-- dump date 20140618_194454 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1300254000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1300254000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1300254000003 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 1300254000004 Walker A motif; other site 1300254000005 ATP binding site [chemical binding]; other site 1300254000006 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 1300254000007 Walker B motif; other site 1300254000008 arginine finger; other site 1300254000009 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 1300254000010 DnaA box-binding interface [nucleotide binding]; other site 1300254000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1300254000012 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 1300254000013 putative DNA binding surface [nucleotide binding]; other site 1300254000014 dimer interface [polypeptide binding]; other site 1300254000015 beta-clamp/clamp loader binding surface; other site 1300254000016 beta-clamp/translesion DNA polymerase binding surface; other site 1300254000017 recombination protein F; Reviewed; Region: recF; PRK00064 1300254000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254000019 Walker A/P-loop; other site 1300254000020 ATP binding site [chemical binding]; other site 1300254000021 Q-loop/lid; other site 1300254000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254000023 ABC transporter signature motif; other site 1300254000024 Walker B; other site 1300254000025 D-loop; other site 1300254000026 H-loop/switch region; other site 1300254000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1300254000028 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1300254000029 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 1300254000030 anchoring element; other site 1300254000031 dimer interface [polypeptide binding]; other site 1300254000032 ATP binding site [chemical binding]; other site 1300254000033 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 1300254000034 active site 1300254000035 putative metal-binding site [ion binding]; other site 1300254000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1300254000037 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1300254000038 DALR anticodon binding domain; Region: DALR_1; pfam05746 1300254000039 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 1300254000040 dimer interface [polypeptide binding]; other site 1300254000041 motif 1; other site 1300254000042 active site 1300254000043 motif 2; other site 1300254000044 motif 3; other site 1300254000045 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1300254000046 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1300254000047 Der GTPase activator; Provisional; Region: PRK05244 1300254000048 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1300254000049 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1300254000050 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1300254000051 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1300254000052 Cytochrome c; Region: Cytochrom_C; cl11414 1300254000053 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1300254000054 G1 box; other site 1300254000055 GTP/Mg2+ binding site [chemical binding]; other site 1300254000056 Switch I region; other site 1300254000057 G2 box; other site 1300254000058 G3 box; other site 1300254000059 Switch II region; other site 1300254000060 G4 box; other site 1300254000061 G5 box; other site 1300254000062 DNA polymerase I; Provisional; Region: PRK05755 1300254000063 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1300254000064 active site 1300254000065 metal binding site 1 [ion binding]; metal-binding site 1300254000066 putative 5' ssDNA interaction site; other site 1300254000067 metal binding site 3; metal-binding site 1300254000068 metal binding site 2 [ion binding]; metal-binding site 1300254000069 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1300254000070 putative DNA binding site [nucleotide binding]; other site 1300254000071 putative metal binding site [ion binding]; other site 1300254000072 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 1300254000073 active site 1300254000074 catalytic site [active] 1300254000075 substrate binding site [chemical binding]; other site 1300254000076 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1300254000077 active site 1300254000078 DNA binding site [nucleotide binding] 1300254000079 catalytic site [active] 1300254000080 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1300254000081 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1300254000082 conserved cys residue [active] 1300254000083 Cation transport protein; Region: TrkH; cl17365 1300254000084 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1300254000085 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1300254000086 TrkA-N domain; Region: TrkA_N; pfam02254 1300254000087 TrkA-C domain; Region: TrkA_C; pfam02080 1300254000088 TrkA-N domain; Region: TrkA_N; pfam02254 1300254000089 TrkA-C domain; Region: TrkA_C; pfam02080 1300254000090 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 1300254000091 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1300254000092 putative RNA binding site [nucleotide binding]; other site 1300254000093 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 1300254000094 S-adenosylmethionine binding site [chemical binding]; other site 1300254000095 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1300254000096 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1300254000097 putative active site [active] 1300254000098 substrate binding site [chemical binding]; other site 1300254000099 putative cosubstrate binding site; other site 1300254000100 catalytic site [active] 1300254000101 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1300254000102 substrate binding site [chemical binding]; other site 1300254000103 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 1300254000104 active site 1300254000105 catalytic residues [active] 1300254000106 metal binding site [ion binding]; metal-binding site 1300254000107 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1300254000108 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1300254000109 DNA protecting protein DprA; Region: dprA; TIGR00732 1300254000110 Protein of unknown function (DUF494); Region: DUF494; cl01103 1300254000111 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1300254000112 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1300254000113 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1300254000114 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1300254000115 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1300254000116 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1300254000117 OmpW family; Region: OmpW; cl17427 1300254000118 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1300254000119 heme-binding site [chemical binding]; other site 1300254000120 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1300254000121 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1300254000122 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1300254000123 shikimate binding site; other site 1300254000124 NAD(P) binding site [chemical binding]; other site 1300254000125 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1300254000126 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 1300254000127 putative metal binding site [ion binding]; other site 1300254000128 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1300254000129 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1300254000130 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1300254000131 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 1300254000132 substrate binding pocket [chemical binding]; other site 1300254000133 membrane-bound complex binding site; other site 1300254000134 hinge residues; other site 1300254000135 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1300254000136 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1300254000137 putative active site [active] 1300254000138 putative PHP Thumb interface [polypeptide binding]; other site 1300254000139 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 1300254000140 generic binding surface II; other site 1300254000141 generic binding surface I; other site 1300254000142 DNA Polymerase Y-family; Region: PolY_like; cd03468 1300254000143 DNA binding site [nucleotide binding] 1300254000144 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1300254000145 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1300254000146 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 1300254000147 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1300254000148 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 1300254000149 PA/protease or protease-like domain interface [polypeptide binding]; other site 1300254000150 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 1300254000151 Peptidase family M28; Region: Peptidase_M28; pfam04389 1300254000152 metal binding site [ion binding]; metal-binding site 1300254000153 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1300254000154 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1300254000155 putative metal binding site; other site 1300254000156 division inhibitor protein; Provisional; Region: slmA; PRK09480 1300254000157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254000158 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1300254000159 Flavoprotein; Region: Flavoprotein; pfam02441 1300254000160 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1300254000161 hypothetical protein; Reviewed; Region: PRK00024 1300254000162 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1300254000163 MPN+ (JAMM) motif; other site 1300254000164 Zinc-binding site [ion binding]; other site 1300254000165 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1300254000166 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1300254000167 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1300254000168 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1300254000169 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1300254000170 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1300254000171 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1300254000172 DNA binding site [nucleotide binding] 1300254000173 catalytic residue [active] 1300254000174 H2TH interface [polypeptide binding]; other site 1300254000175 putative catalytic residues [active] 1300254000176 turnover-facilitating residue; other site 1300254000177 intercalation triad [nucleotide binding]; other site 1300254000178 8OG recognition residue [nucleotide binding]; other site 1300254000179 putative reading head residues; other site 1300254000180 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1300254000181 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1300254000182 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1300254000183 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1300254000184 active site 1300254000185 (T/H)XGH motif; other site 1300254000186 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1300254000187 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1300254000188 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1300254000189 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 1300254000190 putative active site [active] 1300254000191 PBP superfamily domain; Region: PBP_like_2; cl17296 1300254000192 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254000193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254000194 metal binding site [ion binding]; metal-binding site 1300254000195 active site 1300254000196 I-site; other site 1300254000197 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 1300254000198 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1300254000199 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 1300254000200 substrate-cofactor binding pocket; other site 1300254000201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254000202 catalytic residue [active] 1300254000203 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1300254000204 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1300254000205 NAD(P) binding site [chemical binding]; other site 1300254000206 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 1300254000207 active site residue [active] 1300254000208 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 1300254000209 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1300254000210 Rhomboid family; Region: Rhomboid; pfam01694 1300254000211 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1300254000212 Chorismate lyase; Region: Chor_lyase; cl01230 1300254000213 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1300254000214 UbiA prenyltransferase family; Region: UbiA; pfam01040 1300254000215 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1300254000216 Predicted transcriptional regulator [Transcription]; Region: COG2944 1300254000217 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 1300254000218 non-specific DNA binding site [nucleotide binding]; other site 1300254000219 salt bridge; other site 1300254000220 sequence-specific DNA binding site [nucleotide binding]; other site 1300254000221 Membrane fusogenic activity; Region: BMFP; pfam04380 1300254000222 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1300254000223 Part of AAA domain; Region: AAA_19; pfam13245 1300254000224 Family description; Region: UvrD_C_2; pfam13538 1300254000225 GAF domain; Region: GAF; cl17456 1300254000226 GAF domain; Region: GAF_2; pfam13185 1300254000227 GAF domain; Region: GAF_3; pfam13492 1300254000228 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1300254000229 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254000230 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254000231 metal binding site [ion binding]; metal-binding site 1300254000232 active site 1300254000233 I-site; other site 1300254000234 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 1300254000235 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1300254000236 HipA N-terminal domain; Region: Couple_hipA; cl11853 1300254000237 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1300254000238 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1300254000239 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 1300254000240 non-specific DNA binding site [nucleotide binding]; other site 1300254000241 salt bridge; other site 1300254000242 sequence-specific DNA binding site [nucleotide binding]; other site 1300254000243 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1300254000244 Predicted transporter component [General function prediction only]; Region: COG2391 1300254000245 Sulphur transport; Region: Sulf_transp; pfam04143 1300254000246 Predicted transporter component [General function prediction only]; Region: COG2391 1300254000247 Sulphur transport; Region: Sulf_transp; pfam04143 1300254000248 Predicted transcriptional regulator [Transcription]; Region: COG1959 1300254000249 Transcriptional regulator; Region: Rrf2; cl17282 1300254000250 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254000251 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1300254000252 Putative phosphatase (DUF442); Region: DUF442; cl17385 1300254000253 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1300254000254 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254000255 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1300254000256 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1300254000257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254000258 Walker A/P-loop; other site 1300254000259 ATP binding site [chemical binding]; other site 1300254000260 Q-loop/lid; other site 1300254000261 ABC transporter signature motif; other site 1300254000262 Walker B; other site 1300254000263 D-loop; other site 1300254000264 H-loop/switch region; other site 1300254000265 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 1300254000266 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254000267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254000268 Walker A/P-loop; other site 1300254000269 ATP binding site [chemical binding]; other site 1300254000270 Q-loop/lid; other site 1300254000271 ABC transporter signature motif; other site 1300254000272 Walker B; other site 1300254000273 D-loop; other site 1300254000274 H-loop/switch region; other site 1300254000275 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1300254000276 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1300254000277 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1300254000278 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1300254000279 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 1300254000280 active site residue [active] 1300254000281 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1300254000282 peroxiredoxin; Provisional; Region: PRK13189 1300254000283 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 1300254000284 dimer interface [polypeptide binding]; other site 1300254000285 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1300254000286 catalytic triad [active] 1300254000287 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1300254000288 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 1300254000289 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1300254000290 catalytic residues [active] 1300254000291 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254000292 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 1300254000293 DNA binding residues [nucleotide binding] 1300254000294 dimerization interface [polypeptide binding]; other site 1300254000295 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 1300254000296 HlyD family secretion protein; Region: HlyD_2; pfam12700 1300254000297 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1300254000298 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 1300254000299 BCCT family transporter; Region: BCCT; pfam02028 1300254000300 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 1300254000301 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1300254000302 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1300254000303 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 1300254000304 active site 1300254000305 DNA binding site [nucleotide binding] 1300254000306 Int/Topo IB signature motif; other site 1300254000307 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1300254000308 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1300254000309 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1300254000310 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 1300254000311 S-adenosylmethionine binding site [chemical binding]; other site 1300254000312 HNH endonuclease; Region: HNH_4; pfam13395 1300254000313 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1300254000314 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254000315 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254000316 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1300254000317 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1300254000318 Walker A/P-loop; other site 1300254000319 ATP binding site [chemical binding]; other site 1300254000320 Q-loop/lid; other site 1300254000321 ABC transporter signature motif; other site 1300254000322 Walker B; other site 1300254000323 D-loop; other site 1300254000324 H-loop/switch region; other site 1300254000325 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1300254000326 Walker A/P-loop; other site 1300254000327 ATP binding site [chemical binding]; other site 1300254000328 Q-loop/lid; other site 1300254000329 ABC transporter signature motif; other site 1300254000330 Walker B; other site 1300254000331 D-loop; other site 1300254000332 H-loop/switch region; other site 1300254000333 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1300254000334 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1300254000335 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1300254000336 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1300254000337 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1300254000338 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 1300254000339 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 1300254000340 N-terminal plug; other site 1300254000341 ligand-binding site [chemical binding]; other site 1300254000342 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 1300254000343 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 1300254000344 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1300254000345 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254000346 active site 1300254000347 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254000348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254000349 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 1300254000350 substrate binding pocket [chemical binding]; other site 1300254000351 dimerization interface [polypeptide binding]; other site 1300254000352 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1300254000353 YcjX-like family, DUF463; Region: DUF463; cl01193 1300254000354 hypothetical protein; Provisional; Region: PRK05415 1300254000355 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1300254000356 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1300254000357 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1300254000358 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1300254000359 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1300254000360 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 1300254000361 FeS/SAM binding site; other site 1300254000362 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1300254000363 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 1300254000364 ThiS interaction site; other site 1300254000365 putative active site [active] 1300254000366 tetramer interface [polypeptide binding]; other site 1300254000367 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1300254000368 thiS-thiF/thiG interaction site; other site 1300254000369 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 1300254000370 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 1300254000371 ATP binding site [chemical binding]; other site 1300254000372 substrate interface [chemical binding]; other site 1300254000373 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 1300254000374 ATP binding site [chemical binding]; other site 1300254000375 substrate binding site [chemical binding]; other site 1300254000376 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 1300254000377 thiamine phosphate binding site [chemical binding]; other site 1300254000378 active site 1300254000379 pyrophosphate binding site [ion binding]; other site 1300254000380 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1300254000381 ThiC-associated domain; Region: ThiC-associated; pfam13667 1300254000382 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1300254000383 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1300254000384 HemY protein N-terminus; Region: HemY_N; pfam07219 1300254000385 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1300254000386 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1300254000387 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 1300254000388 active site 1300254000389 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1300254000390 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 1300254000391 domain interfaces; other site 1300254000392 active site 1300254000393 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254000394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254000395 metal binding site [ion binding]; metal-binding site 1300254000396 active site 1300254000397 I-site; other site 1300254000398 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1300254000399 putative hydrolase; Provisional; Region: PRK11460 1300254000400 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1300254000401 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 1300254000402 catalytic site [active] 1300254000403 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1300254000404 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1300254000405 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1300254000406 Zn2+ binding site [ion binding]; other site 1300254000407 Mg2+ binding site [ion binding]; other site 1300254000408 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1300254000409 synthetase active site [active] 1300254000410 NTP binding site [chemical binding]; other site 1300254000411 metal binding site [ion binding]; metal-binding site 1300254000412 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 1300254000413 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1300254000414 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 1300254000415 homotrimer interaction site [polypeptide binding]; other site 1300254000416 putative active site [active] 1300254000417 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1300254000418 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1300254000419 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1300254000420 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1300254000421 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 1300254000422 ssDNA binding site; other site 1300254000423 generic binding surface II; other site 1300254000424 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 1300254000425 ATP binding site [chemical binding]; other site 1300254000426 putative Mg++ binding site [ion binding]; other site 1300254000427 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 1300254000428 nucleotide binding region [chemical binding]; other site 1300254000429 ATP-binding site [chemical binding]; other site 1300254000430 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 1300254000431 S-adenosylmethionine binding site [chemical binding]; other site 1300254000432 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 1300254000433 catalytic triad [active] 1300254000434 dimer interface [polypeptide binding]; other site 1300254000435 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1300254000436 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1300254000437 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1300254000438 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 1300254000439 dimer interface [polypeptide binding]; other site 1300254000440 conserved gate region; other site 1300254000441 putative PBP binding loops; other site 1300254000442 ABC-ATPase subunit interface; other site 1300254000443 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 1300254000444 dimer interface [polypeptide binding]; other site 1300254000445 conserved gate region; other site 1300254000446 putative PBP binding loops; other site 1300254000447 ABC-ATPase subunit interface; other site 1300254000448 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1300254000449 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1300254000450 Walker A/P-loop; other site 1300254000451 ATP binding site [chemical binding]; other site 1300254000452 Q-loop/lid; other site 1300254000453 ABC transporter signature motif; other site 1300254000454 Walker B; other site 1300254000455 D-loop; other site 1300254000456 H-loop/switch region; other site 1300254000457 TOBE domain; Region: TOBE_2; pfam08402 1300254000458 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254000459 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254000460 Predicted flavoproteins [General function prediction only]; Region: COG2081 1300254000461 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254000462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1300254000463 Integrase core domain; Region: rve; pfam00665 1300254000464 Integrase core domain; Region: rve_3; pfam13683 1300254000465 Transposase; Region: HTH_Tnp_1; pfam01527 1300254000466 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1300254000467 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1300254000468 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 1300254000469 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1300254000470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254000471 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 1300254000472 dimerization interface [polypeptide binding]; other site 1300254000473 Lysine efflux permease [General function prediction only]; Region: COG1279 1300254000474 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1300254000475 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1300254000476 DNA-J related protein; Region: DNAJ_related; pfam12339 1300254000477 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 1300254000478 HSP70 interaction site [polypeptide binding]; other site 1300254000479 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1300254000480 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254000481 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254000482 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1300254000483 Protein export membrane protein; Region: SecD_SecF; cl14618 1300254000484 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1300254000485 Serine hydrolase; Region: Ser_hydrolase; cl17834 1300254000486 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1300254000487 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1300254000488 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1300254000489 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1300254000490 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1300254000491 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1300254000492 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1300254000493 putative active site [active] 1300254000494 Zn binding site [ion binding]; other site 1300254000495 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1300254000496 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254000497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254000498 dimer interface [polypeptide binding]; other site 1300254000499 putative CheW interface [polypeptide binding]; other site 1300254000500 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1300254000501 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1300254000502 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 1300254000503 dimerization interface [polypeptide binding]; other site 1300254000504 active site 1300254000505 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1300254000506 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1300254000507 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1300254000508 PAS domain S-box; Region: sensory_box; TIGR00229 1300254000509 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 1300254000510 putative active site [active] 1300254000511 heme pocket [chemical binding]; other site 1300254000512 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254000513 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254000514 metal binding site [ion binding]; metal-binding site 1300254000515 active site 1300254000516 I-site; other site 1300254000517 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 1300254000518 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 1300254000519 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1300254000520 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 1300254000521 putative C-terminal domain interface [polypeptide binding]; other site 1300254000522 putative GSH binding site (G-site) [chemical binding]; other site 1300254000523 putative dimer interface [polypeptide binding]; other site 1300254000524 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1300254000525 putative N-terminal domain interface [polypeptide binding]; other site 1300254000526 putative dimer interface [polypeptide binding]; other site 1300254000527 putative substrate binding pocket (H-site) [chemical binding]; other site 1300254000528 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1300254000529 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 1300254000530 ATP binding site [chemical binding]; other site 1300254000531 putative Mg++ binding site [ion binding]; other site 1300254000532 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 1300254000533 nucleotide binding region [chemical binding]; other site 1300254000534 ATP-binding site [chemical binding]; other site 1300254000535 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1300254000536 HRDC domain; Region: HRDC; pfam00570 1300254000537 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1300254000538 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1300254000539 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 1300254000540 Divalent cation transporter; Region: MgtE; pfam01769 1300254000541 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1300254000542 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 1300254000543 active site 1300254000544 phosphorylation site [posttranslational modification] 1300254000545 intermolecular recognition site; other site 1300254000546 dimerization interface [polypeptide binding]; other site 1300254000547 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254000548 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254000549 metal binding site [ion binding]; metal-binding site 1300254000550 active site 1300254000551 I-site; other site 1300254000552 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1300254000553 Part of AAA domain; Region: AAA_19; pfam13245 1300254000554 Family description; Region: UvrD_C_2; pfam13538 1300254000555 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1300254000556 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1300254000557 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 1300254000558 trimer interface [polypeptide binding]; other site 1300254000559 active site 1300254000560 substrate binding site [chemical binding]; other site 1300254000561 CoA binding site [chemical binding]; other site 1300254000562 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1300254000563 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 1300254000564 motif II; other site 1300254000565 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1300254000566 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 1300254000567 active site 1300254000568 DNA binding site [nucleotide binding] 1300254000569 Int/Topo IB signature motif; other site 1300254000570 Protein of unknown function, DUF484; Region: DUF484; cl17449 1300254000571 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1300254000572 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1300254000573 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1300254000574 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1300254000575 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1300254000576 active site 1300254000577 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1300254000578 