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 314275010761 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 314275010762 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 314275010763 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 314275010764 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 314275010765 PAS fold; Region: PAS_4; pfam08448 314275010766 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 314275010767 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314275010768 Walker A motif; other site 314275010769 ATP binding site [chemical binding]; other site 314275010770 Walker B motif; other site 314275010771 arginine finger; other site 314275010772 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314275010773 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275010774 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 314275010775 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314275010776 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 314275010777 SnoaL-like domain; Region: SnoaL_3; pfam13474 314275010778 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 314275010779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275010780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275010781 metal binding site [ion binding]; metal-binding site 314275010782 active site 314275010783 I-site; other site 314275010784 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 314275010785 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314275010786 putative substrate translocation pore; other site 314275010787 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 314275010788 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 314275010789 FAD binding pocket [chemical binding]; other site 314275010790 FAD binding motif [chemical binding]; other site 314275010791 phosphate binding motif [ion binding]; other site 314275010792 NAD binding pocket [chemical binding]; other site 314275010793 CsbD-like; Region: CsbD; cl17424 314275010794 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 314275010795 hypothetical protein; Provisional; Region: PRK09256 314275010796 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 314275010797 FOG: CBS domain [General function prediction only]; Region: COG0517 314275010798 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 314275010799 hypothetical protein; Provisional; Region: PRK03757 314275010800 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314275010801 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314275010802 N-terminal plug; other site 314275010803 ligand-binding site [chemical binding]; other site 314275010804 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 314275010805 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 314275010806 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 314275010807 Prostaglandin dehydrogenases; Region: PGDH; cd05288 314275010808 NAD(P) binding site [chemical binding]; other site 314275010809 substrate binding site [chemical binding]; other site 314275010810 dimer interface [polypeptide binding]; other site 314275010811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314275010812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314275010813 metal binding site [ion binding]; metal-binding site 314275010814 active site 314275010815 I-site; other site 314275010816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314275010817 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275010818 dimerization interface [polypeptide binding]; other site 314275010819 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 314275010820 dimer interface [polypeptide binding]; other site 314275010821 phosphorylation site [posttranslational modification] 314275010822 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 314275010823 ATP binding site [chemical binding]; other site 314275010824 Mg2+ binding site [ion binding]; other site 314275010825 G-X-G motif; other site 314275010826 Response regulator receiver domain; Region: Response_reg; pfam00072 314275010827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275010828 active site 314275010829 phosphorylation site [posttranslational modification] 314275010830 intermolecular recognition site; other site 314275010831 dimerization interface [polypeptide binding]; other site 314275010832 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 314275010833 FOG: CBS domain [General function prediction only]; Region: COG0517 314275010834 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 314275010835 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314275010836 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 314275010837 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 314275010838 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 314275010839 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 314275010840 [4Fe-4S] binding site [ion binding]; other site 314275010841 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 314275010842 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 314275010843 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 314275010844 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 314275010845 molybdopterin cofactor binding site; other site 314275010846 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 314275010847 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 314275010848 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275010849 dimerization interface [polypeptide binding]; other site 314275010850 Histidine kinase; Region: HisKA_3; pfam07730 314275010851 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 314275010852 ATP binding site [chemical binding]; other site 314275010853 Mg2+ binding site [ion binding]; other site 314275010854 G-X-G motif; other site 314275010855 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 314275010856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314275010857 Walker A/P-loop; other site 314275010858 ATP binding site [chemical binding]; other site 314275010859 Q-loop/lid; other site 314275010860 ABC transporter signature motif; other site 314275010861 Walker B; other site 314275010862 D-loop; other site 314275010863 H-loop/switch region; other site 314275010864 TOBE domain; Region: TOBE; pfam03459 314275010865 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 314275010866 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 314275010867 dimer interface [polypeptide binding]; other site 314275010868 conserved gate region; other site 314275010869 putative PBP binding loops; other site 314275010870 ABC-ATPase subunit interface; other site 314275010871 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 