substrate binding site [chemical binding]; other site 1300254000579 catalytic residues [active] 1300254000580 dimer interface [polypeptide binding]; other site 1300254000581 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 1300254000582 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1300254000583 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1300254000584 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 1300254000585 active site 1300254000586 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1300254000587 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 1300254000588 active site 1300254000589 Zn binding site [ion binding]; other site 1300254000590 aromatic acid decarboxylase; Validated; Region: PRK05920 1300254000591 Flavoprotein; Region: Flavoprotein; pfam02441 1300254000592 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1300254000593 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1300254000594 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1300254000595 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1300254000596 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 1300254000597 AMP binding site [chemical binding]; other site 1300254000598 metal binding site [ion binding]; metal-binding site 1300254000599 active site 1300254000600 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 1300254000601 dimer interface [polypeptide binding]; other site 1300254000602 substrate binding site [chemical binding]; other site 1300254000603 metal binding sites [ion binding]; metal-binding site 1300254000604 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1300254000605 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 1300254000606 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 1300254000607 active site 1300254000608 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1300254000609 nucleotide binding site [chemical binding]; other site 1300254000610 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1300254000611 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1300254000612 nucleotide binding site [chemical binding]; other site 1300254000613 SBD interface [polypeptide binding]; other site 1300254000614 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1300254000615 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1300254000616 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1300254000617 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1300254000618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1300254000619 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 1300254000620 putative substrate translocation pore; other site 1300254000621 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1300254000622 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 1300254000623 active site 1300254000624 motif I; other site 1300254000625 motif II; other site 1300254000626 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1300254000627 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1300254000628 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1300254000629 DNA binding site [nucleotide binding] 1300254000630 domain linker motif; other site 1300254000631 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 1300254000632 dimerization interface (closed form) [polypeptide binding]; other site 1300254000633 ligand binding site [chemical binding]; other site 1300254000634 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1300254000635 active site 1300254000636 catalytic residues [active] 1300254000637 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1300254000638 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 1300254000639 dimer interface [polypeptide binding]; other site 1300254000640 active site 1300254000641 galactokinase; Provisional; Region: PRK05101 1300254000642 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1300254000643 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1300254000644 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 1300254000645 Na binding site [ion binding]; other site 1300254000646 substrate binding site [chemical binding]; other site 1300254000647 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1300254000648 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 1300254000649 dimer interface [polypeptide binding]; other site 1300254000650 ssDNA binding site [nucleotide binding]; other site 1300254000651 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1300254000652 conserved hypothetical protein; Region: TIGR02285 1300254000653 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 1300254000654 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1300254000655 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1300254000656 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1300254000657 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254000658 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 1300254000659 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 1300254000660 ligand-binding site [chemical binding]; other site 1300254000661 glycerol kinase; Provisional; Region: glpK; PRK00047 1300254000662 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1300254000663 N- and C-terminal domain interface [polypeptide binding]; other site 1300254000664 active site 1300254000665 MgATP binding site [chemical binding]; other site 1300254000666 catalytic site [active] 1300254000667 metal binding site [ion binding]; metal-binding site 1300254000668 glycerol binding site [chemical binding]; other site 1300254000669 homotetramer interface [polypeptide binding]; other site 1300254000670 homodimer interface [polypeptide binding]; other site 1300254000671 FBP binding site [chemical binding]; other site 1300254000672 protein IIAGlc interface [polypeptide binding]; other site 1300254000673 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1300254000674 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 1300254000675 putative DNA binding site [nucleotide binding]; other site 1300254000676 putative Zn2+ binding site [ion binding]; other site 1300254000677 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1300254000678 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1300254000679 Phosphoglycerate mutase family; Region: PGAM; smart00855 1300254000680 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1300254000681 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1300254000682 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1300254000683 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1300254000684 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1300254000685 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 1300254000686 Walker A motif; other site 1300254000687 ATP binding site [chemical binding]; other site 1300254000688 Walker B motif; other site 1300254000689 arginine finger; other site 1300254000690 TPR repeat; Region: TPR_11; pfam13414 1300254000691 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 1300254000692 binding surface 1300254000693 TPR motif; other site 1300254000694 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1300254000695 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1300254000696 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 1300254000697 Walker A motif; other site 1300254000698 ATP binding site [chemical binding]; other site 1300254000699 Walker B motif; other site 1300254000700 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1300254000701 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1300254000702 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1300254000703 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1300254000704 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1300254000705 H-type lectin domain; Region: H_lectin; pfam09458 1300254000706 rod shape-determining protein MreB; Provisional; Region: PRK13927 1300254000707 MreB and similar proteins; Region: MreB_like; cd10225 1300254000708 nucleotide binding site [chemical binding]; other site 1300254000709 Mg binding site [ion binding]; other site 1300254000710 putative protofilament interaction site [polypeptide binding]; other site 1300254000711 RodZ interaction site [polypeptide binding]; other site 1300254000712 rod shape-determining protein MreC; Provisional; Region: PRK13922 1300254000713 rod shape-determining protein MreC; Region: MreC; pfam04085 1300254000714 rod shape-determining protein MreD; Region: MreD; cl01087 1300254000715 Maf-like protein; Region: Maf; pfam02545 1300254000716 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 1300254000717 active site 1300254000718 dimer interface [polypeptide binding]; other site 1300254000719 ribonuclease G; Provisional; Region: PRK11712 1300254000720 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 1300254000721 homodimer interface [polypeptide binding]; other site 1300254000722 oligonucleotide binding site [chemical binding]; other site 1300254000723 TIGR02099 family protein; Region: TIGR02099 1300254000724 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1300254000725 nitrilase; Region: PLN02798 1300254000726 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1300254000727 putative active site [active] 1300254000728 catalytic triad [active] 1300254000729 dimer interface [polypeptide binding]; other site 1300254000730 protease TldD; Provisional; Region: tldD; PRK10735 1300254000731 Protein of unknown function (DUF615); Region: DUF615; pfam04751 1300254000732 peptidase PmbA; Provisional; Region: PRK11040 1300254000733 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1300254000734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1300254000735 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1300254000736 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1300254000737 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1300254000738 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1300254000739 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1300254000740 two-component response regulator; Provisional; Region: PRK11173 1300254000741 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 1300254000742 active site 1300254000743 phosphorylation site [posttranslational modification] 1300254000744 intermolecular recognition site; other site 1300254000745 dimerization interface [polypeptide binding]; other site 1300254000746 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 1300254000747 DNA binding site [nucleotide binding] 1300254000748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254000749 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 1300254000750 dimer interface [polypeptide binding]; other site 1300254000751 phosphorylation site [posttranslational modification] 1300254000752 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 1300254000753 ATP binding site [chemical binding]; other site 1300254000754 Mg2+ binding site [ion binding]; other site 1300254000755 G-X-G motif; other site 1300254000756 glycogen synthase; Provisional; Region: glgA; PRK00654 1300254000757 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 1300254000758 ADP-binding pocket [chemical binding]; other site 1300254000759 homodimer interface [polypeptide binding]; other site 1300254000760 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1300254000761 Methyltransferase small domain; Region: MTS; pfam05175 1300254000762 S-adenosylmethionine binding site [chemical binding]; other site 1300254000763 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1300254000764 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254000765 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1300254000766 adenine DNA glycosylase; Provisional; Region: PRK10880 1300254000767 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1300254000768 minor groove reading motif; other site 1300254000769 helix-hairpin-helix signature motif; other site 1300254000770 substrate binding pocket [chemical binding]; other site 1300254000771 active site 1300254000772 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1300254000773 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 1300254000774 DNA binding and oxoG recognition site [nucleotide binding] 1300254000775 oxidative damage protection protein; Provisional; Region: PRK05408 1300254000776 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 1300254000777 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 1300254000778 ATP binding site [chemical binding]; other site 1300254000779 putative Mg++ binding site [ion binding]; other site 1300254000780 Protein of unknown function, DUF; Region: DUF411; cl01142 1300254000781 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1300254000782 active site 1300254000783 substrate binding site [chemical binding]; other site 1300254000784 cosubstrate binding site; other site 1300254000785 catalytic site [active] 1300254000786 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1300254000787 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 1300254000788 dimerization interface [polypeptide binding]; other site 1300254000789 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 1300254000790 dimer interface [polypeptide binding]; other site 1300254000791 phosphorylation site [posttranslational modification] 1300254000792 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 1300254000793 ATP binding site [chemical binding]; other site 1300254000794 Mg2+ binding site [ion binding]; other site 1300254000795 G-X-G motif; other site 1300254000796 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1300254000797 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 1300254000798 active site 1300254000799 phosphorylation site [posttranslational modification] 1300254000800 intermolecular recognition site; other site 1300254000801 dimerization interface [polypeptide binding]; other site 1300254000802 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 1300254000803 DNA binding site [nucleotide binding] 1300254000804 Protein of unknown function, DUF; Region: DUF411; cl01142 1300254000805 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1300254000806 Outer membrane efflux protein; Region: OEP; pfam02321 1300254000807 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1300254000808 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1300254000809 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254000810 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1300254000811 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1300254000812 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1300254000813 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1300254000814 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1300254000815 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 1300254000816 CopC domain; Region: CopC; pfam04234 1300254000817 Copper resistance protein D; Region: CopD; cl00563 1300254000818 SnoaL-like domain; Region: SnoaL_2; pfam12680 1300254000819 SnoaL-like domain; Region: SnoaL_3; pfam13474 1300254000820 SnoaL-like domain; Region: SnoaL_3; pfam13474 1300254000821 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1300254000822 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 1300254000823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254000824 active site 1300254000825 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1300254000826 FAD binding domain; Region: FAD_binding_4; pfam01565 1300254000827 Berberine and berberine like; Region: BBE; pfam08031 1300254000828 Cytochrome c; Region: Cytochrom_C; cl11414 1300254000829 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 1300254000830 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 1300254000831 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1300254000832 FAD binding pocket [chemical binding]; other site 1300254000833 FAD binding motif [chemical binding]; other site 1300254000834 phosphate binding motif [ion binding]; other site 1300254000835 beta-alpha-beta structure motif; other site 1300254000836 NAD binding pocket [chemical binding]; other site 1300254000837 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 1300254000838 catalytic loop [active] 1300254000839 iron binding site [ion binding]; other site 1300254000840 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 1300254000841 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 1300254000842 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 1300254000843 putative substrate-binding site; other site 1300254000844 nickel binding site [ion binding]; other site 1300254000845 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 1300254000846 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 1300254000847 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1300254000848 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1300254000849 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1300254000850 HupF/HypC family; Region: HupF_HypC; pfam01455 1300254000851 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 1300254000852 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 1300254000853 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 1300254000854 Hydrogenase formation hypA family; Region: HypD; pfam01924 1300254000855 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1300254000856 Acylphosphatase; Region: Acylphosphatase; pfam00708 1300254000857 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1300254000858 HypF finger; Region: zf-HYPF; pfam07503 1300254000859 HypF finger; Region: zf-HYPF; pfam07503 1300254000860 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1300254000861 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 1300254000862 dimerization interface [polypeptide binding]; other site 1300254000863 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1300254000864 ATP binding site [chemical binding]; other site 1300254000865 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 1300254000866 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1300254000867 DNA binding residues [nucleotide binding] 1300254000868 dimer interface [polypeptide binding]; other site 1300254000869 copper exporting ATPase; Provisional; Region: copA; PRK10671 1300254000870 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 1300254000871 metal-binding site [ion binding] 1300254000872 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1300254000873 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1300254000874 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1300254000875 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 1300254000876 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1300254000877 glutamate dehydrogenase; Provisional; Region: PRK09414 1300254000878 Integrase core domain; Region: rve; pfam00665 1300254000879 High-affinity nickel-transport protein; Region: NicO; cl00964 1300254000880 Outer membrane efflux protein; Region: OEP; pfam02321 1300254000881 Outer membrane efflux protein; Region: OEP; pfam02321 1300254000882 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1300254000883 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254000884 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1300254000885 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1300254000886 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 1300254000887 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1300254000888 putative metal dependent hydrolase; Provisional; Region: PRK11598 1300254000889 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1300254000890 Sulfatase; Region: Sulfatase; pfam00884 1300254000891 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1300254000892 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1300254000893 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1300254000894 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1300254000895 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 1300254000896 active site 1300254000897 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1300254000898 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 1300254000899 active site 1300254000900 phosphorylation site [posttranslational modification] 1300254000901 intermolecular recognition site; other site 1300254000902 dimerization interface [polypeptide binding]; other site 1300254000903 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 1300254000904 DNA binding site [nucleotide binding] 1300254000905 potential frameshift: common BLAST hit: gi|407686050|ref|YP_006801223.1| sensor transduction kinase 1300254000906 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1300254000907 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1300254000908 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1300254000909 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254000910 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254000911 Outer membrane efflux protein; Region: OEP; pfam02321 1300254000912 Outer membrane efflux protein; Region: OEP; pfam02321 1300254000913 Peptidase family M48; Region: Peptidase_M48; cl12018 1300254000914 Penicillinase repressor; Region: Pencillinase_R; cl17580 1300254000915 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 1300254000916 active site 1300254000917 catalytic residues [active] 1300254000918 DNA binding site [nucleotide binding] 1300254000919 Int/Topo IB signature motif; other site 1300254000920 Transposase; Region: HTH_Tnp_1; pfam01527 1300254000921 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1300254000922 putative transposase OrfB; Reviewed; Region: PHA02517 1300254000923 HTH-like domain; Region: HTH_21; pfam13276 1300254000924 Integrase core domain; Region: rve; pfam00665 1300254000925 Integrase core domain; Region: rve_3; pfam13683 1300254000926 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 1300254000927 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1300254000928 DNA binding residues [nucleotide binding] 1300254000929 dimer interface [polypeptide binding]; other site 1300254000930 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1300254000931 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 1300254000932 metal-binding site [ion binding] 1300254000933 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1300254000934 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1300254000935 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1300254000936 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 1300254000937 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1300254000938 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 1300254000939 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1300254000940 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1300254000941 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1300254000942 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1300254000943 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1300254000944 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1300254000945 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1300254000946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254000947 dimer interface [polypeptide binding]; other site 1300254000948 putative CheW interface [polypeptide binding]; other site 1300254000949 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1300254000950 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1300254000951 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1300254000952 CheD chemotactic sensory transduction; Region: CheD; cl00810 1300254000953 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1300254000954 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 1300254000955 active site 1300254000956 phosphorylation site [posttranslational modification] 1300254000957 intermolecular recognition site; other site 1300254000958 dimerization interface [polypeptide binding]; other site 1300254000959 CheB methylesterase; Region: CheB_methylest; pfam01339 1300254000960 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1300254000961 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 1300254000962 motif II; other site 1300254000963 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254000964 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 1300254000965 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 1300254000966 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1300254000967 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1300254000968 DNA binding site [nucleotide binding] 1300254000969 domain linker motif; other site 1300254000970 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 1300254000971 putative dimerization interface [polypeptide binding]; other site 1300254000972 putative ligand binding site [chemical binding]; other site 1300254000973 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1300254000974 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 1300254000975 putative substrate translocation pore; other site 1300254000976 Trehalase; Region: Trehalase; cl17346 1300254000977 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254000978 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254000979 metal binding site [ion binding]; metal-binding site 1300254000980 active site 1300254000981 I-site; other site 1300254000982 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 1300254000983 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 1300254000984 active site 1300254000985 motif I; other site 1300254000986 motif II; other site 1300254000987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254000988 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 1300254000989 dimer interface [polypeptide binding]; other site 1300254000990 phosphorylation site [posttranslational modification] 1300254000991 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 1300254000992 ATP binding site [chemical binding]; other site 1300254000993 Mg2+ binding site [ion binding]; other site 1300254000994 G-X-G motif; other site 1300254000995 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254000996 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 1300254000997 active site 1300254000998 phosphorylation site [posttranslational modification] 1300254000999 intermolecular recognition site; other site 1300254001000 dimerization interface [polypeptide binding]; other site 1300254001001 Helix-turn-helix domain; Region: HTH_18; pfam12833 1300254001002 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1300254001003 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1300254001004 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1300254001005 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1300254001006 DNA binding site [nucleotide binding] 1300254001007 domain linker motif; other site 1300254001008 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1300254001009 dimerization interface [polypeptide binding]; other site 1300254001010 ligand binding site [chemical binding]; other site 1300254001011 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1300254001012 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1300254001013 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1300254001014 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1300254001015 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 1300254001016 Metal-binding active site; metal-binding site 1300254001017 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1300254001018 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 1300254001019 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 1300254001020 putative substrate translocation pore; other site 1300254001021 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1300254001022 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1300254001023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1300254001024 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1300254001025 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1300254001026 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1300254001027 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1300254001028 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1300254001029 active site 1300254001030 NAD binding site [chemical binding]; other site 1300254001031 metal binding site [ion binding]; metal-binding site 1300254001032 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1300254001033 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 1300254001034 homodimer interface [polypeptide binding]; other site 1300254001035 substrate-cofactor binding pocket; other site 1300254001036 catalytic residue [active] 1300254001037 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 1300254001038 catalytic core [active] 1300254001039 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 1300254001040 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 1300254001041 aconitate hydratase; Validated; Region: PRK09277 1300254001042 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1300254001043 substrate binding site [chemical binding]; other site 1300254001044 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1300254001045 ligand binding site [chemical binding]; other site 1300254001046 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 1300254001047 substrate binding site [chemical binding]; other site 1300254001048 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1300254001049 Sel1-like repeats; Region: SEL1; smart00671 1300254001050 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1300254001051 GAF domain; Region: GAF_2; pfam13185 1300254001052 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1300254001053 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1300254001054 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 1300254001055 Walker A motif; other site 1300254001056 ATP binding site [chemical binding]; other site 1300254001057 Walker B motif; other site 1300254001058 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1300254001059 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1300254001060 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1300254001061 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1300254001062 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1300254001063 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1300254001064 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1300254001065 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1300254001066 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 1300254001067 putative translocon binding site; other site 1300254001068 protein-rRNA interface [nucleotide binding]; other site 1300254001069 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1300254001070 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 1300254001071 G-X-X-G motif; other site 1300254001072 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1300254001073 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 1300254001074 23S rRNA interface [nucleotide binding]; other site 1300254001075 5S rRNA interface [nucleotide binding]; other site 1300254001076 putative antibiotic binding site [chemical binding]; other site 1300254001077 L25 interface [polypeptide binding]; other site 1300254001078 L27 interface [polypeptide binding]; other site 1300254001079 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 1300254001080 23S rRNA interface [nucleotide binding]; other site 1300254001081 putative translocon interaction site; other site 1300254001082 signal recognition particle (SRP54) interaction site; other site 1300254001083 L23 interface [polypeptide binding]; other site 1300254001084 trigger factor interaction site; other site 1300254001085 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1300254001086 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 1300254001087 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254001088 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1300254001089 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 1300254001090 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 1300254001091 putative active site [active] 1300254001092 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1300254001093 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1300254001094 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 1300254001095 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1300254001096 TrkA-N domain; Region: TrkA_N; pfam02254 1300254001097 Cache domain; Region: Cache_1; pfam02743 1300254001098 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 1300254001099 dimerization interface [polypeptide binding]; other site 1300254001100 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254001101 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254001102 dimer interface [polypeptide binding]; other site 1300254001103 putative CheW interface [polypeptide binding]; other site 1300254001104 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1300254001105 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1300254001106 active site 1300254001107 Zn binding site [ion binding]; other site 1300254001108 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1300254001109 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1300254001110 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1300254001111 putative active site [active] 1300254001112 putative substrate binding site [chemical binding]; other site 1300254001113 putative cosubstrate binding site; other site 1300254001114 catalytic site [active] 1300254001115 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1300254001116 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1300254001117 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1300254001118 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 1300254001119 ATP binding site [chemical binding]; other site 1300254001120 putative Mg++ binding site [ion binding]; other site 1300254001121 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 1300254001122 nucleotide binding region [chemical binding]; other site 1300254001123 ATP-binding site [chemical binding]; other site 1300254001124 Helicase associated domain (HA2); Region: HA2; pfam04408 1300254001125 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1300254001126 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1300254001127 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1300254001128 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 1300254001129 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254001130 catalytic residue [active] 1300254001131 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1300254001132 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1300254001133 Transglycosylase; Region: Transgly; pfam00912 1300254001134 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1300254001135 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1300254001136 Helix-turn-helix domain; Region: HTH_18; pfam12833 1300254001137 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1300254001138 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1300254001139 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 1300254001140 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1300254001141 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1300254001142 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1300254001143 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1300254001144 cyclase homology domain; Region: CHD; cd07302 1300254001145 nucleotidyl binding site; other site 1300254001146 metal binding site [ion binding]; metal-binding site 1300254001147 dimer interface [polypeptide binding]; other site 1300254001148 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1300254001149 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 1300254001150 inhibitor-cofactor binding pocket; inhibition site 1300254001151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254001152 catalytic residue [active] 1300254001153 aspartate carbamoyltransferase; Provisional; Region: PRK08192 1300254001154 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1300254001155 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1300254001156 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1300254001157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254001158 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1300254001159 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254001160 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254001161 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254001162 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254001163 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 1300254001164 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1300254001165 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1300254001166 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1300254001167 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 1300254001168 dimer interface [polypeptide binding]; other site 1300254001169 phosphorylation site [posttranslational modification] 1300254001170 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 1300254001171 ATP binding site [chemical binding]; other site 1300254001172 Mg2+ binding site [ion binding]; other site 1300254001173 G-X-G motif; other site 1300254001174 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254001175 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 1300254001176 active site 1300254001177 phosphorylation site [posttranslational modification] 1300254001178 intermolecular recognition site; other site 1300254001179 dimerization interface [polypeptide binding]; other site 1300254001180 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 1300254001181 putative binding surface; other site 1300254001182 active site 1300254001183 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1300254001184 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 1300254001185 CAP-like domain; other site 1300254001186 active site 1300254001187 primary dimer interface [polypeptide binding]; other site 1300254001188 Heme NO binding; Region: HNOB; pfam07700 1300254001189 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 1300254001190 PAS domain; Region: PAS_9; pfam13426 1300254001191 putative active site [active] 1300254001192 heme pocket [chemical binding]; other site 1300254001193 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254001194 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254001195 metal binding site [ion binding]; metal-binding site 1300254001196 active site 1300254001197 I-site; other site 1300254001198 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 1300254001199 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1300254001200 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1300254001201 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1300254001202 NAD(P) binding site [chemical binding]; other site 1300254001203 catalytic residues [active] 1300254001204 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1300254001205 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1300254001206 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1300254001207 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 1300254001208 inhibitor-cofactor binding pocket; inhibition site 1300254001209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254001210 catalytic residue [active] 1300254001211 HDOD domain; Region: HDOD; pfam08668 1300254001212 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1300254001213 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1300254001214 glutamine binding [chemical binding]; other site 1300254001215 catalytic triad [active] 1300254001216 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1300254001217 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1300254001218 active site 1300254001219 HIGH motif; other site 1300254001220 dimer interface [polypeptide binding]; other site 1300254001221 KMSKS motif; other site 1300254001222 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 1300254001223 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1300254001224 substrate binding site [chemical binding]; other site 1300254001225 hexamer interface [polypeptide binding]; other site 1300254001226 metal binding site [ion binding]; metal-binding site 1300254001227 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1300254001228 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1300254001229 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1300254001230 AAA domain; Region: AAA_22; pfam13401 1300254001231 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1300254001232 active site 1300254001233 dimer interface [polypeptide binding]; other site 1300254001234 metal binding site [ion binding]; metal-binding site 1300254001235 shikimate kinase; Reviewed; Region: aroK; PRK00131 1300254001236 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 1300254001237 ADP binding site [chemical binding]; other site 1300254001238 magnesium binding site [ion binding]; other site 1300254001239 putative shikimate binding site; other site 1300254001240 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1300254001241 Secretin and TonB N terminus short domain; Region: STN; smart00965 1300254001242 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1300254001243 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1300254001244 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1300254001245 Pilus assembly protein, PilP; Region: PilP; pfam04351 1300254001246 Pilus assembly protein, PilO; Region: PilO; pfam04350 1300254001247 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1300254001248 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1300254001249 Competence protein A; Region: Competence_A; pfam11104 1300254001250 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1300254001251 Transglycosylase; Region: Transgly; pfam00912 1300254001252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1300254001253 malate dehydrogenase; Provisional; Region: PRK13529 1300254001254 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1300254001255 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1300254001256 NAD(P) binding site [chemical binding]; other site 1300254001257 putative S-transferase; Provisional; Region: PRK11752 1300254001258 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 1300254001259 C-terminal domain interface [polypeptide binding]; other site 1300254001260 GSH binding site (G-site) [chemical binding]; other site 1300254001261 dimer interface [polypeptide binding]; other site 1300254001262 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1300254001263 dimer interface [polypeptide binding]; other site 1300254001264 N-terminal domain interface [polypeptide binding]; other site 1300254001265 active site 1300254001266 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1300254001267 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1300254001268 tetramer interface [polypeptide binding]; other site 1300254001269 heme binding pocket [chemical binding]; other site 1300254001270 NADPH binding site [chemical binding]; other site 1300254001271 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1300254001272 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254001273 WHG domain; Region: WHG; pfam13305 1300254001274 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1300254001275 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1300254001276 potential frameshift: common BLAST hit: gi|410860126|ref|YP_006975360.1| sensory box/GGDEF family protein 1300254001277 N-acetylglutamate synthase; Validated; Region: PRK05279 1300254001278 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 1300254001279 putative feedback inhibition sensing region; other site 1300254001280 putative nucleotide binding site [chemical binding]; other site 1300254001281 putative substrate binding site [chemical binding]; other site 1300254001282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254001283 Coenzyme A binding pocket [chemical binding]; other site 1300254001284 argininosuccinate lyase; Provisional; Region: PRK04833 1300254001285 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1300254001286 active sites [active] 1300254001287 tetramer interface [polypeptide binding]; other site 1300254001288 argininosuccinate synthase; Provisional; Region: PRK13820 1300254001289 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 1300254001290 ANP binding site [chemical binding]; other site 1300254001291 Substrate Binding Site II [chemical binding]; other site 1300254001292 Substrate Binding Site I [chemical binding]; other site 1300254001293 ornithine carbamoyltransferase; Provisional; Region: PRK14805 1300254001294 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1300254001295 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1300254001296 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 1300254001297 nucleotide binding site [chemical binding]; other site 1300254001298 substrate binding site [chemical binding]; other site 1300254001299 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1300254001300 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1300254001301 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 1300254001302 active site 1300254001303 dimer interfaces [polypeptide binding]; other site 1300254001304 catalytic residues [active] 1300254001305 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1300254001306 dimer interface [polypeptide binding]; other site 1300254001307 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1300254001308 dimer interface [polypeptide binding]; other site 1300254001309 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1300254001310 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 1300254001311 active site 1300254001312 phosphorylation site [posttranslational modification] 1300254001313 intermolecular recognition site; other site 1300254001314 dimerization interface [polypeptide binding]; other site 1300254001315 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 1300254001316 DNA binding site [nucleotide binding] 1300254001317 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 1300254001318 dimerization interface [polypeptide binding]; other site 1300254001319 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 1300254001320 dimer interface [polypeptide binding]; other site 1300254001321 phosphorylation site [posttranslational modification] 1300254001322 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 1300254001323 ATP binding site [chemical binding]; other site 1300254001324 Mg2+ binding site [ion binding]; other site 1300254001325 G-X-G motif; other site 1300254001326 lysophospholipase L2; Provisional; Region: PRK10749 1300254001327 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1300254001328 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1300254001329 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1300254001330 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1300254001331 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1300254001332 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 1300254001333 SecA binding site; other site 1300254001334 Preprotein binding site; other site 1300254001335 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 1300254001336 GSH binding site [chemical binding]; other site 1300254001337 catalytic residues [active] 1300254001338 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 1300254001339 active site residue [active] 1300254001340 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1300254001341 Peptidase family M23; Region: Peptidase_M23; pfam01551 1300254001342 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1300254001343 NodB motif; other site 1300254001344 putative active site [active] 1300254001345 putative catalytic site [active] 1300254001346 Zn binding site [ion binding]; other site 1300254001347 MerC mercury resistance protein; Region: MerC; pfam03203 1300254001348 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1300254001349 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1300254001350 active site 1300254001351 catalytic site [active] 1300254001352 metal binding site [ion binding]; metal-binding site 1300254001353 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1300254001354 EamA-like transporter family; Region: EamA; pfam00892 1300254001355 EamA-like transporter family; Region: EamA; pfam00892 1300254001356 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1300254001357 GTPase RsgA; Reviewed; Region: PRK12288 1300254001358 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 1300254001359 RNA binding site [nucleotide binding]; other site 1300254001360 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1300254001361 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1300254001362 GTP/Mg2+ binding site [chemical binding]; other site 1300254001363 G4 box; other site 1300254001364 G5 box; other site 1300254001365 G1 box; other site 1300254001366 Switch I region; other site 1300254001367 G2 box; other site 1300254001368 G3 box; other site 1300254001369 Switch II region; other site 1300254001370 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1300254001371 catalytic site [active] 1300254001372 putative active site [active] 1300254001373 putative substrate binding site [chemical binding]; other site 1300254001374 dimer interface [polypeptide binding]; other site 1300254001375 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254001376 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 1300254001377 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254001378 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 1300254001379 CoenzymeA binding site [chemical binding]; other site 1300254001380 subunit interaction site [polypeptide binding]; other site 1300254001381 PHB binding site; other site 1300254001382 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1300254001383 Cadherin repeat-like domain; Region: CA_like; cl15786 1300254001384 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 1300254001385 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1300254001386 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 1300254001387 cofactor binding site; other site 1300254001388 DNA binding site [nucleotide binding] 1300254001389 substrate interaction site [chemical binding]; other site 1300254001390 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 1300254001391 hypothetical protein; Provisional; Region: PRK11027 1300254001392 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1300254001393 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1300254001394 PYR/PP interface [polypeptide binding]; other site 1300254001395 dimer interface [polypeptide binding]; other site 1300254001396 TPP binding site [chemical binding]; other site 1300254001397 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1300254001398 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 1300254001399 TPP-binding site [chemical binding]; other site 1300254001400 dimer interface [polypeptide binding]; other site 1300254001401 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1300254001402 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1300254001403 putative valine binding site [chemical binding]; other site 1300254001404 dimer interface [polypeptide binding]; other site 1300254001405 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1300254001406 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 1300254001407 sec-independent translocase; Provisional; Region: PRK01770 1300254001408 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1300254001409 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1300254001410 active site 1300254001411 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1300254001412 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1300254001413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254001414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254001415 metal binding site [ion binding]; metal-binding site 1300254001416 active site 1300254001417 I-site; other site 1300254001418 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 1300254001419 dimer interface [polypeptide binding]; other site 1300254001420 allosteric magnesium binding site [ion binding]; other site 1300254001421 active site 1300254001422 aspartate-rich active site metal binding site; other site 1300254001423 Schiff base residues; other site 1300254001424 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1300254001425 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1300254001426 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1300254001427 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 1300254001428 ATP binding site [chemical binding]; other site 1300254001429 Mg++ binding site [ion binding]; other site 1300254001430 motif III; other site 1300254001431 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 1300254001432 nucleotide binding region [chemical binding]; other site 1300254001433 ATP-binding site [chemical binding]; other site 1300254001434 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 1300254001435 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1300254001436 catalytic residues [active] 1300254001437 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1300254001438 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1300254001439 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 1300254001440 RNA binding site [nucleotide binding]; other site 1300254001441 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 1300254001442 multimer interface [polypeptide binding]; other site 1300254001443 Walker A motif; other site 1300254001444 ATP binding site [chemical binding]; other site 1300254001445 Walker B motif; other site 1300254001446 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1300254001447 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1300254001448 metal binding site [ion binding]; metal-binding site 1300254001449 putative dimer interface [polypeptide binding]; other site 1300254001450 Cache domain; Region: Cache_1; pfam02743 1300254001451 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 1300254001452 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254001453 dimer interface [polypeptide binding]; other site 1300254001454 phosphorylation site [posttranslational modification] 1300254001455 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 1300254001456 ATP binding site [chemical binding]; other site 1300254001457 Mg2+ binding site [ion binding]; other site 1300254001458 G-X-G motif; other site 1300254001459 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254001460 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 1300254001461 active site 1300254001462 phosphorylation site [posttranslational modification] 1300254001463 intermolecular recognition site; other site 1300254001464 dimerization interface [polypeptide binding]; other site 1300254001465 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1300254001466 AIR carboxylase; Region: AIRC; pfam00731 1300254001467 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1300254001468 ATP-grasp domain; Region: ATP-grasp; pfam02222 1300254001469 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1300254001470 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1300254001471 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1300254001472 dimerization interface [polypeptide binding]; other site 1300254001473 DPS ferroxidase diiron center [ion binding]; other site 1300254001474 ion pore; other site 1300254001475 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1300254001476 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1300254001477 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1300254001478 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254001479 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1300254001480 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1300254001481 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 1300254001482 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 1300254001483 binding surface 1300254001484 TPR motif; other site 1300254001485 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1300254001486 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 1300254001487 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1300254001488 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1300254001489 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 1300254001490 GDP-binding site [chemical binding]; other site 1300254001491 ACT binding site; other site 1300254001492 IMP binding site; other site 1300254001493 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1300254001494 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 1300254001495 NAD(P) binding site [chemical binding]; other site 1300254001496 catalytic residues [active] 1300254001497 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 1300254001498 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254001499 putative metal binding site [ion binding]; other site 1300254001500 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1300254001501 LabA_like proteins; Region: LabA; cd10911 1300254001502 putative metal binding site [ion binding]; other site 1300254001503 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1300254001504 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1300254001505 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1300254001506 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1300254001507 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1300254001508 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254001509 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254001510 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 1300254001511 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1300254001512 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 1300254001513 putative active site [active] 1300254001514 alanine racemase; Reviewed; Region: alr; PRK00053 1300254001515 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1300254001516 active site 1300254001517 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1300254001518 substrate binding site [chemical binding]; other site 1300254001519 catalytic residues [active] 1300254001520 dimer interface [polypeptide binding]; other site 1300254001521 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1300254001522 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1300254001523 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1300254001524 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 1300254001525 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254001526 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1300254001527 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 1300254001528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1300254001529 substrate binding pocket [chemical binding]; other site 1300254001530 membrane-bound complex binding site; other site 1300254001531 hinge residues; other site 1300254001532 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1300254001533 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1300254001534 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1300254001535 PhnA protein; Region: PhnA; pfam03831 1300254001536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254001537 Coenzyme A binding pocket [chemical binding]; other site 1300254001538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1300254001539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1300254001540 Coenzyme A binding pocket [chemical binding]; other site 1300254001541 PIN domain; Region: PIN_3; pfam13470 1300254001542 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1300254001543 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 1300254001544 sequence-specific DNA binding site [nucleotide binding]; other site 1300254001545 salt bridge; other site 1300254001546 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 1300254001547 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1300254001548 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1300254001549 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1300254001550 Putative addiction module component; Region: Unstab_antitox; pfam09720 1300254001551 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1300254001552 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1300254001553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1300254001554 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1300254001555 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1300254001556 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1300254001557 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 1300254001558 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1300254001559 integron integrase; Region: integrase_gron; TIGR02249 1300254001560 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 1300254001561 Int/Topo IB signature motif; other site 1300254001562 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1300254001563 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 1300254001564 dimer interface [polypeptide binding]; other site 1300254001565 active site 1300254001566 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1300254001567 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 1300254001568 substrate binding site [chemical binding]; other site 1300254001569 oxyanion hole (OAH) forming residues; other site 1300254001570 trimer interface [polypeptide binding]; other site 1300254001571 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1300254001572 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1300254001573 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1300254001574 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1300254001575 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 1300254001576 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254001577 catalytic residue [active] 1300254001578 proline dipeptidase; Provisional; Region: PRK13607 1300254001579 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 1300254001580 active site 1300254001581 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1300254001582 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1300254001583 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1300254001584 substrate binding pocket [chemical binding]; other site 1300254001585 chain length determination region; other site 1300254001586 substrate-Mg2+ binding site; other site 1300254001587 catalytic residues [active] 1300254001588 aspartate-rich region 1; other site 1300254001589 active site lid residues [active] 1300254001590 aspartate-rich region 2; other site 1300254001591 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1300254001592 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1300254001593 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1300254001594 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1300254001595 GTP1/OBG; Region: GTP1_OBG; pfam01018 1300254001596 Obg GTPase; Region: Obg; cd01898 1300254001597 G1 box; other site 1300254001598 GTP/Mg2+ binding site [chemical binding]; other site 1300254001599 Switch I region; other site 1300254001600 G2 box; other site 1300254001601 G3 box; other site 1300254001602 Switch II region; other site 1300254001603 G4 box; other site 1300254001604 G5 box; other site 1300254001605 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1300254001606 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 1300254001607 folate binding site [chemical binding]; other site 1300254001608 NADP+ binding site [chemical binding]; other site 1300254001609 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1300254001610 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1300254001611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254001612 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1300254001613 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 1300254001614 DNA binding residues [nucleotide binding] 1300254001615 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1300254001616 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1300254001617 Peptidase family M23; Region: Peptidase_M23; pfam01551 1300254001618 Predicted membrane protein [Function unknown]; Region: COG1238 1300254001619 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1300254001620 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 1300254001621 S-adenosylmethionine binding site [chemical binding]; other site 1300254001622 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1300254001623 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1300254001624 Permutation of conserved domain; other site 1300254001625 active site 1300254001626 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1300254001627 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 1300254001628 homotrimer interaction site [polypeptide binding]; other site 1300254001629 zinc binding site [ion binding]; other site 1300254001630 CDP-binding sites; other site 1300254001631 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1300254001632 substrate binding site; other site 1300254001633 dimer interface; other site 1300254001634 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1300254001635 Septum formation initiator; Region: DivIC; cl17659 1300254001636 TIGR03545 family protein; Region: TIGR03545 1300254001637 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 1300254001638 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 1300254001639 dimerization interface [polypeptide binding]; other site 1300254001640 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254001641 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254001642 dimer interface [polypeptide binding]; other site 1300254001643 putative CheW interface [polypeptide binding]; other site 1300254001644 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1300254001645 Proline dehydrogenase; Region: Pro_dh; pfam01619 1300254001646 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1300254001647 Glutamate binding site [chemical binding]; other site 1300254001648 NAD binding site [chemical binding]; other site 1300254001649 catalytic residues [active] 1300254001650 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1300254001651 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 1300254001652 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1300254001653 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1300254001654 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1300254001655 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1300254001656 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1300254001657 putative active site [active] 1300254001658 putative metal binding residues [ion binding]; other site 1300254001659 signature motif; other site 1300254001660 putative triphosphate binding site [ion binding]; other site 1300254001661 Helix-turn-helix domain; Region: HTH_18; pfam12833 1300254001662 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 1300254001663 putative DNA-binding cleft [nucleotide binding]; other site 1300254001664 putative DNA clevage site; other site 1300254001665 molecular lever; other site 1300254001666 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 1300254001667 putative active site [active] 1300254001668 Ap4A binding site [chemical binding]; other site 1300254001669 nudix motif; other site 1300254001670 putative metal binding site [ion binding]; other site 1300254001671 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1300254001672 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1300254001673 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1300254001674 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1300254001675 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1300254001676 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254001677 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1300254001678 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1300254001679 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 1300254001680 dimerization interface [polypeptide binding]; other site 1300254001681 active site 1300254001682 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254001683 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 1300254001684 active site 1300254001685 phosphorylation site [posttranslational modification] 1300254001686 intermolecular recognition site; other site 1300254001687 dimerization interface [polypeptide binding]; other site 1300254001688 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1300254001689 PAS fold; Region: PAS_4; pfam08448 1300254001690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254001691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254001692 metal binding site [ion binding]; metal-binding site 1300254001693 active site 1300254001694 I-site; other site 1300254001695 muropeptide transporter; Validated; Region: ampG; cl17669 1300254001696 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1300254001697 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1300254001698 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1300254001699 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1300254001700 active site 1300254001701 ATP-dependent helicase HepA; Validated; Region: PRK04914 1300254001702 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 1300254001703 ATP binding site [chemical binding]; other site 1300254001704 putative Mg++ binding site [ion binding]; other site 1300254001705 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 1300254001706 nucleotide binding region [chemical binding]; other site 1300254001707 ATP-binding site [chemical binding]; other site 1300254001708 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1300254001709 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1300254001710 