314275010872 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 314275010873 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 314275010874 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 314275010875 transcriptional regulator NarL; Provisional; Region: PRK10651 314275010876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275010877 active site 314275010878 phosphorylation site [posttranslational modification] 314275010879 intermolecular recognition site; other site 314275010880 dimerization interface [polypeptide binding]; other site 314275010881 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 314275010882 DNA binding residues [nucleotide binding] 314275010883 dimerization interface [polypeptide binding]; other site 314275010884 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 314275010885 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 314275010886 dimer interface [polypeptide binding]; other site 314275010887 putative functional site; other site 314275010888 putative MPT binding site; other site 314275010889 Protein of unknown function (DUF454); Region: DUF454; cl01063 314275010890 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 314275010891 MoaE homodimer interface [polypeptide binding]; other site 314275010892 MoaD interaction [polypeptide binding]; other site 314275010893 active site residues [active] 314275010894 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 314275010895 MoaE interaction surface [polypeptide binding]; other site 314275010896 MoeB interaction surface [polypeptide binding]; other site 314275010897 thiocarboxylated glycine; other site 314275010898 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional; Region: PRK14490 314275010899 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 314275010900 GTP binding site; other site 314275010901 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 314275010902 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 314275010903 FeS/SAM binding site; other site 314275010904 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 314275010905 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 314275010906 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 314275010907 ATP binding site [chemical binding]; other site 314275010908 substrate interface [chemical binding]; other site 314275010909 SCP-2 sterol transfer family; Region: SCP2; cl01225 314275010910 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 314275010911 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 314275010912 dimer interface [polypeptide binding]; other site 314275010913 PYR/PP interface [polypeptide binding]; other site 314275010914 TPP binding site [chemical binding]; other site 314275010915 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314275010916 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 314275010917 TPP-binding site [chemical binding]; other site 314275010918 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 314275010919 Peptidase family U32; Region: Peptidase_U32; pfam01136 314275010920 putative protease; Provisional; Region: PRK15447 314275010921 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 314275010922 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314275010923 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314275010924 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 314275010925 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 314275010926 Hemerythrin-like domain; Region: Hr-like; cd12108 314275010927 Fe binding site [ion binding]; other site 314275010928 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 314275010929 GAF domain; Region: GAF; pfam01590 314275010930 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 314275010931 Walker A motif; other site 314275010932 ATP binding site [chemical binding]; other site 314275010933 Walker B motif; other site 314275010934 arginine finger; other site 314275010935 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 314275010936 NnrS protein; Region: NnrS; pfam05940 314275010937 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 314275010938 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 314275010939 putative substrate translocation pore; other site 314275010940 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 314275010941 putative substrate translocation pore; other site 314275010942 nitrate transmembrane transporter; Provisional; Region: PLN00028 314275010943 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 314275010944 active site 314275010945 Protein kinase domain; Region: Pkinase; pfam00069 314275010946 Catalytic domain of Protein Kinases; Region: PKc; cd00180 314275010947 active site 314275010948 ATP binding site [chemical binding]; other site 314275010949 substrate binding site [chemical binding]; other site 314275010950 activation loop (A-loop); other site 314275010951 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 314275010952 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314275010953 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314275010954 Q-loop/lid; other site 314275010955 ABC transporter signature motif; other site 314275010956 Walker B; other site 314275010957 D-loop; other site 314275010958 H-loop/switch region; other site 314275010959 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 314275010960 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 314275010961 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 314275010962 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 314275010963 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 314275010964 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 314275010965 glutaminase active site [active] 314275010966 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 314275010967 dimer interface [polypeptide binding]; other site 314275010968 active site 314275010969 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 314275010970 dimer interface [polypeptide binding]; other site 314275010971 active site 314275010972 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 314275010973 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 314275010974 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 314275010975 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314275010976 putative oxidoreductase; Provisional; Region: PRK11579 314275010977 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 314275010978 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 314275010979 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 314275010980 Substrate binding site; other site 314275010981 Mg++ binding site; other site 314275010982 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 