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1300254001711 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1300254001712 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1300254001713 putative active site [active] 1300254001714 PhoH-like protein; Region: PhoH; pfam02562 1300254001715 siroheme synthase; Provisional; Region: cysG; PRK10637 1300254001716 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1300254001717 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1300254001718 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1300254001719 active site 1300254001720 SAM binding site [chemical binding]; other site 1300254001721 homodimer interface [polypeptide binding]; other site 1300254001722 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1300254001723 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 1300254001724 ATP binding site [chemical binding]; other site 1300254001725 Mg++ binding site [ion binding]; other site 1300254001726 motif III; other site 1300254001727 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 1300254001728 nucleotide binding region [chemical binding]; other site 1300254001729 ATP-binding site [chemical binding]; other site 1300254001730 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1300254001731 putative RNA binding site [nucleotide binding]; other site 1300254001732 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1300254001733 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 1300254001734 TPR motif; other site 1300254001735 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 1300254001736 binding surface 1300254001737 TPR motif; other site 1300254001738 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 1300254001739 TPR motif; other site 1300254001740 binding surface 1300254001741 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 1300254001742 binding surface 1300254001743 TPR motif; other site 1300254001744 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 1300254001745 TPR motif; other site 1300254001746 binding surface 1300254001747 Ion transport protein; Region: Ion_trans; pfam00520 1300254001748 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1300254001749 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1300254001750 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 1300254001751 dimer interface [polypeptide binding]; other site 1300254001752 ADP-ribose binding site [chemical binding]; other site 1300254001753 active site 1300254001754 nudix motif; other site 1300254001755 metal binding site [ion binding]; metal-binding site 1300254001756 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1300254001757 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1300254001758 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1300254001759 active site 1300254001760 metal binding site [ion binding]; metal-binding site 1300254001761 hexamer interface [polypeptide binding]; other site 1300254001762 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1300254001763 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254001764 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1300254001765 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 1300254001766 ATP binding site [chemical binding]; other site 1300254001767 Mg2+ binding site [ion binding]; other site 1300254001768 G-X-G motif; other site 1300254001769 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 1300254001770 anchoring element; other site 1300254001771 dimer interface [polypeptide binding]; other site 1300254001772 ATP binding site [chemical binding]; other site 1300254001773 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 1300254001774 active site 1300254001775 metal binding site [ion binding]; metal-binding site 1300254001776 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1300254001777 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1300254001778 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1300254001779 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 1300254001780 motif II; other site 1300254001781 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 1300254001782 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1300254001783 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 1300254001784 FeS/SAM binding site; other site 1300254001785 elongation factor P; Validated; Region: PRK00529 1300254001786 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1300254001787 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 1300254001788 RNA binding site [nucleotide binding]; other site 1300254001789 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 1300254001790 RNA binding site [nucleotide binding]; other site 1300254001791 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 1300254001792 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1300254001793 motif 1; other site 1300254001794 dimer interface [polypeptide binding]; other site 1300254001795 active site 1300254001796 motif 2; other site 1300254001797 motif 3; other site 1300254001798 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1300254001799 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254001800 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 1300254001801 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254001802 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1300254001803 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1300254001804 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254001805 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 1300254001806 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1300254001807 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 1300254001808 active site 1300254001809 dimer interface [polypeptide binding]; other site 1300254001810 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 1300254001811 active site 1300254001812 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1300254001813 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 1300254001814 S-adenosylmethionine binding site [chemical binding]; other site 1300254001815 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1300254001816 BolA-like protein; Region: BolA; cl00386 1300254001817 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 1300254001818 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1300254001819 active site 1300254001820 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1300254001821 Nitrate and nitrite sensing; Region: NIT; pfam08376 1300254001822 ANTAR domain; Region: ANTAR; pfam03861 1300254001823 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1300254001824 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1300254001825 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 1300254001826 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1300254001827 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254001828 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254001829 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1300254001830 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1300254001831 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1300254001832 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 1300254001833 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 1300254001834 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1300254001835 [4Fe-4S] binding site [ion binding]; other site 1300254001836 molybdopterin cofactor binding site; other site 1300254001837 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 1300254001838 molybdopterin cofactor binding site; other site 1300254001839 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1300254001840 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1300254001841 active site 1300254001842 SAM binding site [chemical binding]; other site 1300254001843 homodimer interface [polypeptide binding]; other site 1300254001844 hypothetical protein; Validated; Region: PRK09071 1300254001845 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1300254001846 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 1300254001847 PAS domain; Region: PAS_9; pfam13426 1300254001848 putative active site [active] 1300254001849 heme pocket [chemical binding]; other site 1300254001850 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 1300254001851 PAS domain; Region: PAS_9; pfam13426 1300254001852 putative active site [active] 1300254001853 heme pocket [chemical binding]; other site 1300254001854 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254001855 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254001856 dimer interface [polypeptide binding]; other site 1300254001857 putative CheW interface [polypeptide binding]; other site 1300254001858 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1300254001859 NMT1-like family; Region: NMT1_2; pfam13379 1300254001860 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1300254001861 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 1300254001862 dimer interface [polypeptide binding]; other site 1300254001863 conserved gate region; other site 1300254001864 putative PBP binding loops; other site 1300254001865 ABC-ATPase subunit interface; other site 1300254001866 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1300254001867 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1300254001868 Walker A/P-loop; other site 1300254001869 ATP binding site [chemical binding]; other site 1300254001870 Q-loop/lid; other site 1300254001871 ABC transporter signature motif; other site 1300254001872 Walker B; other site 1300254001873 D-loop; other site 1300254001874 H-loop/switch region; other site 1300254001875 HD domain; Region: HD_3; pfam13023 1300254001876 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 1300254001877 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1300254001878 catalytic residues [active] 1300254001879 hinge region; other site 1300254001880 alpha helical domain; other site 1300254001881 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1300254001882 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 1300254001883 N-terminal plug; other site 1300254001884 ligand-binding site [chemical binding]; other site 1300254001885 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1300254001886 serine/threonine protein kinase; Provisional; Region: PRK11768 1300254001887 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1300254001888 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1300254001889 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 1300254001890 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1300254001891 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1300254001892 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1300254001893 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1300254001894 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254001895 active site 1300254001896 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1300254001897 aldose dehydrogenase; Validated; Region: PRK06398 1300254001898 classical (c) SDRs; Region: SDR_c; cd05233 1300254001899 NAD(P) binding site [chemical binding]; other site 1300254001900 active site 1300254001901 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1300254001902 Amidohydrolase; Region: Amidohydro_2; pfam04909 1300254001903 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1300254001904 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 1300254001905 active site pocket [active] 1300254001906 aldolase II superfamily protein; Provisional; Region: PRK07044 1300254001907 active site 1300254001908 intersubunit interface [polypeptide binding]; other site 1300254001909 Zn2+ binding site [ion binding]; other site 1300254001910 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 1300254001911 nudix motif; other site 1300254001912 potential frameshift: common BLAST hit: gi|410860335|ref|YP_006975569.1| HlyD family secretion protein 1300254001913 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254001914 Protein export membrane protein; Region: SecD_SecF; cl14618 1300254001915 Protein export membrane protein; Region: SecD_SecF; cl14618 1300254001916 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 1300254001917 dimerization interface [polypeptide binding]; other site 1300254001918 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254001919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254001920 dimer interface [polypeptide binding]; other site 1300254001921 putative CheW interface [polypeptide binding]; other site 1300254001922 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1300254001923 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1300254001924 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1300254001925 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1300254001926 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254001927 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1300254001928 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 1300254001929 DNA binding residues [nucleotide binding] 1300254001930 DNA primase; Validated; Region: dnaG; PRK05667 1300254001931 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1300254001932 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1300254001933 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 1300254001934 active site 1300254001935 metal binding site [ion binding]; metal-binding site 1300254001936 interdomain interaction site; other site 1300254001937 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1300254001938 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1300254001939 Yqey-like protein; Region: YqeY; pfam09424 1300254001940 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1300254001941 UGMP family protein; Validated; Region: PRK09604 1300254001942 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1300254001943 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1300254001944 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1300254001945 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1300254001946 Dihydroneopterin aldolase; Region: FolB; pfam02152 1300254001947 active site 1300254001948 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 1300254001949 catalytic center binding site [active] 1300254001950 ATP binding site [chemical binding]; other site 1300254001951 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1300254001952 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 1300254001953 nucleotide binding site/active site [active] 1300254001954 HIT family signature motif; other site 1300254001955 catalytic residue [active] 1300254001956 Nudix hydrolase homolog; Region: PLN02791 1300254001957 HDOD domain; Region: HDOD; pfam08668 1300254001958 Benzoate membrane transport protein; Region: BenE; pfam03594 1300254001959 benzoate transporter; Region: benE; TIGR00843 1300254001960 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1300254001961 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 1300254001962 non-specific DNA binding site [nucleotide binding]; other site 1300254001963 salt bridge; other site 1300254001964 sequence-specific DNA binding site [nucleotide binding]; other site 1300254001965 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1300254001966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254001967 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 1300254001968 ATP binding site [chemical binding]; other site 1300254001969 Mg2+ binding site [ion binding]; other site 1300254001970 G-X-G motif; other site 1300254001971 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1300254001972 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 1300254001973 active site 1300254001974 phosphorylation site [posttranslational modification] 1300254001975 intermolecular recognition site; other site 1300254001976 dimerization interface [polypeptide binding]; other site 1300254001977 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 1300254001978 DNA binding site [nucleotide binding] 1300254001979 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1300254001980 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1300254001981 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 1300254001982 dimer interface [polypeptide binding]; other site 1300254001983 phosphorylation site [posttranslational modification] 1300254001984 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 1300254001985 ATP binding site [chemical binding]; other site 1300254001986 Mg2+ binding site [ion binding]; other site 1300254001987 G-X-G motif; other site 1300254001988 PBP superfamily domain; Region: PBP_like_2; cl17296 1300254001989 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254001990 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 1300254001991 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 1300254001992 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1300254001993 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1300254001994 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1300254001995 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1300254001996 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1300254001997 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1300254001998 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1300254001999 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 1300254002000 TPR motif; other site 1300254002001 binding surface 1300254002002 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1300254002003 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 1300254002004 active site 1300254002005 phosphorylation site [posttranslational modification] 1300254002006 intermolecular recognition site; other site 1300254002007 dimerization interface [polypeptide binding]; other site 1300254002008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1300254002009 Zn2+ binding site [ion binding]; other site 1300254002010 Mg2+ binding site [ion binding]; other site 1300254002011 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 1300254002012 PAS domain; Region: PAS_9; pfam13426 1300254002013 putative active site [active] 1300254002014 heme pocket [chemical binding]; other site 1300254002015 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1300254002016 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 1300254002017 putative active site [active] 1300254002018 heme pocket [chemical binding]; other site 1300254002019 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 1300254002020 dimer interface [polypeptide binding]; other site 1300254002021 phosphorylation site [posttranslational modification] 1300254002022 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 1300254002023 ATP binding site [chemical binding]; other site 1300254002024 Mg2+ binding site [ion binding]; other site 1300254002025 G-X-G motif; other site 1300254002026 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254002027 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 1300254002028 active site 1300254002029 phosphorylation site [posttranslational modification] 1300254002030 intermolecular recognition site; other site 1300254002031 dimerization interface [polypeptide binding]; other site 1300254002032 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1300254002033 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 1300254002034 substrate binding site [chemical binding]; other site 1300254002035 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1300254002036 substrate binding site [chemical binding]; other site 1300254002037 ligand binding site [chemical binding]; other site 1300254002038 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1300254002039 aspartate kinase III; Validated; Region: PRK09084 1300254002040 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 1300254002041 nucleotide binding site [chemical binding]; other site 1300254002042 substrate binding site [chemical binding]; other site 1300254002043 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1300254002044 lysine allosteric regulatory site; other site 1300254002045 dimer interface [polypeptide binding]; other site 1300254002046 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1300254002047 dimer interface [polypeptide binding]; other site 1300254002048 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1300254002049 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 1300254002050 dimerization interface [polypeptide binding]; other site 1300254002051 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254002052 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254002053 dimer interface [polypeptide binding]; other site 1300254002054 putative CheW interface [polypeptide binding]; other site 1300254002055 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1300254002056 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1300254002057 active site 1300254002058 metal binding site [ion binding]; metal-binding site 1300254002059 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1300254002060 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1300254002061 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1300254002062 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1300254002063 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1300254002064 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1300254002065 SurA N-terminal domain; Region: SurA_N; pfam09312 1300254002066 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1300254002067 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1300254002068 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1300254002069 OstA-like protein; Region: OstA; cl00844 1300254002070 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1300254002071 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1300254002072 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1300254002073 putative metal binding site [ion binding]; other site 1300254002074 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 1300254002075 HSP70 interaction site [polypeptide binding]; other site 1300254002076 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1300254002077 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 1300254002078 active site 1300254002079 Int/Topo IB signature motif; other site 1300254002080 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1300254002081 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 1300254002082 dimerization domain [polypeptide binding]; other site 1300254002083 dimer interface [polypeptide binding]; other site 1300254002084 catalytic residues [active] 1300254002085 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1300254002086 DHH family; Region: DHH; pfam01368 1300254002087 DHHA1 domain; Region: DHHA1; pfam02272 1300254002088 Recombination protein O N terminal; Region: RecO_N; pfam11967 1300254002089 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1300254002090 Recombination protein O C terminal; Region: RecO_C; pfam02565 1300254002091 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 1300254002092 active site 1300254002093 hydrophilic channel; other site 1300254002094 dimerization interface [polypeptide binding]; other site 1300254002095 catalytic residues [active] 1300254002096 active site lid [active] 1300254002097 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1300254002098 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1300254002099 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 1300254002100 S-adenosylmethionine binding site [chemical binding]; other site 1300254002101 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1300254002102 HD domain; Region: HD_4; pfam13328 1300254002103 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1300254002104 synthetase active site [active] 1300254002105 NTP binding site [chemical binding]; other site 1300254002106 metal binding site [ion binding]; metal-binding site 1300254002107 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 1300254002108 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1300254002109 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1300254002110 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 1300254002111 homodimer interface [polypeptide binding]; other site 1300254002112 metal binding site [ion binding]; metal-binding site 1300254002113 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 1300254002114 homodimer interface [polypeptide binding]; other site 1300254002115 active site 1300254002116 putative chemical substrate binding site [chemical binding]; other site 1300254002117 metal binding site [ion binding]; metal-binding site 1300254002118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1300254002119 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1300254002120 tetramerization interface [polypeptide binding]; other site 1300254002121 substrate binding pocket [chemical binding]; other site 1300254002122 catalytic residues [active] 1300254002123 inhibitor binding sites; inhibition site 1300254002124 NADP(H) binding site [chemical binding]; other site 1300254002125 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1300254002126 short chain dehydrogenase; Provisional; Region: PRK09072 1300254002127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254002128 NAD(P) binding site [chemical binding]; other site 1300254002129 active site 1300254002130 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 1300254002131 heme binding pocket [chemical binding]; other site 1300254002132 heme ligand [chemical binding]; other site 1300254002133 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1300254002134 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1300254002135 acyl-activating enzyme (AAE) consensus motif; other site 1300254002136 putative AMP binding site [chemical binding]; other site 1300254002137 putative active site [active] 1300254002138 putative CoA binding site [chemical binding]; other site 1300254002139 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1300254002140 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1300254002141 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1300254002142 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1300254002143 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1300254002144 Ligand binding site; other site 1300254002145 Putative Catalytic site; other site 1300254002146 DXD motif; other site 1300254002147 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1300254002148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254002149 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 1300254002150 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 1300254002151 dimer interface [polypeptide binding]; other site 1300254002152 phosphorylation site [posttranslational modification] 1300254002153 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 1300254002154 ATP binding site [chemical binding]; other site 1300254002155 Mg2+ binding site [ion binding]; other site 1300254002156 G-X-G motif; other site 1300254002157 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1300254002158 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 1300254002159 active site 1300254002160 phosphorylation site [posttranslational modification] 1300254002161 intermolecular recognition site; other site 1300254002162 dimerization interface [polypeptide binding]; other site 1300254002163 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 1300254002164 DNA binding site [nucleotide binding] 1300254002165 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 1300254002166 23S rRNA interface [nucleotide binding]; other site 1300254002167 L3 interface [polypeptide binding]; other site 1300254002168 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1300254002169 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1300254002170 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1300254002171 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 1300254002172 [2Fe-2S] cluster binding site [ion binding]; other site 1300254002173 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1300254002174 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 1300254002175 Qi binding site; other site 1300254002176 intrachain domain interface; other site 1300254002177 interchain domain interface [polypeptide binding]; other site 1300254002178 heme bH binding site [chemical binding]; other site 1300254002179 heme bL binding site [chemical binding]; other site 1300254002180 Qo binding site; other site 1300254002181 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 1300254002182 interchain domain interface [polypeptide binding]; other site 1300254002183 intrachain domain interface; other site 1300254002184 Qi binding site; other site 1300254002185 Qo binding site; other site 1300254002186 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1300254002187 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1300254002188 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 1300254002189 C-terminal domain interface [polypeptide binding]; other site 1300254002190 putative GSH binding site (G-site) [chemical binding]; other site 1300254002191 dimer interface [polypeptide binding]; other site 1300254002192 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1300254002193 dimer interface [polypeptide binding]; other site 1300254002194 N-terminal domain interface [polypeptide binding]; other site 1300254002195 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1300254002196 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1300254002197 MgtE intracellular N domain; Region: MgtE_N; smart00924 1300254002198 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 1300254002199 Divalent cation transporter; Region: MgtE; cl00786 1300254002200 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 1300254002201 dimerization domain swap beta strand [polypeptide binding]; other site 1300254002202 regulatory protein interface [polypeptide binding]; other site 1300254002203 active site 1300254002204 regulatory phosphorylation site [posttranslational modification]; other site 1300254002205 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1300254002206 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 1300254002207 active site 1300254002208 phosphorylation site [posttranslational modification] 1300254002209 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 1300254002210 30S subunit binding site; other site 1300254002211 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1300254002212 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1300254002213 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1300254002214 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1300254002215 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1300254002216 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1300254002217 Walker A/P-loop; other site 1300254002218 ATP binding site [chemical binding]; other site 1300254002219 Q-loop/lid; other site 1300254002220 ABC transporter signature motif; other site 1300254002221 Walker B; other site 1300254002222 D-loop; other site 1300254002223 H-loop/switch region; other site 1300254002224 OstA-like protein; Region: OstA; cl00844 1300254002225 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1300254002226 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1300254002227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1300254002228 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1300254002229 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1300254002230 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 1300254002231 putative active site [active] 1300254002232 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 1300254002233 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1300254002234 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1300254002235 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1300254002236 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1300254002237 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1300254002238 Walker A/P-loop; other site 1300254002239 ATP binding site [chemical binding]; other site 1300254002240 Q-loop/lid; other site 1300254002241 ABC transporter signature motif; other site 1300254002242 Walker B; other site 1300254002243 D-loop; other site 1300254002244 H-loop/switch region; other site 1300254002245 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1300254002246 conserved hypothetical integral membrane protein; Region: TIGR00056 1300254002247 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1300254002248 mce related protein; Region: MCE; pfam02470 1300254002249 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1300254002250 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 1300254002251 anti sigma factor interaction site; other site 1300254002252 regulatory phosphorylation site [posttranslational modification]; other site 1300254002253 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1300254002254 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1300254002255 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 1300254002256 hinge; other site 1300254002257 active site 1300254002258 serine endoprotease; Provisional; Region: PRK10898 1300254002259 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1300254002260 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 1300254002261 protein binding site [polypeptide binding]; other site 1300254002262 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1300254002263 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1300254002264 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 1300254002265 protein binding site [polypeptide binding]; other site 1300254002266 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 1300254002267 Predicted ATPase [General function prediction only]; Region: COG1485 1300254002268 hypothetical protein; Provisional; Region: PRK12378 1300254002269 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 1300254002270 apolar tunnel; other site 1300254002271 heme binding site [chemical binding]; other site 1300254002272 dimerization interface [polypeptide binding]; other site 1300254002273 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 1300254002274 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254002275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254002276 metal binding site [ion binding]; metal-binding site 1300254002277 active site 1300254002278 I-site; other site 1300254002279 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 1300254002280 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1300254002281 dimer interface [polypeptide binding]; other site 1300254002282 FMN binding site [chemical binding]; other site 1300254002283 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1300254002284 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1300254002285 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1300254002286 Protein export membrane protein; Region: SecD_SecF; cl14618 1300254002287 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1300254002288 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1300254002289 TrkA-C domain; Region: TrkA_C; pfam02080 1300254002290 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254002291 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 1300254002292 EamA-like transporter family; Region: EamA; pfam00892 1300254002293 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1300254002294 PAS fold; Region: PAS; pfam00989 1300254002295 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 1300254002296 putative active site [active] 1300254002297 heme pocket [chemical binding]; other site 1300254002298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254002299 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 1300254002300 dimer interface [polypeptide binding]; other site 1300254002301 phosphorylation site [posttranslational modification] 1300254002302 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 1300254002303 ATP binding site [chemical binding]; other site 1300254002304 Mg2+ binding site [ion binding]; other site 1300254002305 G-X-G motif; other site 1300254002306 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254002307 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 1300254002308 active site 1300254002309 phosphorylation site [posttranslational modification] 1300254002310 intermolecular recognition site; other site 1300254002311 dimerization interface [polypeptide binding]; other site 1300254002312 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1300254002313 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 1300254002314 putative ligand binding site [chemical binding]; other site 1300254002315 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1300254002316 active site 1300254002317 catalytic site [active] 1300254002318 substrate binding site [chemical binding]; other site 1300254002319 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1300254002320 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1300254002321 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1300254002322 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1300254002323 transketolase; Reviewed; Region: PRK12753 1300254002324 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 1300254002325 TPP-binding site [chemical binding]; other site 1300254002326 dimer interface [polypeptide binding]; other site 1300254002327 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 1300254002328 PYR/PP interface [polypeptide binding]; other site 1300254002329 dimer interface [polypeptide binding]; other site 1300254002330 TPP binding site [chemical binding]; other site 1300254002331 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1300254002332 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1300254002333 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1300254002334 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1300254002335 Phosphoglycerate kinase; Region: PGK; pfam00162 1300254002336 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 1300254002337 substrate binding site [chemical binding]; other site 1300254002338 hinge regions; other site 1300254002339 ADP binding site [chemical binding]; other site 1300254002340 catalytic site [active] 1300254002341 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 1300254002342 catalytic residue [active] 1300254002343 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254002344 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254002345 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254002346 Protein export membrane protein; Region: SecD_SecF; cl14618 1300254002347 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1300254002348 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1300254002349 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1300254002350 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254002351 exopolyphosphatase; Provisional; Region: PRK10854 1300254002352 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1300254002353 nucleotide binding site [chemical binding]; other site 1300254002354 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1300254002355 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 1300254002356 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1300254002357 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 1300254002358 domain interface [polypeptide binding]; other site 1300254002359 active site 1300254002360 catalytic site [active] 1300254002361 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1300254002362 domain interface [polypeptide binding]; other site 1300254002363 active site 1300254002364 catalytic site [active] 1300254002365 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1300254002366 ACT domain; Region: ACT_6; pfam13740 1300254002367 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1300254002368 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1300254002369 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 1300254002370 dimer interface [polypeptide binding]; other site 1300254002371 conserved gate region; other site 1300254002372 putative PBP binding loops; other site 1300254002373 ABC-ATPase subunit interface; other site 1300254002374 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1300254002375 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 1300254002376 dimer interface [polypeptide binding]; other site 1300254002377 conserved gate region; other site 1300254002378 putative PBP binding loops; other site 1300254002379 ABC-ATPase subunit interface; other site 1300254002380 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1300254002381 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1300254002382 Walker A/P-loop; other site 1300254002383 ATP binding site [chemical binding]; other site 1300254002384 Q-loop/lid; other site 1300254002385 ABC transporter signature motif; other site 1300254002386 Walker B; other site 1300254002387 D-loop; other site 1300254002388 H-loop/switch region; other site 1300254002389 transcriptional regulator PhoU; Provisional; Region: PRK11115 1300254002390 PhoU domain; Region: PhoU; pfam01895 1300254002391 PhoU domain; Region: PhoU; pfam01895 1300254002392 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1300254002393 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1300254002394 universal stress protein UspE; Provisional; Region: PRK11175 1300254002395 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 1300254002396 Ligand Binding Site [chemical binding]; other site 1300254002397 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 1300254002398 Ligand Binding Site [chemical binding]; other site 1300254002399 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1300254002400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254002401 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 1300254002402 dimerization interface [polypeptide binding]; other site 1300254002403 Haemolysin-III related; Region: HlyIII; cl03831 1300254002404 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1300254002405 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1300254002406 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1300254002407 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1300254002408 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1300254002409 Phage terminase, small subunit; Region: Terminase_4; pfam05119 1300254002410 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 1300254002411 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1300254002412 catalytic residues [active] 1300254002413 catalytic nucleophile [active] 1300254002414 Presynaptic Site I dimer interface [polypeptide binding]; other site 1300254002415 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1300254002416 Synaptic Flat tetramer interface [polypeptide binding]; other site 1300254002417 Synaptic Site I dimer interface [polypeptide binding]; other site 1300254002418 DNA binding site [nucleotide binding] 1300254002419 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 1300254002420 DNA-binding interface [nucleotide binding]; DNA binding site 1300254002421 ParB-like nuclease domain; Region: ParBc; cl02129 1300254002422 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; cl17257 1300254002423 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 1300254002424 Phage capsid family; Region: Phage_capsid; pfam05065 1300254002425 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1300254002426 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1300254002427 catalytic residues [active] 1300254002428 catalytic nucleophile [active] 1300254002429 Recombinase; Region: Recombinase; pfam07508 1300254002430 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1300254002431 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1300254002432 Zn binding site [ion binding]; other site 1300254002433 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 1300254002434 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 1300254002435 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1300254002436 putative catalytic residues [active] 1300254002437 hypothetical protein; Provisional; Region: PRK11568 1300254002438 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1300254002439 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1300254002440 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 1300254002441 exonuclease subunit SbcD; Provisional; Region: PRK10966 1300254002442 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1300254002443 active site 1300254002444 metal binding site [ion binding]; metal-binding site 1300254002445 DNA binding site [nucleotide binding] 1300254002446 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1300254002447 exonuclease subunit SbcC; Provisional; Region: PRK10246 1300254002448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254002449 Walker A/P-loop; other site 1300254002450 ATP binding site [chemical binding]; other site 1300254002451 Q-loop/lid; other site 1300254002452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254002453 ABC transporter signature motif; other site 1300254002454 Walker B; other site 1300254002455 D-loop; other site 1300254002456 H-loop/switch region; other site 1300254002457 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1300254002458 formimidoylglutamase; Provisional; Region: PRK13775 1300254002459 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1300254002460 putative active site [active] 1300254002461 putative metal binding site [ion binding]; other site 1300254002462 imidazolonepropionase; Validated; Region: PRK09356 1300254002463 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 1300254002464 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 1300254002465 active site 1300254002466 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1300254002467 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1300254002468 DNA-binding site [nucleotide binding]; DNA binding site 1300254002469 UTRA domain; Region: UTRA; pfam07702 1300254002470 urocanate hydratase; Provisional; Region: PRK05414 1300254002471 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1300254002472 active sites [active] 1300254002473 tetramer interface [polypeptide binding]; other site 1300254002474 CreA protein; Region: CreA; pfam05981 1300254002475 MltA-interacting protein MipA; Region: MipA; cl01504 1300254002476 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1300254002477 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254002478 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254002479 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1300254002480 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1300254002481 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 1300254002482 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1300254002483 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1300254002484 LytTr DNA-binding domain; Region: LytTR; smart00850 1300254002485 LrgA family; Region: LrgA; cl00608 1300254002486 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1300254002487 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254002488 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 1300254002489 active site 1300254002490 phosphorylation site [posttranslational modification] 1300254002491 intermolecular recognition site; other site 1300254002492 dimerization interface [polypeptide binding]; other site 1300254002493 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1300254002494 PAS domain; Region: PAS; smart00091 1300254002495 PAS fold; Region: PAS_4; pfam08448 1300254002496 putative active site [active] 1300254002497 heme pocket [chemical binding]; other site 1300254002498 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1300254002499 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1300254002500 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1300254002501 HemN family oxidoreductase; Provisional; Region: PRK05660 1300254002502 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 1300254002503 FeS/SAM binding site; other site 1300254002504 HemN C-terminal domain; Region: HemN_C; pfam06969 1300254002505 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 1300254002506 active site 1300254002507 dimerization interface [polypeptide binding]; other site 1300254002508 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 1300254002509 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1300254002510 ATP binding site [chemical binding]; other site 1300254002511 Mg++ binding site [ion binding]; other site 1300254002512 motif III; other site 1300254002513 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 1300254002514 nucleotide binding region [chemical binding]; other site 1300254002515 ATP-binding site [chemical binding]; other site 1300254002516 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1300254002517 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1300254002518 active site 1300254002519 NTP binding site [chemical binding]; other site 1300254002520 metal binding triad [ion binding]; metal-binding site 1300254002521 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1300254002522 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1300254002523 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 1300254002524 Walker A motif; other site 1300254002525 ATP binding site [chemical binding]; other site 1300254002526 Walker B motif; other site 1300254002527 arginine finger; other site 1300254002528 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1300254002529 potential frameshift: common BLAST hit: gi|410860555|ref|YP_006975789.1| metal-dependent phosphohydrolase domain-containing protein 1300254002530 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1300254002531 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 1300254002532 substrate binding site [chemical binding]; other site 1300254002533 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1300254002534 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1300254002535 substrate binding site [chemical binding]; other site 1300254002536 ligand binding site [chemical binding]; other site 1300254002537 tartrate dehydrogenase; Region: TTC; TIGR02089 1300254002538 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1300254002539 2-isopropylmalate synthase; Validated; Region: PRK00915 1300254002540 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1300254002541 active site 1300254002542 catalytic residues [active] 1300254002543 metal binding site [ion binding]; metal-binding site 1300254002544 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1300254002545 enolase; Provisional; Region: eno; PRK00077 1300254002546 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 1300254002547 dimer interface [polypeptide binding]; other site 1300254002548 metal binding site [ion binding]; metal-binding site 1300254002549 substrate binding pocket [chemical binding]; other site 1300254002550 CTP synthetase; Validated; Region: pyrG; PRK05380 1300254002551 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 1300254002552 Catalytic site [active] 1300254002553 active site 1300254002554 UTP binding site [chemical binding]; other site 1300254002555 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1300254002556 active site 1300254002557 putative oxyanion hole; other site 1300254002558 catalytic triad [active] 1300254002559 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1300254002560 MutS domain I; Region: MutS_I; pfam01624 1300254002561 MutS domain II; Region: MutS_II; pfam05188 1300254002562 MutS domain III; Region: MutS_III; pfam05192 1300254002563 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1300254002564 Walker A/P-loop; other site 1300254002565 ATP binding site [chemical binding]; other site 1300254002566 Q-loop/lid; other site 1300254002567 ABC transporter signature motif; other site 1300254002568 Walker B; other site 1300254002569 D-loop; other site 1300254002570 H-loop/switch region; other site 1300254002571 Competence-damaged protein; Region: CinA; pfam02464 1300254002572 recombinase A; Provisional; Region: recA; PRK09354 1300254002573 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 1300254002574 hexamer interface [polypeptide binding]; other site 1300254002575 Walker A motif; other site 1300254002576 ATP binding site [chemical binding]; other site 1300254002577 Walker B motif; other site 1300254002578 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1300254002579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254002580 Walker A/P-loop; other site 1300254002581 ATP binding site [chemical binding]; other site 1300254002582 Q-loop/lid; other site 1300254002583 ABC transporter signature motif; other site 1300254002584 Walker B; other site 1300254002585 D-loop; other site 1300254002586 H-loop/switch region; other site 1300254002587 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1300254002588 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1300254002589 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1300254002590 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1300254002591 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1300254002592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254002593 Walker A/P-loop; other site 1300254002594 ATP binding site [chemical binding]; other site 1300254002595 Q-loop/lid; other site 1300254002596 ABC transporter signature motif; other site 1300254002597 Walker B; other site 1300254002598 D-loop; other site 1300254002599 H-loop/switch region; other site 1300254002600 heme exporter protein CcmB; Region: ccmB; TIGR01190 1300254002601 heme exporter protein CcmC; Region: ccmC; TIGR01191 1300254002602 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1300254002603 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1300254002604 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1300254002605 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1300254002606 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1300254002607 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1300254002608 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1300254002609 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1300254002610 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 1300254002611 binding surface 1300254002612 TPR motif; other site 1300254002613 VacJ like lipoprotein; Region: VacJ; cl01073 1300254002614 UDP-glucose 4-epimerase; Region: PLN02240 1300254002615 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1300254002616 NAD binding site [chemical binding]; other site 1300254002617 homodimer interface [polypeptide binding]; other site 1300254002618 active site 1300254002619 substrate binding site [chemical binding]; other site 1300254002620 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1300254002621 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 1300254002622 putative substrate translocation pore; other site 1300254002623 POT family; Region: PTR2; cl17359 1300254002624 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1300254002625 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1300254002626 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1300254002627 Walker A/P-loop; other site 1300254002628 ATP binding site [chemical binding]; other site 1300254002629 Q-loop/lid; other site 1300254002630 ABC transporter signature motif; other site 1300254002631 Walker B; other site 1300254002632 D-loop; other site 1300254002633 H-loop/switch region; other site 1300254002634 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1300254002635 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1300254002636 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1300254002637 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1300254002638 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1300254002639 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1300254002640 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 1300254002641 Mg++ binding site [ion binding]; other site 1300254002642 putative catalytic motif [active] 1300254002643 substrate binding site [chemical binding]; other site 1300254002644 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 1300254002645 active site 1300254002646 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1300254002647 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1300254002648 Ligand binding site; other site 1300254002649 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1300254002650 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1300254002651 active site 1300254002652 tetramer interface; other site 1300254002653 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1300254002654 Helix-hairpin-helix motif; Region: HHH; pfam00633 1300254002655 tartrate dehydrogenase; Region: TTC; TIGR02089 1300254002656 isocitrate dehydrogenase; Provisional; Region: PRK08997 1300254002657 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1300254002658 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1300254002659 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1300254002660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254002661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254002662 metal binding site [ion binding]; metal-binding site 1300254002663 active site 1300254002664 I-site; other site 1300254002665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1300254002666 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1300254002667 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1300254002668 SecY interacting protein Syd; Provisional; Region: PRK04968 1300254002669 hypothetical protein; Provisional; Region: PRK11239 1300254002670 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1300254002671 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1300254002672 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1300254002673 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 1300254002674 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1300254002675 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1300254002676 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1300254002677 active site 1300254002678 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1300254002679 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1300254002680 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 1300254002681 trimer interface [polypeptide binding]; other site 1300254002682 active site 1300254002683 substrate binding site [chemical binding]; other site 1300254002684 CoA binding site [chemical binding]; other site 1300254002685 PII uridylyl-transferase; Provisional; Region: PRK05007 1300254002686 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1300254002687 metal binding triad; other site 1300254002688 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1300254002689 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1300254002690 Zn2+ binding site [ion binding]; other site 1300254002691 Mg2+ binding site [ion binding]; other site 1300254002692 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1300254002693 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1300254002694 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 1300254002695 active site 1300254002696 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1300254002697 rRNA interaction site [nucleotide binding]; other site 1300254002698 S8 interaction site; other site 1300254002699 putative laminin-1 binding site; other site 1300254002700 elongation factor Ts; Provisional; Region: tsf; PRK09377 1300254002701 UBA/TS-N domain; Region: UBA; pfam00627 1300254002702 Elongation factor TS; Region: EF_TS; pfam00889 1300254002703 Elongation factor TS; Region: EF_TS; pfam00889 1300254002704 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 1300254002705 putative nucleotide binding site [chemical binding]; other site 1300254002706 uridine monophosphate binding site [chemical binding]; other site 1300254002707 homohexameric interface [polypeptide binding]; other site 1300254002708 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1300254002709 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 1300254002710 hinge region; other site 1300254002711 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1300254002712 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 1300254002713 catalytic residue [active] 1300254002714 putative FPP diphosphate binding site; other site 1300254002715 putative FPP binding hydrophobic cleft; other site 1300254002716 dimer interface [polypeptide binding]; other site 1300254002717 putative IPP diphosphate binding site; other site 1300254002718 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1300254002719 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1300254002720 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1300254002721 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1300254002722 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1300254002723 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1300254002724 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1300254002725 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 1300254002726 active site 1300254002727 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 1300254002728 protein binding site [polypeptide binding]; other site 1300254002729 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 1300254002730 protein binding site [polypeptide binding]; other site 1300254002731 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 1300254002732 putative substrate binding region [chemical binding]; other site 1300254002733 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1300254002734 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1300254002735 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1300254002736 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1300254002737 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1300254002738 Surface antigen; Region: Bac_surface_Ag; pfam01103 1300254002739 periplasmic chaperone; Provisional; Region: PRK10780 1300254002740 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1300254002741 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 1300254002742 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1300254002743 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 1300254002744 active site 1300254002745 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1300254002746 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1300254002747 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1300254002748 RNA/DNA hybrid binding site [nucleotide binding]; other site 1300254002749 active site 1300254002750 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1300254002751 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1300254002752 putative active site [active] 1300254002753 putative PHP Thumb interface [polypeptide binding]; other site 1300254002754 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 1300254002755 generic binding surface I; other site 1300254002756 generic binding surface II; other site 1300254002757 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1300254002758 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1300254002759 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 1300254002760 Ligand Binding Site [chemical binding]; other site 1300254002761 TilS substrate binding domain; Region: TilS; pfam09179 1300254002762 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1300254002763 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254002764 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254002765 metal binding site [ion binding]; metal-binding site 1300254002766 active site 1300254002767 I-site; other site 1300254002768 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1300254002769 putative cation:proton antiport protein; Provisional; Region: PRK10669 1300254002770 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1300254002771 TrkA-N domain; Region: TrkA_N; pfam02254 1300254002772 TrkA-C domain; Region: TrkA_C; pfam02080 1300254002773 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 1300254002774 nucleoside/Zn binding site; other site 1300254002775 dimer interface [polypeptide binding]; other site 1300254002776 catalytic motif [active] 1300254002777 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1300254002778 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 1300254002779 substrate binding pocket [chemical binding]; other site 1300254002780 membrane-bound complex binding site; other site 1300254002781 hinge residues; other site 1300254002782 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 1300254002783 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254002784 catalytic residue [active] 1300254002785 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1300254002786 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 1300254002787 dimerization interface [polypeptide binding]; other site 1300254002788 ATP binding site [chemical binding]; other site 1300254002789 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 1300254002790 dimerization interface [polypeptide binding]; other site 1300254002791 ATP binding site [chemical binding]; other site 1300254002792 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1300254002793 putative active site [active] 1300254002794 catalytic triad [active] 1300254002795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1300254002796 Smr domain; Region: Smr; pfam01713 1300254002797 potential frameshift: common BLAST hit: gi|406595889|ref|YP_006747019.1| TolC family type I secretion outer membrane protein 1300254002798 potential frameshift: common BLAST hit: gi|407682839|ref|YP_006798013.1| TolC family type I secretion outer membrane protein 1300254002799 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1300254002800 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1300254002801 ligand binding site [chemical binding]; other site 1300254002802 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1300254002803 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 1300254002804 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254002805 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1300254002806 Walker A/P-loop; other site 1300254002807 ATP binding site [chemical binding]; other site 1300254002808 Q-loop/lid; other site 1300254002809 ABC transporter signature motif; other site 1300254002810 Walker B; other site 1300254002811 D-loop; other site 1300254002812 H-loop/switch region; other site 1300254002813 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1300254002814 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254002815 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254002816 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254002817 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 1300254002818 DNA binding residues [nucleotide binding] 1300254002819 dimerization interface [polypeptide binding]; other site 1300254002820 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 1300254002821 LPP20 lipoprotein; Region: LPP20; cl15824 1300254002822 FlgN protein; Region: FlgN; pfam05130 1300254002823 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1300254002824 SAF-like; Region: SAF_2; pfam13144 1300254002825 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1300254002826 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 1300254002827 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1300254002828 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254002829 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 1300254002830 active site 1300254002831 phosphorylation site [posttranslational modification] 1300254002832 intermolecular recognition site; other site 1300254002833 dimerization interface [polypeptide binding]; other site 1300254002834 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1300254002835 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1300254002836 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1300254002837 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1300254002838 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1300254002839 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 1300254002840 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1300254002841 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1300254002842 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1300254002843 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1300254002844 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1300254002845 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1300254002846 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1300254002847 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1300254002848 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1300254002849 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1300254002850 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1300254002851 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1300254002852 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1300254002853 Flagellar L-ring protein; Region: FlgH; pfam02107 1300254002854 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1300254002855 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1300254002856 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1300254002857 Rod binding protein; Region: Rod-binding; cl01626 1300254002858 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1300254002859 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1300254002860 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1300254002861 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1300254002862 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1300254002863 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1300254002864 