314275010983 active site 314275010984 substrate binding site [chemical binding]; other site 314275010985 CoA binding site [chemical binding]; other site 314275010986 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314275010987 EamA-like transporter family; Region: EamA; pfam00892 314275010988 EamA-like transporter family; Region: EamA; pfam00892 314275010989 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 314275010990 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 314275010991 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 314275010992 DNA binding site [nucleotide binding] 314275010993 active site 314275010994 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314275010995 Beta-lactamase; Region: Beta-lactamase; pfam00144 314275010996 arginine decarboxylase; Provisional; Region: PRK05354 314275010997 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 314275010998 dimer interface [polypeptide binding]; other site 314275010999 active site 314275011000 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314275011001 catalytic residues [active] 314275011002 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 314275011003 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 314275011004 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 314275011005 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 314275011006 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 314275011007 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 314275011008 ligand binding site [chemical binding]; other site 314275011009 homodimer interface [polypeptide binding]; other site 314275011010 NAD(P) binding site [chemical binding]; other site 314275011011 trimer interface B [polypeptide binding]; other site 314275011012 trimer interface A [polypeptide binding]; other site 314275011013 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275011014 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275011015 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275011016 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 314275011017 SapC; Region: SapC; pfam07277 314275011018 Secretin and TonB N terminus short domain; Region: STN; smart00965 314275011019 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314275011020 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275011021 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314275011022 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 314275011023 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275011024 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 314275011025 DNA binding residues [nucleotide binding] 314275011026 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 314275011027 FecR protein; Region: FecR; pfam04773 314275011028 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 314275011029 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 314275011030 UbiA prenyltransferase family; Region: UbiA; pfam01040 314275011031 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 314275011032 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 314275011033 Subunit I/III interface [polypeptide binding]; other site 314275011034 Subunit III/IV interface [polypeptide binding]; other site 314275011035 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 314275011036 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 314275011037 D-pathway; other site 314275011038 Putative ubiquinol binding site [chemical binding]; other site 314275011039 Low-spin heme (heme b) binding site [chemical binding]; other site 314275011040 Putative water exit pathway; other site 314275011041 Binuclear center (heme o3/CuB) [ion binding]; other site 314275011042 K-pathway; other site 314275011043 Putative proton exit pathway; other site 314275011044 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 314275011045 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 314275011046 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 314275011047 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 314275011048 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 314275011049 oligomeric interface; other site 314275011050 putative active site [active] 314275011051 homodimer interface [polypeptide binding]; other site 314275011052 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 314275011053 DNA binding site [nucleotide binding] 314275011054 active site 314275011055 Int/Topo IB signature motif; other site 314275011056 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 314275011057 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 314275011058 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 314275011059 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 314275011060 ring oligomerisation interface [polypeptide binding]; other site 314275011061 ATP/Mg binding site [chemical binding]; other site 314275011062 stacking interactions; other site 314275011063 hinge regions; other site 314275011064 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 314275011065 oligomerisation interface [polypeptide binding]; other site 314275011066 mobile loop; other site 314275011067 roof hairpin; other site 314275011068 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 314275011069 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 314275011070 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 314275011071 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 314275011072 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 314275011073 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 314275011074 DsbD alpha interface [polypeptide binding]; other site 314275011075 catalytic residues [active] 314275011076 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314275011077 Peptidase family M23; Region: Peptidase_M23; pfam01551 314275011078 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 314275011079 Dehydroquinase class II; Region: DHquinase_II; pfam01220 314275011080 active site 314275011081 trimer interface [polypeptide binding]; other site 314275011082 dimer interface [polypeptide binding]; other site 314275011083 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 314275011084 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 314275011085 carboxyltransferase (CT) interaction site; other site 314275011086 biotinylation site [posttranslational modification]; other site 314275011087 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 314275011088 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314275011089 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 314275011090 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 314275011091 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 