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1300254002865 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1300254002866 flagellin; Provisional; Region: PRK12802 1300254002867 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1300254002868 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1300254002869 flagellin; Provisional; Region: PRK12802 1300254002870 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1300254002871 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1300254002872 FlaG protein; Region: FlaG; pfam03646 1300254002873 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1300254002874 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1300254002875 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1300254002876 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1300254002877 flagellar protein FliS; Validated; Region: fliS; PRK05685 1300254002878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1300254002879 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 1300254002880 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1300254002881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254002882 NAD(P) binding site [chemical binding]; other site 1300254002883 active site 1300254002884 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1300254002885 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1300254002886 acyl-activating enzyme (AAE) consensus motif; other site 1300254002887 AMP binding site [chemical binding]; other site 1300254002888 active site 1300254002889 CoA binding site [chemical binding]; other site 1300254002890 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1300254002891 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1300254002892 pseudaminic acid synthase; Region: PseI; TIGR03586 1300254002893 NeuB family; Region: NeuB; pfam03102 1300254002894 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1300254002895 NeuB binding interface [polypeptide binding]; other site 1300254002896 putative substrate binding site [chemical binding]; other site 1300254002897 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1300254002898 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 1300254002899 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1300254002900 ligand binding site; other site 1300254002901 tetramer interface; other site 1300254002902 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1300254002903 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 1300254002904 inhibitor-cofactor binding pocket; inhibition site 1300254002905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254002906 catalytic residue [active] 1300254002907 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1300254002908 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1300254002909 NAD(P) binding site [chemical binding]; other site 1300254002910 homodimer interface [polypeptide binding]; other site 1300254002911 substrate binding site [chemical binding]; other site 1300254002912 active site 1300254002913 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1300254002914 active site 1300254002915 KMSKS motif; other site 1300254002916 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1300254002917 flagellin; Provisional; Region: PRK12802 1300254002918 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1300254002919 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1300254002920 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1300254002921 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 1300254002922 Walker A motif; other site 1300254002923 ATP binding site [chemical binding]; other site 1300254002924 Walker B motif; other site 1300254002925 arginine finger; other site 1300254002926 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1300254002927 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1300254002928 PAS domain; Region: PAS_8; pfam13188 1300254002929 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 1300254002930 dimer interface [polypeptide binding]; other site 1300254002931 phosphorylation site [posttranslational modification] 1300254002932 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 1300254002933 ATP binding site [chemical binding]; other site 1300254002934 Mg2+ binding site [ion binding]; other site 1300254002935 G-X-G motif; other site 1300254002936 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1300254002937 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 1300254002938 active site 1300254002939 phosphorylation site [posttranslational modification] 1300254002940 intermolecular recognition site; other site 1300254002941 dimerization interface [polypeptide binding]; other site 1300254002942 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 1300254002943 Walker A motif; other site 1300254002944 ATP binding site [chemical binding]; other site 1300254002945 Walker B motif; other site 1300254002946 arginine finger; other site 1300254002947 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1300254002948 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1300254002949 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1300254002950 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1300254002951 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1300254002952 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1300254002953 MgtE intracellular N domain; Region: MgtE_N; cl15244 1300254002954 FliG C-terminal domain; Region: FliG_C; pfam01706 1300254002955 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1300254002956 Flagellar assembly protein FliH; Region: FliH; pfam02108 1300254002957 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 1300254002958 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 1300254002959 Walker A motif/ATP binding site; other site 1300254002960 Walker B motif; other site 1300254002961 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1300254002962 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1300254002963 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1300254002964 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1300254002965 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1300254002966 flagellar motor switch protein; Validated; Region: fliN; PRK08983 1300254002967 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1300254002968 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1300254002969 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1300254002970 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1300254002971 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1300254002972 Phosphate transporter family; Region: PHO4; cl00396 1300254002973 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1300254002974 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1300254002975 FHIPEP family; Region: FHIPEP; pfam00771 1300254002976 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1300254002977 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 1300254002978 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1300254002979 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 1300254002980 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 1300254002981 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1300254002982 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254002983 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1300254002984 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 1300254002985 DNA binding residues [nucleotide binding] 1300254002986 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1300254002987 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 1300254002988 active site 1300254002989 phosphorylation site [posttranslational modification] 1300254002990 intermolecular recognition site; other site 1300254002991 dimerization interface [polypeptide binding]; other site 1300254002992 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1300254002993 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 1300254002994 putative binding surface; other site 1300254002995 active site 1300254002996 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1300254002997 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1300254002998 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 1300254002999 ATP binding site [chemical binding]; other site 1300254003000 Mg2+ binding site [ion binding]; other site 1300254003001 G-X-G motif; other site 1300254003002 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 1300254003003 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1300254003004 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 1300254003005 active site 1300254003006 phosphorylation site [posttranslational modification] 1300254003007 intermolecular recognition site; other site 1300254003008 dimerization interface [polypeptide binding]; other site 1300254003009 CheB methylesterase; Region: CheB_methylest; pfam01339 1300254003010 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1300254003011 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 1300254003012 Magnesium ion binding site [ion binding]; other site 1300254003013 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 1300254003014 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 1300254003015 putative CheA interaction surface; other site 1300254003016 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1300254003017 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1300254003018 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1300254003019 proposed active site lysine [active] 1300254003020 conserved cys residue [active] 1300254003021 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1300254003022 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1300254003023 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1300254003024 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 1300254003025 substrate binding pocket [chemical binding]; other site 1300254003026 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 1300254003027 B12 binding site [chemical binding]; other site 1300254003028 cobalt ligand [ion binding]; other site 1300254003029 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1300254003030 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1300254003031 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1300254003032 Cache domain; Region: Cache_1; pfam02743 1300254003033 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 1300254003034 dimerization interface [polypeptide binding]; other site 1300254003035 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254003036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254003037 dimer interface [polypeptide binding]; other site 1300254003038 putative CheW interface [polypeptide binding]; other site 1300254003039 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1300254003040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254003041 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 1300254003042 putative dimerization interface [polypeptide binding]; other site 1300254003043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254003044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254003045 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 1300254003046 dimerization interface [polypeptide binding]; other site 1300254003047 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 1300254003048 active site clefts [active] 1300254003049 zinc binding site [ion binding]; other site 1300254003050 dimer interface [polypeptide binding]; other site 1300254003051 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1300254003052 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1300254003053 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1300254003054 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 1300254003055 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254003056 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254003057 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 1300254003058 transcriptional regulator BetI; Validated; Region: PRK00767 1300254003059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254003060 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1300254003061 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1300254003062 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1300254003063 active site 1300254003064 Zn binding site [ion binding]; other site 1300254003065 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1300254003066 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1300254003067 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1300254003068 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1300254003069 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 1300254003070 motif 1; other site 1300254003071 active site 1300254003072 motif 2; other site 1300254003073 motif 3; other site 1300254003074 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1300254003075 DHHA1 domain; Region: DHHA1; pfam02272 1300254003076 carbon storage regulator; Provisional; Region: PRK01712 1300254003077 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 1300254003078 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1300254003079 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1300254003080 active site 1300254003081 catalytic residues [active] 1300254003082 metal binding site [ion binding]; metal-binding site 1300254003083 homodimer binding site [polypeptide binding]; other site 1300254003084 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 1300254003085 carboxyltransferase (CT) interaction site; other site 1300254003086 biotinylation site [posttranslational modification]; other site 1300254003087 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1300254003088 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1300254003089 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1300254003090 Walker A/P-loop; other site 1300254003091 ATP binding site [chemical binding]; other site 1300254003092 Q-loop/lid; other site 1300254003093 ABC transporter signature motif; other site 1300254003094 Walker B; other site 1300254003095 D-loop; other site 1300254003096 H-loop/switch region; other site 1300254003097 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 1300254003098 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1300254003099 Walker A/P-loop; other site 1300254003100 ATP binding site [chemical binding]; other site 1300254003101 Q-loop/lid; other site 1300254003102 ABC transporter signature motif; other site 1300254003103 Walker B; other site 1300254003104 D-loop; other site 1300254003105 H-loop/switch region; other site 1300254003106 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1300254003107 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1300254003108 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1300254003109 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 1300254003110 dimer interface [polypeptide binding]; other site 1300254003111 conserved gate region; other site 1300254003112 putative PBP binding loops; other site 1300254003113 ABC-ATPase subunit interface; other site 1300254003114 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1300254003115 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 1300254003116 dimer interface [polypeptide binding]; other site 1300254003117 conserved gate region; other site 1300254003118 putative PBP binding loops; other site 1300254003119 ABC-ATPase subunit interface; other site 1300254003120 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1300254003121 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1300254003122 peptide binding site [polypeptide binding]; other site 1300254003123 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1300254003124 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 1300254003125 Walker A motif; other site 1300254003126 ATP binding site [chemical binding]; other site 1300254003127 Walker B motif; other site 1300254003128 arginine finger; other site 1300254003129 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1300254003130 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1300254003131 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1300254003132 PAS domain; Region: PAS; smart00091 1300254003133 putative active site [active] 1300254003134 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 1300254003135 Walker A motif; other site 1300254003136 ATP binding site [chemical binding]; other site 1300254003137 Walker B motif; other site 1300254003138 arginine finger; other site 1300254003139 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 1300254003140 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1300254003141 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 1300254003142 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1300254003143 C-terminal domain interface [polypeptide binding]; other site 1300254003144 GSH binding site (G-site) [chemical binding]; other site 1300254003145 putative dimer interface [polypeptide binding]; other site 1300254003146 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1300254003147 dimer interface [polypeptide binding]; other site 1300254003148 N-terminal domain interface [polypeptide binding]; other site 1300254003149 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1300254003150 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1300254003151 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1300254003152 putative DNA binding site [nucleotide binding]; other site 1300254003153 putative Zn2+ binding site [ion binding]; other site 1300254003154 AsnC family; Region: AsnC_trans_reg; pfam01037 1300254003155 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1300254003156 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1300254003157 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1300254003158 NAD binding site [chemical binding]; other site 1300254003159 Phe binding site; other site 1300254003160 Late competence development protein ComFB; Region: ComFB; pfam10719 1300254003161 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1300254003162 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1300254003163 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254003164 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 1300254003165 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1300254003166 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 1300254003167 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 1300254003168 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254003169 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1300254003170 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1300254003171 TPR repeat; Region: TPR_11; pfam13414 1300254003172 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 1300254003173 TPR motif; other site 1300254003174 binding surface 1300254003175 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1300254003176 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 1300254003177 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1300254003178 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1300254003179 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1300254003180 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1300254003181 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1300254003182 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1300254003183 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1300254003184 TPR repeat; Region: TPR_11; pfam13414 1300254003185 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 1300254003186 binding surface 1300254003187 TPR motif; other site 1300254003188 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1300254003189 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1300254003190 Helicase; Region: Helicase_RecD; pfam05127 1300254003191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254003192 Coenzyme A binding pocket [chemical binding]; other site 1300254003193 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 1300254003194 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1300254003195 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 1300254003196 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1300254003197 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 1300254003198 active site 1300254003199 ATP binding site [chemical binding]; other site 1300254003200 substrate binding site [chemical binding]; other site 1300254003201 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1300254003202 EamA-like transporter family; Region: EamA; pfam00892 1300254003203 EamA-like transporter family; Region: EamA; pfam00892 1300254003204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254003205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254003206 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 1300254003207 dimerization interface [polypeptide binding]; other site 1300254003208 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1300254003209 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 1300254003210 putative substrate translocation pore; other site 1300254003211 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1300254003212 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1300254003213 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 1300254003214 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1300254003215 active site 1300254003216 catalytic tetrad [active] 1300254003217 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1300254003218 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1300254003219 NAD(P) binding site [chemical binding]; other site 1300254003220 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1300254003221 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1300254003222 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254003223 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254003224 transcriptional regulator SlyA; Provisional; Region: PRK03573 1300254003225 MarR family; Region: MarR; pfam01047 1300254003226 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1300254003227 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 1300254003228 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1300254003229 active site 1300254003230 Int/Topo IB signature motif; other site 1300254003231 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1300254003232 PRTRC system protein D; Region: PRTRC_D; TIGR03739 1300254003233 Mg binding site [ion binding]; other site 1300254003234 nucleotide binding site [chemical binding]; other site 1300254003235 putative protofilament interface [polypeptide binding]; other site 1300254003236 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1300254003237 DNA binding site [nucleotide binding] 1300254003238 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1300254003239 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 1300254003240 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1300254003241 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1300254003242 Y-family of DNA polymerases; Region: PolY; cl12025 1300254003243 active site 1300254003244 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1300254003245 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 1300254003246 Catalytic site [active] 1300254003247 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1300254003248 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1300254003249 active site 1300254003250 catalytic site [active] 1300254003251 substrate binding site [chemical binding]; other site 1300254003252 WYL domain; Region: WYL; pfam13280 1300254003253 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1300254003254 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1300254003255 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1300254003256 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1300254003257 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1300254003258 BstXI restriction endonuclease; Region: RE_BstXI; pfam09552 1300254003259 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1300254003260 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1300254003261 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 1300254003262 ATP binding site [chemical binding]; other site 1300254003263 putative Mg++ binding site [ion binding]; other site 1300254003264 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1300254003265 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 1300254003266 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1300254003267 Walker A motif; other site 1300254003268 ATP binding site [chemical binding]; other site 1300254003269 Walker B motif; other site 1300254003270 arginine finger; other site 1300254003271 5-methylcytosine-specific restriction enzyme subunit McrC; Provisional; Region: PRK09736 1300254003272 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 1300254003273 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1300254003274 Restriction endonuclease; Region: Mrr_cat; pfam04471 1300254003275 Putative helicase; Region: TraI_2; pfam07514 1300254003276 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1300254003277 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1300254003278 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1300254003279 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 1300254003280 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 1300254003281 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1300254003282 DNA binding residues [nucleotide binding] 1300254003283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1300254003284 Integrase core domain; Region: rve; pfam00665 1300254003285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1300254003286 DDE superfamily endonuclease; Region: DDE_5; cl17874 1300254003287 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1300254003288 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 1300254003289 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1300254003290 Walker A motif; other site 1300254003291 ATP binding site [chemical binding]; other site 1300254003292 Walker B motif; other site 1300254003293 arginine finger; other site 1300254003294 replicative DNA helicase; Provisional; Region: PRK05973 1300254003295 TraL protein; Region: TraL; cl06278 1300254003296 TraE protein; Region: TraE; cl05060 1300254003297 TraK protein; Region: TraK; pfam06586 1300254003298 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 1300254003299 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1300254003300 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 1300254003301 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1300254003302 potential frameshift: common BLAST hit: gi|360034522|ref|YP_004936285.1| plasmid-related protein 1300254003303 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1300254003304 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 1300254003305 dimerization domain [polypeptide binding]; other site 1300254003306 dimer interface [polypeptide binding]; other site 1300254003307 catalytic residues [active] 1300254003308 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1300254003309 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 1300254003310 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1300254003311 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 1300254003312 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1300254003313 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 1300254003314 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 1300254003315 TraU protein; Region: TraU; pfam06834 1300254003316 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 1300254003317 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 1300254003318 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1300254003319 active site 1300254003320 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1300254003321 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 1300254003322 dimer interface [polypeptide binding]; other site 1300254003323 ssDNA binding site [nucleotide binding]; other site 1300254003324 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1300254003325 RecT family; Region: RecT; cl04285 1300254003326 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 1300254003327 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 1300254003328 Walker A motif; other site 1300254003329 ATP binding site [chemical binding]; other site 1300254003330 Walker B motif; other site 1300254003331 arginine finger; other site 1300254003332 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1300254003333 WGR domain; Region: WGR; cl01581 1300254003334 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 1300254003335 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1300254003336 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 1300254003337 metal ion-dependent adhesion site (MIDAS); other site 1300254003338 hypothetical protein; Reviewed; Region: PRK00024 1300254003339 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1300254003340 MPN+ (JAMM) motif; other site 1300254003341 Zinc-binding site [ion binding]; other site 1300254003342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1300254003343 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 1300254003344 Toprim domain; Region: Toprim_3; pfam13362 1300254003345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254003346 AAA domain; Region: AAA_23; pfam13476 1300254003347 Walker A/P-loop; other site 1300254003348 ATP binding site [chemical binding]; other site 1300254003349 TraF-like protein; Region: TraF-like; TIGR02740 1300254003350 F plasmid transfer operon protein; Region: TraF; pfam13728 1300254003351 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 1300254003352 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1300254003353 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1300254003354 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 1300254003355 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 1300254003356 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 1300254003357 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254003358 catalytic residue [active] 1300254003359 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1300254003360 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 1300254003361 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1300254003362 non-specific DNA binding site [nucleotide binding]; other site 1300254003363 salt bridge; other site 1300254003364 sequence-specific DNA binding site [nucleotide binding]; other site 1300254003365 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 1300254003366 Catalytic site [active] 1300254003367 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1300254003368 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1300254003369 G1 box; other site 1300254003370 putative GEF interaction site [polypeptide binding]; other site 1300254003371 GTP/Mg2+ binding site [chemical binding]; other site 1300254003372 Switch I region; other site 1300254003373 G2 box; other site 1300254003374 G3 box; other site 1300254003375 Switch II region; other site 1300254003376 G4 box; other site 1300254003377 G5 box; other site 1300254003378 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 1300254003379 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1300254003380 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1300254003381 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1300254003382 active site 1300254003383 HIGH motif; other site 1300254003384 KMSK motif region; other site 1300254003385 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1300254003386 tRNA binding surface [nucleotide binding]; other site 1300254003387 anticodon binding site; other site 1300254003388 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1300254003389 Predicted flavoprotein [General function prediction only]; Region: COG0431 1300254003390 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1300254003391 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1300254003392 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 1300254003393 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254003394 catalytic residue [active] 1300254003395 TraF-like protein; Region: TraF-like; TIGR02740 1300254003396 F plasmid transfer operon protein; Region: TraF; pfam13728 1300254003397 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 1300254003398 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1300254003399 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1300254003400 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 1300254003401 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 1300254003402 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 1300254003403 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254003404 catalytic residue [active] 1300254003405 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1300254003406 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 1300254003407 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1300254003408 non-specific DNA binding site [nucleotide binding]; other site 1300254003409 salt bridge; other site 1300254003410 sequence-specific DNA binding site [nucleotide binding]; other site 1300254003411 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 1300254003412 Catalytic site [active] 1300254003413 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1300254003414 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1300254003415 G1 box; other site 1300254003416 putative GEF interaction site [polypeptide binding]; other site 1300254003417 GTP/Mg2+ binding site [chemical binding]; other site 1300254003418 Switch I region; other site 1300254003419 G2 box; other site 1300254003420 G3 box; other site 1300254003421 Switch II region; other site 1300254003422 G4 box; other site 1300254003423 G5 box; other site 1300254003424 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 1300254003425 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1300254003426 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1300254003427 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1300254003428 active site 1300254003429 HIGH motif; other site 1300254003430 KMSK motif region; other site 1300254003431 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1300254003432 tRNA binding surface [nucleotide binding]; other site 1300254003433 anticodon binding site; other site 1300254003434 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1300254003435 Predicted flavoprotein [General function prediction only]; Region: COG0431 1300254003436 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1300254003437 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1300254003438 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 1300254003439 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254003440 catalytic residue [active] 1300254003441 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1300254003442 putative catalytic site [active] 1300254003443 putative metal binding site [ion binding]; other site 1300254003444 putative phosphate binding site [ion binding]; other site 1300254003445 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1300254003446 Two component regulator propeller; Region: Reg_prop; pfam07494 1300254003447 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1300254003448 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254003449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254003450 metal binding site [ion binding]; metal-binding site 1300254003451 active site 1300254003452 I-site; other site 1300254003453 Protein of unknown function, DUF417; Region: DUF417; cl01162 1300254003454 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 1300254003455 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1300254003456 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 1300254003457 putative di-iron ligands [ion binding]; other site 1300254003458 potential frameshift: common BLAST hit: gi|410860897|ref|YP_006976131.1| oxidoreductase 1300254003459 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1300254003460 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1300254003461 RF-1 domain; Region: RF-1; pfam00472 1300254003462 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1300254003463 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 1300254003464 dimer interface [polypeptide binding]; other site 1300254003465 putative anticodon binding site; other site 1300254003466 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 1300254003467 motif 1; other site 1300254003468 active site 1300254003469 motif 2; other site 1300254003470 motif 3; other site 1300254003471 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1300254003472 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1300254003473 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1300254003474 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1300254003475 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1300254003476 active site 1300254003477 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 1300254003478 putative binding surface; other site 1300254003479 active site 1300254003480 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1300254003481 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254003482 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254003483 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1300254003484 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254003485 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254003486 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1300254003487 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 1300254003488 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254003489 catalytic residue [active] 1300254003490 hypothetical protein; Provisional; Region: PRK04946 1300254003491 Smr domain; Region: Smr; pfam01713 1300254003492 HemK family putative methylases; Region: hemK_fam; TIGR00536 1300254003493 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 1300254003494 S-adenosylmethionine binding site [chemical binding]; other site 1300254003495 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1300254003496 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1300254003497 Tetramer interface [polypeptide binding]; other site 1300254003498 active site 1300254003499 FMN-binding site [chemical binding]; other site 1300254003500 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 1300254003501 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1300254003502 putative substrate translocation pore; other site 1300254003503 SpoVR family protein; Provisional; Region: PRK11767 1300254003504 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1300254003505 hypothetical protein; Provisional; Region: PRK05325 1300254003506 PrkA family serine protein kinase; Provisional; Region: PRK15455 1300254003507 AAA ATPase domain; Region: AAA_16; pfam13191 1300254003508 Walker A motif; other site 1300254003509 ATP binding site [chemical binding]; other site 1300254003510 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1300254003511 superoxide dismutase; Provisional; Region: PRK10543 1300254003512 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1300254003513 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1300254003514 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 1300254003515 putative GSH binding site [chemical binding]; other site 1300254003516 catalytic residues [active] 1300254003517 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254003518 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 1300254003519 N-terminal plug; other site 1300254003520 ligand-binding site [chemical binding]; other site 1300254003521 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1300254003522 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254003523 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 1300254003524 DNA binding residues [nucleotide binding] 1300254003525 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1300254003526 FecR protein; Region: FecR; pfam04773 1300254003527 Secretin and TonB N terminus short domain; Region: STN; smart00965 1300254003528 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254003529 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 1300254003530 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254003531 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 1300254003532 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1300254003533 peroxidase; Provisional; Region: PRK15000 1300254003534 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 1300254003535 dimer interface [polypeptide binding]; other site 1300254003536 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1300254003537 catalytic triad [active] 1300254003538 peroxidatic and resolving cysteines [active] 1300254003539 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1300254003540 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1300254003541 dimer interface [polypeptide binding]; other site 1300254003542 catalytic site [active] 1300254003543 putative active site [active] 1300254003544 putative substrate binding site [chemical binding]; other site 1300254003545 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1300254003546 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1300254003547 ligand binding site [chemical binding]; other site 1300254003548 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1300254003549 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1300254003550 active site 1300254003551 catalytic site [active] 1300254003552 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254003553 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1300254003554 dimer interface [polypeptide binding]; other site 1300254003555 active site 1300254003556 metal binding site [ion binding]; metal-binding site 1300254003557 glutathione binding site [chemical binding]; other site 1300254003558 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 1300254003559 DNA-binding site [nucleotide binding]; DNA binding site 1300254003560 RNA-binding motif; other site 1300254003561 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1300254003562 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 1300254003563 PA/protease or protease-like domain interface [polypeptide binding]; other site 1300254003564 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 1300254003565 Peptidase family M28; Region: Peptidase_M28; pfam04389 1300254003566 metal binding site [ion binding]; metal-binding site 1300254003567 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1300254003568 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1300254003569 minor groove reading motif; other site 1300254003570 helix-hairpin-helix signature motif; other site 1300254003571 substrate binding pocket [chemical binding]; other site 1300254003572 active site 1300254003573 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1300254003574 electron transport complex protein RnfG; Validated; Region: PRK01908 1300254003575 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1300254003576 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1300254003577 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1300254003578 SLBB domain; Region: SLBB; pfam10531 1300254003579 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 1300254003580 electron transport complex protein RnfB; Provisional; Region: PRK05113 1300254003581 Putative Fe-S cluster; Region: FeS; pfam04060 1300254003582 4Fe-4S binding domain; Region: Fer4; pfam00037 1300254003583 electron transport complex protein RsxA; Provisional; Region: PRK05151 1300254003584 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 1300254003585 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1300254003586 excinuclease ABC subunit B; Provisional; Region: PRK05298 1300254003587 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 1300254003588 ATP binding site [chemical binding]; other site 1300254003589 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 1300254003590 nucleotide binding region [chemical binding]; other site 1300254003591 ATP-binding site [chemical binding]; other site 1300254003592 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1300254003593 UvrB/uvrC motif; Region: UVR; pfam02151 1300254003594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254003595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254003596 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 1300254003597 dimerization interface [polypeptide binding]; other site 1300254003598 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 1300254003599 Ligand Binding Site [chemical binding]; other site 1300254003600 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1300254003601 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1300254003602 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1300254003603 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1300254003604 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 1300254003605 active site 1300254003606 dimer interface [polypeptide binding]; other site 1300254003607 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 1300254003608 Ligand Binding Site [chemical binding]; other site 1300254003609 Molecular Tunnel; other site 1300254003610 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 1300254003611 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1300254003612 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 1300254003613 PA/protease or protease-like domain interface [polypeptide binding]; other site 1300254003614 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1300254003615 Peptidase family M28; Region: Peptidase_M28; pfam04389 1300254003616 metal binding site [ion binding]; metal-binding site 1300254003617 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1300254003618 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 1300254003619 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1300254003620 TrkA-C domain; Region: TrkA_C; pfam02080 1300254003621 TrkA-C domain; Region: TrkA_C; pfam02080 1300254003622 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 1300254003623 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1300254003624 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1300254003625 CysD dimerization site [polypeptide binding]; other site 1300254003626 G1 box; other site 1300254003627 putative GEF interaction site [polypeptide binding]; other site 1300254003628 GTP/Mg2+ binding site [chemical binding]; other site 1300254003629 Switch I region; other site 1300254003630 G2 box; other site 1300254003631 G3 box; other site 1300254003632 Switch II region; other site 1300254003633 G4 box; other site 1300254003634 G5 box; other site 1300254003635 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 1300254003636 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 1300254003637 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 1300254003638 active site 1300254003639 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 1300254003640 AAA domain; Region: AAA_18; pfam13238 1300254003641 ligand-binding site [chemical binding]; other site 1300254003642 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1300254003643 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 1300254003644 Active Sites [active] 1300254003645 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1300254003646 Na binding site [ion binding]; other site 1300254003647 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254003648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254003649 metal binding site [ion binding]; metal-binding site 1300254003650 active site 1300254003651 I-site; other site 1300254003652 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 1300254003653 RNA polymerase sigma factor; Provisional; Region: PRK12517 1300254003654 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254003655 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 1300254003656 DNA binding residues [nucleotide binding] 1300254003657 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1300254003658 Oxygen tolerance; Region: BatD; pfam13584 1300254003659 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1300254003660 metal ion-dependent adhesion site (MIDAS); other site 1300254003661 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1300254003662 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 1300254003663 TPR motif; other site 1300254003664 binding surface 1300254003665 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 1300254003666 metal ion-dependent adhesion site (MIDAS); other site 1300254003667 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1300254003668 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1300254003669 Protein of unknown function DUF58; Region: DUF58; pfam01882 1300254003670 MoxR-like ATPases [General function prediction only]; Region: COG0714 1300254003671 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 1300254003672 Walker A motif; other site 1300254003673 ATP binding site [chemical binding]; other site 1300254003674 Walker B motif; other site 1300254003675 arginine finger; other site 1300254003676 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1300254003677 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 1300254003678 dimer interface [polypeptide binding]; other site 1300254003679 active site 1300254003680 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1300254003681 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 1300254003682 substrate binding site [chemical binding]; other site 1300254003683 oxyanion hole (OAH) forming residues; other site 1300254003684 trimer interface [polypeptide binding]; other site 1300254003685 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1300254003686 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1300254003687 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1300254003688 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1300254003689 PAS fold; Region: PAS_3; pfam08447 1300254003690 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 1300254003691 PAS domain; Region: PAS_9; pfam13426 1300254003692 putative active site [active] 1300254003693 heme pocket [chemical binding]; other site 1300254003694 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254003695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254003696 metal binding site [ion binding]; metal-binding site 1300254003697 active site 1300254003698 I-site; other site 1300254003699 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 1300254003700 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 1300254003701 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254003702 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254003703 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254003704 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 1300254003705 catalytic core [active] 1300254003706 Domain of unknown function DUF21; Region: DUF21; pfam01595 1300254003707 hypothetical protein; Provisional; Region: PRK11573 1300254003708 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 1300254003709 Transporter associated domain; Region: CorC_HlyC; smart01091 1300254003710 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1300254003711 signal recognition particle protein; Provisional; Region: PRK10867 1300254003712 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1300254003713 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 1300254003714 P loop; other site 1300254003715 GTP binding site [chemical binding]; other site 1300254003716 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1300254003717 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1300254003718 hydrolase, alpha/beta fold family protein; Region: PLN02824 1300254003719 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254003720 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1300254003721 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254003722 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254003723 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254003724 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254003725 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1300254003726 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254003727 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254003728 Walker A/P-loop; other site 1300254003729 ATP binding site [chemical binding]; other site 1300254003730 Q-loop/lid; other site 1300254003731 ABC transporter signature motif; other site 1300254003732 Walker B; other site 1300254003733 D-loop; other site 1300254003734 H-loop/switch region; other site 1300254003735 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1300254003736 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1300254003737 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1300254003738 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1300254003739 RimM N-terminal domain; Region: RimM; pfam01782 1300254003740 PRC-barrel domain; Region: PRC; pfam05239 1300254003741 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1300254003742 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1300254003743 UPF0126 domain; Region: UPF0126; pfam03458 1300254003744 Predicted membrane protein [Function unknown]; Region: COG2860 1300254003745 UPF0126 domain; Region: UPF0126; pfam03458 1300254003746 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1300254003747 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 1300254003748 substrate binding site [chemical binding]; other site 1300254003749 oxyanion hole (OAH) forming residues; other site 1300254003750 trimer interface [polypeptide binding]; other site 1300254003751 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1300254003752 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1300254003753 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1300254003754 Chorismate mutase type II; Region: CM_2; cl00693 1300254003755 prephenate dehydrogenase; Provisional; Region: PRK06444 1300254003756 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1300254003757 Chorismate mutase type II; Region: CM_2; smart00830 1300254003758 Prephenate dehydratase; Region: PDT; pfam00800 1300254003759 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 1300254003760 putative L-Phe binding site [chemical binding]; other site 1300254003761 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254003762 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 1300254003763 active site 1300254003764 phosphorylation site [posttranslational modification] 1300254003765 intermolecular recognition site; other site 1300254003766 dimerization interface [polypeptide binding]; other site 1300254003767 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 1300254003768 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254003769 active site 1300254003770 phosphorylation site [posttranslational modification] 1300254003771 intermolecular recognition site; other site 1300254003772 dimerization interface [polypeptide binding]; other site 1300254003773 translation initiation factor Sui1; Validated; Region: PRK06824 1300254003774 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1300254003775 putative rRNA binding site [nucleotide binding]; other site 1300254003776 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 1300254003777 anti sigma factor interaction site; other site 1300254003778 regulatory phosphorylation site [posttranslational modification]; other site 1300254003779 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254003780 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 1300254003781 active site 1300254003782 phosphorylation site [posttranslational modification] 1300254003783 intermolecular recognition site; other site 1300254003784 dimerization interface [polypeptide binding]; other site 1300254003785 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1300254003786 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1300254003787 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1300254003788 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1300254003789 putative metal binding site [ion binding]; other site 1300254003790 HAMP domain; Region: HAMP; pfam00672 1300254003791 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254003792 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254003793 metal binding site [ion binding]; metal-binding site 1300254003794 active site 1300254003795 I-site; other site 1300254003796 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 1300254003797 EF-hand domain pair; Region: EF_hand_5; pfam13499 1300254003798 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254003799 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 1300254003800 dimer interface [polypeptide binding]; other site 1300254003801 phosphorylation site [posttranslational modification] 1300254003802 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 1300254003803 ATP binding site [chemical binding]; other site 1300254003804 Mg2+ binding site [ion binding]; other site 1300254003805 G-X-G motif; other site 1300254003806 response regulator GlrR; Provisional; Region: PRK15115 1300254003807 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 1300254003808 active site 1300254003809 phosphorylation site [posttranslational modification] 1300254003810 intermolecular recognition site; other site 1300254003811 dimerization interface [polypeptide binding]; other site 1300254003812 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 1300254003813 Walker A motif; other site 1300254003814 ATP binding site [chemical binding]; other site 1300254003815 Walker B motif; other site 1300254003816 arginine finger; other site 1300254003817 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1300254003818 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1300254003819 GAF domain; Region: GAF; pfam01590 1300254003820 GAF domain; Region: GAF_2; pfam13185 1300254003821 Protein of unknown function DUF72; Region: DUF72; cl00777 1300254003822 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1300254003823 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 1300254003824 dimer interface [polypeptide binding]; other site 1300254003825 anticodon binding site; other site 1300254003826 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 1300254003827 homodimer interface [polypeptide binding]; other site 1300254003828 motif 1; other site 1300254003829 active site 1300254003830 motif 2; other site 1300254003831 GAD domain; Region: GAD; pfam02938 1300254003832 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 1300254003833 active site 1300254003834 motif 3; other site 1300254003835 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 1300254003836 nudix motif; other site 1300254003837 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 1300254003838 active site 1300254003839 putative DNA-binding cleft [nucleotide binding]; other site 1300254003840 dimer interface [polypeptide binding]; other site 1300254003841 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1300254003842 RuvA N terminal domain; Region: RuvA_N; pfam01330 1300254003843 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1300254003844 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1300254003845 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 1300254003846 Walker A motif; other site 1300254003847 ATP binding site [chemical binding]; other site 1300254003848 Walker B motif; other site 1300254003849 arginine finger; other site 1300254003850 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1300254003851 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 1300254003852 active site 1300254003853 TolQ protein; Region: tolQ; TIGR02796 1300254003854 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1300254003855 TolR protein; Region: tolR; TIGR02801 1300254003856 TolA C-terminal; Region: TolA; pfam06519 1300254003857 TolA protein; Region: tolA_full; TIGR02794 1300254003858 translocation protein TolB; Provisional; Region: tolB; PRK04792 1300254003859 TolB amino-terminal domain; Region: TolB_N; pfam04052 1300254003860 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1300254003861 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1300254003862 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1300254003863 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1300254003864 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1300254003865 ligand binding site [chemical binding]; other site 1300254003866 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1300254003867 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 1300254003868 binding surface 1300254003869 TPR motif; other site 1300254003870 quinolinate synthetase; Provisional; Region: PRK09375 1300254003871 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1300254003872 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1300254003873 active site 1300254003874 nucleophile elbow; other site 1300254003875 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1300254003876 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1300254003877 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1300254003878 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1300254003879 potential frameshift: common BLAST hit: gi|410861034|ref|YP_006976268.1| multi-sensor hybrid histidine kinase 1300254003880 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254003881 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 1300254003882 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1300254003883 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1300254003884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254003885 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1300254003886 PAS domain S-box; Region: sensory_box; TIGR00229 1300254003887 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254003888 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254003889 metal binding site [ion binding]; metal-binding site 1300254003890 active site 1300254003891 I-site; other site 1300254003892 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254003893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254003894 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 1300254003895 putative effector binding pocket; other site 1300254003896 dimerization interface [polypeptide binding]; other site 1300254003897 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1300254003898 FOG: CBS domain [General function prediction only]; Region: COG0517 1300254003899 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 1300254003900 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254003901 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254003902 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254003903 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254003904 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254003905 metal binding site [ion binding]; metal-binding site 1300254003906 active site 1300254003907 I-site; other site 1300254003908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1300254003909 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1300254003910 paraquat-inducible protein B; Provisional; Region: PRK10807 1300254003911 mce related protein; Region: MCE; pfam02470 1300254003912 mce related protein; Region: MCE; pfam02470 1300254003913 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1300254003914 Paraquat-inducible protein A; Region: PqiA; pfam04403 1300254003915 Paraquat-inducible protein A; Region: PqiA; pfam04403 1300254003916 Endomembrane protein 70; Region: EMP70; pfam02990 1300254003917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254003918 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1300254003919 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 1300254003920 putative dimer interface [polypeptide binding]; other site 1300254003921 putative anticodon binding site; other site 1300254003922 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 1300254003923 homodimer interface [polypeptide binding]; other site 1300254003924 motif 1; other site 1300254003925 motif 2; other site 1300254003926 active site 1300254003927 motif 3; other site 1300254003928 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1300254003929 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1300254003930 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1300254003931 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1300254003932 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1300254003933 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1300254003934 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1300254003935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254003936 Coenzyme A binding pocket [chemical binding]; other site 1300254003937 Peptidase_C39 like family; Region: DUF3335; pfam11814 1300254003938 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1300254003939 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1300254003940 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 1300254003941 inhibitor-cofactor binding pocket; inhibition site 1300254003942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254003943 catalytic residue [active] 1300254003944 biotin synthase; Provisional; Region: PRK15108 1300254003945 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 1300254003946 FeS/SAM binding site; other site 1300254003947 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1300254003948 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1300254003949 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 1300254003950 substrate-cofactor binding pocket; other site 1300254003951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254003952 catalytic residue [active] 1300254003953 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1300254003954 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 1300254003955 S-adenosylmethionine binding site [chemical binding]; other site 1300254003956 AAA domain; Region: AAA_26; pfam13500 1300254003957 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1300254003958 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1300254003959 active site pocket [active] 1300254003960 oxyanion hole [active] 1300254003961 catalytic triad [active] 1300254003962 active site nucleophile [active] 1300254003963 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1300254003964 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1300254003965 active site 1300254003966 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1300254003967 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 1300254003968 ABC-ATPase subunit interface; other site 1300254003969 dimer interface [polypeptide binding]; other site 1300254003970 putative PBP binding regions; other site 1300254003971 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1300254003972 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1300254003973 Walker A/P-loop; other site 1300254003974 ATP binding site [chemical binding]; other site 1300254003975 Q-loop/lid; other site 1300254003976 ABC transporter signature motif; other site 1300254003977 Walker B; other site 1300254003978 D-loop; other site 1300254003979 H-loop/switch region; other site 1300254003980 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1300254003981 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 1300254003982 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1300254003983 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254003984 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1300254003985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254003986 Walker A/P-loop; other site 1300254003987 ATP binding site [chemical binding]; other site 1300254003988 Q-loop/lid; other site 1300254003989 ABC transporter signature motif; other site 1300254003990 Walker B; other site 1300254003991 D-loop; other site 1300254003992 H-loop/switch region; other site 1300254003993 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1300254003994 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 1300254003995 FeS/SAM binding site; other site 1300254003996 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1300254003997 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1300254003998 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1300254003999 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254004000 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 1300254004001 active site 1300254004002 phosphorylation site [posttranslational modification] 1300254004003 intermolecular recognition site; other site 1300254004004 dimerization interface [polypeptide binding]; other site 1300254004005 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1300254004006 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1300254004007 HIGH motif; other site 1300254004008 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1300254004009 active site 1300254004010 KMSKS motif; other site 1300254004011 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 1300254004012 active site 1300254004013 catalytic triad [active] 1300254004014 oxyanion hole [active] 1300254004015 switch loop; other site 1300254004016 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1300254004017 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1300254004018 Walker A/P-loop; other site 1300254004019 ATP binding site [chemical binding]; other site 1300254004020 Q-loop/lid; other site 1300254004021 ABC transporter signature motif; other site 1300254004022 Walker B; other site 1300254004023 D-loop; other site 1300254004024 H-loop/switch region; other site 1300254004025 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1300254004026 FtsX-like permease family; Region: FtsX; pfam02687 1300254004027 