314275011092 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 314275011093 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 314275011094 active site 314275011095 catalytic site [active] 314275011096 substrate binding site [chemical binding]; other site 314275011097 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 314275011098 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 314275011099 High potential iron-sulfur protein; Region: HIPIP; pfam01355 314275011100 amidase; Provisional; Region: PRK08137 314275011101 Amidase; Region: Amidase; pfam01425 314275011102 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314275011103 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 314275011104 substrate binding pocket [chemical binding]; other site 314275011105 membrane-bound complex binding site; other site 314275011106 hinge residues; other site 314275011107 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 314275011108 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 314275011109 S-adenosylmethionine binding site [chemical binding]; other site 314275011110 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 314275011111 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 314275011112 FMN binding site [chemical binding]; other site 314275011113 active site 314275011114 catalytic residues [active] 314275011115 substrate binding site [chemical binding]; other site 314275011116 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 314275011117 Predicted methyltransferase [General function prediction only]; Region: COG4798 314275011118 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314275011119 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 314275011120 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 314275011121 putative ligand binding site [chemical binding]; other site 314275011122 Ion transport protein; Region: Ion_trans; pfam00520 314275011123 Ion channel; Region: Ion_trans_2; pfam07885 314275011124 phosphoribulokinase; Provisional; Region: PRK15453 314275011125 osmolarity response regulator; Provisional; Region: ompR; PRK09468 314275011126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 314275011127 active site 314275011128 phosphorylation site [posttranslational modification] 314275011129 intermolecular recognition site; other site 314275011130 dimerization interface [polypeptide binding]; other site 314275011131 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 314275011132 DNA binding site [nucleotide binding] 314275011133 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 314275011134 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314275011135 dimerization interface [polypeptide binding]; other site 314275011136 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 314275011137 dimer interface [polypeptide binding]; other site 314275011138 phosphorylation site [posttranslational modification] 314275011139 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 314275011140 ATP binding site [chemical binding]; other site 314275011141 Mg2+ binding site [ion binding]; other site 314275011142 G-X-G motif; other site 314275011143 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 314275011144 putative substrate translocation pore; other site 314275011145 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 314275011146 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 314275011147 CtsZ (cyclic tetrasaccharide-synthesizing enzyme Z) is a bacterial 6-alpha-glucosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsY. CtsZ and CtsY both have a...; Region: GH31_transferase_CtsZ; cd06598 314275011148 putative active site [active] 314275011149 putative catalytic site [active] 314275011150 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 314275011151 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 314275011152 active site 314275011153 substrate-binding site [chemical binding]; other site 314275011154 metal-binding site [ion binding] 314275011155 ATP binding site [chemical binding]; other site 314275011156 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 314275011157 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 314275011158 dimerization interface [polypeptide binding]; other site 314275011159 domain crossover interface; other site 314275011160 redox-dependent activation switch; other site 314275011161 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 314275011162 type II secretion system protein D; Region: type_II_gspD; TIGR02517 314275011163 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314275011164 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314275011165 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314275011166 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314275011167 type II secretion system protein E; Region: type_II_gspE; TIGR02533 314275011168 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 314275011169 Walker A motif; other site 314275011170 ATP binding site [chemical binding]; other site 314275011171 Walker B motif; other site 314275011172 type II secretion system protein F; Region: GspF; TIGR02120 314275011173 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314275011174 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314275011175 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 314275011176 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 314275011177 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 314275011178 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 314275011179 type II secretion system protein I; Region: gspI; TIGR01707 314275011180 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 314275011181 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 314275011182 type II secretion system protein J; Region: gspJ; TIGR01711 314275011183 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 314275011184 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 314275011185 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 314275011186 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 314275011187 GspL periplasmic domain; Region: GspL_C; pfam12693 314275011188 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 314275011189 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 314275011190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 314275011191 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 314275011192 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 314275011193 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 314275011194 NAD(P) binding site [chemical binding]; other site 314275011195 catalytic residues [active] 314275011196 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 314275011197 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 314275011198 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 314275011199 motif II; other site 314275011200 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 314275011201 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314275011202 active site 314275011203 YceI-like domain; Region: YceI; pfam04264 314275011204 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 314275011205 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314275011206 Ligand binding site; other site 314275011207 DXD motif; other site 314275011208 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 314275011209 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 314275011210 putative hydrolase; Provisional; Region: PRK10985 314275011211 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 314275011212 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 314275011213 SlyX; Region: SlyX; pfam04102 314275011214 FOG: WD40 repeat [General function prediction only]; Region: COG2319 314275011215 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 314275011216 structural tetrad; other site 314275011217 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 314275011218 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 314275011219 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314275011220 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 314275011221 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 314275011222 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 314275011223 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 314275011224 active site 314275011225 SprA-related family; Region: SprA-related; pfam12118 314275011226 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 314275011227 PGAP1-like protein; Region: PGAP1; pfam07819 314275011228 comF family protein; Region: comF; TIGR00201 314275011229 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314275011230 active site 314275011231 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 314275011232 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 314275011233 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 314275011234 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 314275011235 aspartate racemase; Region: asp_race; TIGR00035 314275011236 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 314275011237 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314275011238 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 314275011239 putative active site [active] 314275011240 putative metal binding site [ion binding]; other site 314275011241 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 314275011242 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 314275011243 Cu(I) binding site [ion binding]; other site 314275011244 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 314275011245 UbiA prenyltransferase family; Region: UbiA; pfam01040 314275011246 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 314275011247 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 314275011248 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 314275011249 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 314275011250 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 314275011251 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 314275011252 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 314275011253 Subunit I/III interface [polypeptide binding]; other site 314275011254 D-pathway; other site 314275011255 Subunit I/VIIc interface [polypeptide binding]; other site 314275011256 Subunit I/IV interface [polypeptide binding]; other site 314275011257 Subunit I/II interface [polypeptide binding]; other site 314275011258 Low-spin heme (heme a) binding site [chemical binding]; other site 314275011259 Subunit I/VIIa interface [polypeptide binding]; other site 314275011260 Subunit I/VIa interface [polypeptide binding]; other site 314275011261 Dimer interface; other site 314275011262 Putative water exit pathway; other site 314275011263 Binuclear center (heme a3/CuB) [ion binding]; other site 314275011264 K-pathway; other site 314275011265 Subunit I/Vb interface [polypeptide binding]; other site 314275011266 Putative proton exit pathway; other site 314275011267 Subunit I/VIb interface; other site 314275011268 Subunit I/VIc interface [polypeptide binding]; other site 314275011269 Electron transfer pathway; other site 314275011270 Subunit I/VIIIb interface [polypeptide binding]; other site 314275011271 Subunit I/VIIb interface [polypeptide binding]; other site 314275011272 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00139 314275011273 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 314275011274 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 314275011275 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 314275011276 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 314275011277 LexA repressor; Validated; Region: PRK00215 314275011278 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 314275011279 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 314275011280 Catalytic site [active] 314275011281 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 314275011282 UPF0126 domain; Region: UPF0126; pfam03458 314275011283 Predicted membrane protein [Function unknown]; Region: COG2860 314275011284 UPF0126 domain; Region: UPF0126; pfam03458 314275011285 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 314275011286 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 314275011287 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 314275011288 Walker A motif; other site 314275011289 ATP binding site [chemical binding]; other site 314275011290 Walker B motif; other site 314275011291 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 314275011292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314275011293 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 314275011294 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 314275011295 putative dimerization interface [polypeptide binding]; other site 314275011296 ketol-acid reductoisomerase; Validated; Region: PRK05225 314275011297 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 314275011298 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 314275011299 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 314275011300 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 314275011301 putative substrate translocation pore; other site 314275011302 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 314275011303 Surface antigen; Region: Bac_surface_Ag; pfam01103 314275011304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 314275011305 Family of unknown function (DUF490); Region: DUF490; pfam04357 314275011306 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 314275011307 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314275011308 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 314275011309 DNA binding residues [nucleotide binding] 314275011310 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 314275011311 EamA-like transporter family; Region: EamA; pfam00892 314275011312 EamA-like transporter family; Region: EamA; pfam00892 314275011313 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 314275011314 glycerate dehydrogenase; Provisional; Region: PRK06487 314275011315 putative ligand binding site [chemical binding]; other site 314275011316 putative NAD binding site [chemical binding]; other site 314275011317 catalytic site [active] 314275011318 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 314275011319 active site 314275011320 gamma-glutamyl kinase; Provisional; Region: PRK05429 314275011321 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 314275011322 nucleotide binding site [chemical binding]; other site 314275011323 homotetrameric interface [polypeptide binding]; other site 314275011324 putative phosphate binding site [ion binding]; other site 314275011325 putative allosteric binding site; other site 314275011326 PUA domain; Region: PUA; pfam01472 314275011327 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 314275011328 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 314275011329 Zn binding site [ion binding]; other site 314275011330 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 314275011331 ABC1 family; Region: ABC1; cl17513 314275011332 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 314275011333 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 314275011334 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 314275011335 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 314275011336 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 314275011337 active site 314275011338 Predicted membrane protein [Function unknown]; Region: COG1238 314275011339 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 314275011340 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 314275011341 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 314275011342 CPxP motif; other site 314275011343 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314275011344 active site 314275011345 ribonuclease PH; Reviewed; Region: rph; PRK00173 314275011346 Ribonuclease PH; Region: RNase_PH_bact; cd11362 314275011347 hexamer interface [polypeptide binding]; other site 314275011348 active site 314275011349 hypothetical protein; Provisional; Region: PRK11820 314275011350 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 314275011351 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 314275011352 HipA N-terminal domain; Region: Couple_hipA; pfam13657 314275011353 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 314275011354 HipA-like N-terminal domain; Region: HipA_N; pfam07805 314275011355 HipA-like C-terminal domain; Region: HipA_C; pfam07804 314275011356 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 314275011357 non-specific DNA binding site [nucleotide binding]; other site 314275011358 salt bridge; other site 314275011359 sequence-specific DNA binding site [nucleotide binding]; other site 314275011360 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 314275011361 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 314275011362 non-specific DNA binding site [nucleotide binding]; other site 314275011363 salt bridge; other site 314275011364 sequence-specific DNA binding site [nucleotide binding]; other site 314275011365 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 314275011366 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 314275011367 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 314275011368 ATP binding site [chemical binding]; other site 314275011369 putative Mg++ binding site [ion binding]; other site 314275011370 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 314275011371 nucleotide binding region [chemical binding]; other site 314275011372 ATP-binding site [chemical binding]; other site 314275011373 Superfamily II helicase [General function prediction only]; Region: COG1204 314275011374 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 314275011375 ATP binding site [chemical binding]; other site 314275011376 putative Mg++ binding site [ion binding]; other site 314275011377 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 314275011378 nucleotide binding region [chemical binding]; other site 314275011379 ATP-binding site [chemical binding]; other site 314275011380 HsdM N-terminal domain; Region: HsdM_N; pfam12161 314275011381 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 314275011382 Methyltransferase domain; Region: Methyltransf_26; pfam13659 314275011383 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 314275011384 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 314275011385 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 314275011386 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 314275011387 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 314275011388 ATP binding site [chemical binding]; other site 314275011389 putative Mg++ binding site [ion binding]; other site 314275011390 DNA binding domain, excisionase family; Region: excise; TIGR01764 314275011391 Domain of unknown function (DUF927); Region: DUF927; pfam06048 314275011392 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 314275011393 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 314275011394 non-specific DNA binding site [nucleotide binding]; other site 314275011395 salt bridge; other site 314275011396 sequence-specific DNA binding site [nucleotide binding]; other site 314275011397 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 314275011398 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314275011399 DNA binding residues [nucleotide binding] 314275011400 Methyltransferase domain; Region: Methyltransf_31; pfam13847 314275011401 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 314275011402 S-adenosylmethionine binding site [chemical binding]; other site 314275011403 HipA N-terminal domain; Region: Couple_hipA; pfam13657 314275011404 HipA-like N-terminal domain; Region: HipA_N; pfam07805 314275011405 HipA-like C-terminal domain; Region: HipA_C; pfam07804 314275011406 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 314275011407 non-specific DNA binding site [nucleotide binding]; other site 314275011408 salt bridge; other site 314275011409 sequence-specific DNA binding site [nucleotide binding]; other site 314275011410 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 314275011411 Fic family protein [Function unknown]; Region: COG3177 314275011412 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 314275011413 Fic/DOC family; Region: Fic; pfam02661 314275011414 Transcriptional regulators [Transcription]; Region: PurR; COG1609 314275011415 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314275011416 DNA binding site [nucleotide binding] 314275011417 domain linker motif; other site 314275011418 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 314275011419 dimerization interface (closed form) [polypeptide binding]; other site 314275011420 ligand binding site [chemical binding]; other site 314275011421 SnoaL-like domain; Region: SnoaL_3; pfam13474 314275011422 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314275011423 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314275011424 ligand binding site [chemical binding]; other site 314275011425 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 314275011426 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 314275011427 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314275011428 Zn2+ binding site [ion binding]; other site 314275011429 Mg2+ binding site [ion binding]; other site 314275011430 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 314275011431 DNA binding site [nucleotide binding] 314275011432 active site 314275011433 DTW domain; Region: DTW; cl01221 314275011434 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314275011435 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 314275011436 putative C-terminal domain interface [polypeptide binding]; other site 314275011437 putative GSH binding site (G-site) [chemical binding]; other site 314275011438 putative dimer interface [polypeptide binding]; other site 314275011439 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314275011440 N-terminal domain interface [polypeptide binding]; other site 314275011441 dimer interface [polypeptide binding]; other site 314275011442 substrate binding pocket (H-site) [chemical binding]; other site 314275011443 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 314275011444 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 314275011445 gamma subunit interface [polypeptide binding]; other site 314275011446 epsilon subunit interface [polypeptide binding]; other site 314275011447 LBP interface [polypeptide binding]; other site 314275011448 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 314275011449 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314275011450 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 314275011451 alpha subunit interaction interface [polypeptide binding]; other site 314275011452 Walker A motif; other site 314275011453 ATP binding site [chemical binding]; other site 314275011454 Walker B motif; other site 314275011455 inhibitor binding site; inhibition site 314275011456 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314275011457 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 314275011458 core domain interface [polypeptide binding]; other site 314275011459 delta subunit interface [polypeptide binding]; other site 314275011460 epsilon subunit interface [polypeptide binding]; other site 314275011461 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 314275011462 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314275011463 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 314275011464 beta subunit interaction interface [polypeptide binding]; other site 314275011465 Walker A motif; other site 314275011466 ATP binding site [chemical binding]; other site 314275011467 Walker B motif; other site 314275011468 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314275011469 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 314275011470 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 314275011471 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 314275011472 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 314275011473 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 314275011474 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 314275011475 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 314275011476 ATP synthase I chain; Region: ATP_synt_I; cl09170 314275011477 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 314275011478 ParB-like nuclease domain; Region: ParBc; pfam02195 314275011479 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 314275011480 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 314275011481 P-loop; other site 314275011482 Magnesium ion binding site [ion binding]; other site 314275011483 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 314275011484 Magnesium ion binding site [ion binding]; other site 314275011485 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 314275011486 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 314275011487 S-adenosylmethionine binding site [chemical binding]; other site 314275011488 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 314275011489 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 314275011490 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 314275011491 DNA replication protein DnaC; Validated; Region: PRK07952 314275011492 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 314275011493 Walker A motif; other site 314275011494 ATP binding site [chemical binding]; other site 314275011495 primosomal protein DnaI; Provisional; Region: PRK02854 314275011496 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314275011497 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 314275011498 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 314275011499 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 314275011500 G4 box; other site 314275011501 GTP/Mg2+ binding site [chemical binding]; other site 314275011502 G5 box; other site 314275011503 trmE is a tRNA modification GTPase; Region: trmE; cd04164 314275011504 G1 box; other site 314275011505 G1 box; other site 314275011506 GTP/Mg2+ binding site [chemical binding]; other site 314275011507 Switch I region; other site 314275011508 Switch I region; other site 314275011509 G2 box; other site 314275011510 G2 box; other site 314275011511 Switch II region; other site 314275011512 G3 box; other site 314275011513 G3 box; other site 314275011514 Switch II region; other site 314275011515 G4 box; other site 314275011516 G5 box; other site 314275011517 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 314275011518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 314275011519 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 314275011520 Haemolytic domain; Region: Haemolytic; pfam01809