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1300254004028 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1300254004029 putative NAD(P) binding site [chemical binding]; other site 1300254004030 putative active site [active] 1300254004031 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 1300254004032 homooctamer interface [polypeptide binding]; other site 1300254004033 active site 1300254004034 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1300254004035 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1300254004036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254004037 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 1300254004038 ATP binding site [chemical binding]; other site 1300254004039 Mg2+ binding site [ion binding]; other site 1300254004040 G-X-G motif; other site 1300254004041 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1300254004042 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 1300254004043 active site 1300254004044 phosphorylation site [posttranslational modification] 1300254004045 intermolecular recognition site; other site 1300254004046 dimerization interface [polypeptide binding]; other site 1300254004047 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 1300254004048 DNA binding site [nucleotide binding] 1300254004049 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1300254004050 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1300254004051 YciI-like protein; Reviewed; Region: PRK11370 1300254004052 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1300254004053 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 1300254004054 substrate binding site [chemical binding]; other site 1300254004055 active site 1300254004056 catalytic residues [active] 1300254004057 heterodimer interface [polypeptide binding]; other site 1300254004058 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1300254004059 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 1300254004060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254004061 catalytic residue [active] 1300254004062 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1300254004063 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 1300254004064 active site 1300254004065 ribulose/triose binding site [chemical binding]; other site 1300254004066 phosphate binding site [ion binding]; other site 1300254004067 substrate (anthranilate) binding pocket [chemical binding]; other site 1300254004068 product (indole) binding pocket [chemical binding]; other site 1300254004069 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 1300254004070 active site 1300254004071 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1300254004072 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1300254004073 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1300254004074 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1300254004075 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1300254004076 glutamine binding [chemical binding]; other site 1300254004077 catalytic triad [active] 1300254004078 anthranilate synthase component I; Provisional; Region: PRK13564 1300254004079 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1300254004080 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1300254004081 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1300254004082 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1300254004083 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1300254004084 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1300254004085 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1300254004086 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1300254004087 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1300254004088 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 1300254004089 RNA binding surface [nucleotide binding]; other site 1300254004090 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1300254004091 probable active site [active] 1300254004092 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 1300254004093 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1300254004094 active site 1300254004095 catalytic tetrad [active] 1300254004096 maltose O-acetyltransferase; Provisional; Region: PRK10092 1300254004097 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 1300254004098 active site 1300254004099 substrate binding site [chemical binding]; other site 1300254004100 trimer interface [polypeptide binding]; other site 1300254004101 CoA binding site [chemical binding]; other site 1300254004102 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1300254004103 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1300254004104 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1300254004105 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1300254004106 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1300254004107 recombination and repair protein; Provisional; Region: PRK10869 1300254004108 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1300254004109 Walker A/P-loop; other site 1300254004110 ATP binding site [chemical binding]; other site 1300254004111 Q-loop/lid; other site 1300254004112 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1300254004113 ABC transporter signature motif; other site 1300254004114 Walker B; other site 1300254004115 D-loop; other site 1300254004116 H-loop/switch region; other site 1300254004117 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1300254004118 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1300254004119 dimerization interface [polypeptide binding]; other site 1300254004120 DPS ferroxidase diiron center [ion binding]; other site 1300254004121 ion pore; other site 1300254004122 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1300254004123 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1300254004124 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1300254004125 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1300254004126 putative active site [active] 1300254004127 metal binding site [ion binding]; metal-binding site 1300254004128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254004129 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1300254004130 NAD(P) binding site [chemical binding]; other site 1300254004131 active site 1300254004132 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1300254004133 homoserine O-acetyltransferase; Provisional; Region: PRK06765 1300254004134 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1300254004135 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1300254004136 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1300254004137 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254004138 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 1300254004139 N-terminal plug; other site 1300254004140 ligand-binding site [chemical binding]; other site 1300254004141 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254004142 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 1300254004143 active site 1300254004144 phosphorylation site [posttranslational modification] 1300254004145 intermolecular recognition site; other site 1300254004146 dimerization interface [polypeptide binding]; other site 1300254004147 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 1300254004148 DNA binding residues [nucleotide binding] 1300254004149 dimerization interface [polypeptide binding]; other site 1300254004150 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1300254004151 PAS fold; Region: PAS_7; pfam12860 1300254004152 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1300254004153 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 1300254004154 dimer interface [polypeptide binding]; other site 1300254004155 phosphorylation site [posttranslational modification] 1300254004156 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 1300254004157 ATP binding site [chemical binding]; other site 1300254004158 Mg2+ binding site [ion binding]; other site 1300254004159 G-X-G motif; other site 1300254004160 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1300254004161 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 1300254004162 dimer interface [polypeptide binding]; other site 1300254004163 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1300254004164 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1300254004165 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1300254004166 nucleotide binding site [chemical binding]; other site 1300254004167 chaperone protein DnaJ; Provisional; Region: PRK10767 1300254004168 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 1300254004169 HSP70 interaction site [polypeptide binding]; other site 1300254004170 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1300254004171 substrate binding site [polypeptide binding]; other site 1300254004172 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1300254004173 Zn binding sites [ion binding]; other site 1300254004174 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1300254004175 dimer interface [polypeptide binding]; other site 1300254004176 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1300254004177 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 1300254004178 PAS domain; Region: PAS_9; pfam13426 1300254004179 putative active site [active] 1300254004180 heme pocket [chemical binding]; other site 1300254004181 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004182 metal binding site [ion binding]; metal-binding site 1300254004183 active site 1300254004184 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 1300254004185 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1300254004186 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1300254004187 acyl-activating enzyme (AAE) consensus motif; other site 1300254004188 putative AMP binding site [chemical binding]; other site 1300254004189 putative active site [active] 1300254004190 putative CoA binding site [chemical binding]; other site 1300254004191 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 1300254004192 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1300254004193 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1300254004194 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1300254004195 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1300254004196 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1300254004197 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1300254004198 catalytic site [active] 1300254004199 subunit interface [polypeptide binding]; other site 1300254004200 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1300254004201 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1300254004202 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1300254004203 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1300254004204 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1300254004205 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1300254004206 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 1300254004207 IMP binding site; other site 1300254004208 dimer interface [polypeptide binding]; other site 1300254004209 interdomain contacts; other site 1300254004210 partial ornithine binding site; other site 1300254004211 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1300254004212 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1300254004213 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1300254004214 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1300254004215 propionate/acetate kinase; Provisional; Region: PRK12379 1300254004216 phosphate acetyltransferase; Reviewed; Region: PRK05632 1300254004217 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 1300254004218 DRTGG domain; Region: DRTGG; pfam07085 1300254004219 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1300254004220 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1300254004221 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1300254004222 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1300254004223 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1300254004224 putative active site [active] 1300254004225 catalytic triad [active] 1300254004226 putative dimer interface [polypeptide binding]; other site 1300254004227 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1300254004228 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 1300254004229 Transporter associated domain; Region: CorC_HlyC; smart01091 1300254004230 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1300254004231 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1300254004232 PhoH-like protein; Region: PhoH; pfam02562 1300254004233 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1300254004234 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1300254004235 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 1300254004236 FeS/SAM binding site; other site 1300254004237 TRAM domain; Region: TRAM; pfam01938 1300254004238 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 1300254004239 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1300254004240 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1300254004241 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254004242 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1300254004243 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1300254004244 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 1300254004245 N-terminal plug; other site 1300254004246 ligand-binding site [chemical binding]; other site 1300254004247 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 1300254004248 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1300254004249 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1300254004250 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1300254004251 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1300254004252 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1300254004253 amino acid carrier protein; Region: agcS; TIGR00835 1300254004254 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 1300254004255 active site 1300254004256 GTP-binding protein YchF; Reviewed; Region: PRK09601 1300254004257 YchF GTPase; Region: YchF; cd01900 1300254004258 G1 box; other site 1300254004259 GTP/Mg2+ binding site [chemical binding]; other site 1300254004260 Switch I region; other site 1300254004261 G2 box; other site 1300254004262 Switch II region; other site 1300254004263 G3 box; other site 1300254004264 G4 box; other site 1300254004265 G5 box; other site 1300254004266 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 1300254004267 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 1300254004268 putative active site [active] 1300254004269 catalytic residue [active] 1300254004270 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1300254004271 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1300254004272 5S rRNA interface [nucleotide binding]; other site 1300254004273 CTC domain interface [polypeptide binding]; other site 1300254004274 L16 interface [polypeptide binding]; other site 1300254004275 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1300254004276 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1300254004277 putative NAD(P) binding site [chemical binding]; other site 1300254004278 putative substrate binding site [chemical binding]; other site 1300254004279 catalytic Zn binding site [ion binding]; other site 1300254004280 structural Zn binding site [ion binding]; other site 1300254004281 dimer interface [polypeptide binding]; other site 1300254004282 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1300254004283 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1300254004284 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1300254004285 active site 1300254004286 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1300254004287 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1300254004288 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1300254004289 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1300254004290 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1300254004291 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1300254004292 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1300254004293 tRNA; other site 1300254004294 putative tRNA binding site [nucleotide binding]; other site 1300254004295 putative NADP binding site [chemical binding]; other site 1300254004296 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1300254004297 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1300254004298 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1300254004299 RF-1 domain; Region: RF-1; pfam00472 1300254004300 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1300254004301 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 1300254004302 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254004303 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 1300254004304 active site 1300254004305 phosphorylation site [posttranslational modification] 1300254004306 intermolecular recognition site; other site 1300254004307 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1300254004308 dimerization interface [polypeptide binding]; other site 1300254004309 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1300254004310 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1300254004311 Zn2+ binding site [ion binding]; other site 1300254004312 Mg2+ binding site [ion binding]; other site 1300254004313 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1300254004314 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1300254004315 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1300254004316 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1300254004317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254004318 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 1300254004319 dimerization interface [polypeptide binding]; other site 1300254004320 substrate binding pocket [chemical binding]; other site 1300254004321 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1300254004322 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1300254004323 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1300254004324 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1300254004325 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1300254004326 elongation factor G; Reviewed; Region: PRK00007 1300254004327 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1300254004328 G1 box; other site 1300254004329 putative GEF interaction site [polypeptide binding]; other site 1300254004330 GTP/Mg2+ binding site [chemical binding]; other site 1300254004331 Switch I region; other site 1300254004332 G2 box; other site 1300254004333 G3 box; other site 1300254004334 Switch II region; other site 1300254004335 G4 box; other site 1300254004336 G5 box; other site 1300254004337 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 1300254004338 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 1300254004339 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 1300254004340 cyanate hydratase; Validated; Region: PRK02866 1300254004341 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1300254004342 oligomer interface [polypeptide binding]; other site 1300254004343 active site 1300254004344 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 1300254004345 active site 1300254004346 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1300254004347 active site 1300254004348 ATP binding site [chemical binding]; other site 1300254004349 substrate binding site [chemical binding]; other site 1300254004350 activation loop (A-loop); other site 1300254004351 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1300254004352 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1300254004353 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1300254004354 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1300254004355 Protein of unknown function DUF58; Region: DUF58; pfam01882 1300254004356 MoxR-like ATPases [General function prediction only]; Region: COG0714 1300254004357 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 1300254004358 Walker A motif; other site 1300254004359 ATP binding site [chemical binding]; other site 1300254004360 Walker B motif; other site 1300254004361 arginine finger; other site 1300254004362 SeqA protein; Region: SeqA; cl11470 1300254004363 SeqA protein; Region: SeqA; cl11470 1300254004364 phosphoglucomutase; Validated; Region: PRK07564 1300254004365 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 1300254004366 active site 1300254004367 substrate binding site [chemical binding]; other site 1300254004368 metal binding site [ion binding]; metal-binding site 1300254004369 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 1300254004370 homodimer interface [polypeptide binding]; other site 1300254004371 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1300254004372 active site pocket [active] 1300254004373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004374 metal binding site [ion binding]; metal-binding site 1300254004375 active site 1300254004376 I-site; other site 1300254004377 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 1300254004378 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1300254004379 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1300254004380 putative active site [active] 1300254004381 Zn binding site [ion binding]; other site 1300254004382 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 1300254004383 hypothetical protein; Provisional; Region: PRK02877 1300254004384 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1300254004385 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1300254004386 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1300254004387 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1300254004388 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1300254004389 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1300254004390 metal binding site [ion binding]; metal-binding site 1300254004391 dimer interface [polypeptide binding]; other site 1300254004392 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 1300254004393 ArsC family; Region: ArsC; pfam03960 1300254004394 putative catalytic residues [active] 1300254004395 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 1300254004396 HPr interaction site; other site 1300254004397 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1300254004398 active site 1300254004399 phosphorylation site [posttranslational modification] 1300254004400 Uncharacterized conserved protein [Function unknown]; Region: COG3603 1300254004401 Family description; Region: ACT_7; pfam13840 1300254004402 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 1300254004403 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254004404 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1300254004405 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1300254004406 dimer interface [polypeptide binding]; other site 1300254004407 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1300254004408 active site 1300254004409 Fe binding site [ion binding]; other site 1300254004410 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1300254004411 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1300254004412 MarR family; Region: MarR_2; pfam12802 1300254004413 MarR family; Region: MarR_2; cl17246 1300254004414 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1300254004415 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 1300254004416 cell division protein FtsZ; Validated; Region: PRK09330 1300254004417 nucleotide binding site [chemical binding]; other site 1300254004418 SulA interaction site; other site 1300254004419 WYL domain; Region: WYL; pfam13280 1300254004420 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 1300254004421 putative active site [active] 1300254004422 heme pocket [chemical binding]; other site 1300254004423 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254004424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004425 metal binding site [ion binding]; metal-binding site 1300254004426 active site 1300254004427 I-site; other site 1300254004428 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 1300254004429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254004430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004431 metal binding site [ion binding]; metal-binding site 1300254004432 active site 1300254004433 I-site; other site 1300254004434 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 1300254004435 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254004436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254004437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254004438 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254004439 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1300254004440 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1300254004441 TrkA-N domain; Region: TrkA_N; pfam02254 1300254004442 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1300254004443 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1300254004444 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254004445 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1300254004446 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1300254004447 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254004448 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254004449 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1300254004450 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 1300254004451 catalytic loop [active] 1300254004452 iron binding site [ion binding]; other site 1300254004453 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1300254004454 Predicted transcriptional regulators [Transcription]; Region: COG1733 1300254004455 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1300254004456 PAS domain S-box; Region: sensory_box; TIGR00229 1300254004457 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 1300254004458 putative active site [active] 1300254004459 heme pocket [chemical binding]; other site 1300254004460 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 1300254004461 PAS fold; Region: PAS_3; pfam08447 1300254004462 putative active site [active] 1300254004463 heme pocket [chemical binding]; other site 1300254004464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254004465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004466 metal binding site [ion binding]; metal-binding site 1300254004467 active site 1300254004468 I-site; other site 1300254004469 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1300254004470 Predicted membrane protein [Function unknown]; Region: COG3748 1300254004471 Cytochrome c; Region: Cytochrom_C; pfam00034 1300254004472 guanine deaminase; Provisional; Region: PRK09228 1300254004473 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 1300254004474 active site 1300254004475 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 1300254004476 active site 1300254004477 homotetramer interface [polypeptide binding]; other site 1300254004478 putative OHCU decarboxylase; Provisional; Region: PRK13798 1300254004479 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1300254004480 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1300254004481 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1300254004482 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1300254004483 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1300254004484 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254004485 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1300254004486 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 1300254004487 catalytic loop [active] 1300254004488 iron binding site [ion binding]; other site 1300254004489 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1300254004490 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1300254004491 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1300254004492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254004493 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1300254004494 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1300254004495 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1300254004496 active site 1300254004497 catalytic site [active] 1300254004498 tetramer interface [polypeptide binding]; other site 1300254004499 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1300254004500 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1300254004501 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1300254004502 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 1300254004503 active site 1300254004504 purine riboside binding site [chemical binding]; other site 1300254004505 Hpt domain; Region: Hpt; pfam01627 1300254004506 putative binding surface; other site 1300254004507 active site 1300254004508 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 1300254004509 active site 1300254004510 phosphorylation site [posttranslational modification] 1300254004511 intermolecular recognition site; other site 1300254004512 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 1300254004513 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 1300254004514 active site 1300254004515 phosphorylation site [posttranslational modification] 1300254004516 intermolecular recognition site; other site 1300254004517 dimerization interface [polypeptide binding]; other site 1300254004518 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254004519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004520 metal binding site [ion binding]; metal-binding site 1300254004521 active site 1300254004522 I-site; other site 1300254004523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254004524 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 1300254004525 dimer interface [polypeptide binding]; other site 1300254004526 phosphorylation site [posttranslational modification] 1300254004527 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 1300254004528 ATP binding site [chemical binding]; other site 1300254004529 Mg2+ binding site [ion binding]; other site 1300254004530 G-X-G motif; other site 1300254004531 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254004532 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 1300254004533 active site 1300254004534 phosphorylation site [posttranslational modification] 1300254004535 intermolecular recognition site; other site 1300254004536 dimerization interface [polypeptide binding]; other site 1300254004537 Purine nucleoside permease (NUP); Region: NUP; cl17832 1300254004538 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254004539 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 1300254004540 xanthine permease; Region: pbuX; TIGR03173 1300254004541 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1300254004542 allantoate amidohydrolase; Reviewed; Region: PRK09290 1300254004543 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1300254004544 active site 1300254004545 metal binding site [ion binding]; metal-binding site 1300254004546 dimer interface [polypeptide binding]; other site 1300254004547 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1300254004548 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254004549 catalytic residue [active] 1300254004550 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254004551 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1300254004552 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1300254004553 Amidase; Region: Amidase; cl11426 1300254004554 indole-3-acetamide amidohydrolase; Region: PLN02722 1300254004555 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1300254004556 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1300254004557 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1300254004558 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 1300254004559 putative active site [active] 1300254004560 CAAX protease self-immunity; Region: Abi; pfam02517 1300254004561 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254004562 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254004563 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1300254004564 pteridine reductase; Provisional; Region: PRK09135 1300254004565 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1300254004566 NADP binding site [chemical binding]; other site 1300254004567 substrate binding pocket [chemical binding]; other site 1300254004568 active site 1300254004569 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 1300254004570 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1300254004571 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 1300254004572 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1300254004573 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 1300254004574 active site 1300254004575 dimer interface [polypeptide binding]; other site 1300254004576 motif 1; other site 1300254004577 motif 2; other site 1300254004578 motif 3; other site 1300254004579 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 1300254004580 anticodon binding site; other site 1300254004581 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1300254004582 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1300254004583 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1300254004584 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1300254004585 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1300254004586 23S rRNA binding site [nucleotide binding]; other site 1300254004587 L21 binding site [polypeptide binding]; other site 1300254004588 L13 binding site [polypeptide binding]; other site 1300254004589 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254004590 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254004591 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254004592 Protein of unknown function (DUF983); Region: DUF983; cl02211 1300254004593 Protein export membrane protein; Region: SecD_SecF; cl14618 1300254004594 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1300254004595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254004596 Coenzyme A binding pocket [chemical binding]; other site 1300254004597 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1300254004598 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 1300254004599 N-terminal plug; other site 1300254004600 ligand-binding site [chemical binding]; other site 1300254004601 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1300254004602 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1300254004603 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1300254004604 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1300254004605 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1300254004606 SLBB domain; Region: SLBB; pfam10531 1300254004607 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 1300254004608 Chain length determinant protein; Region: Wzz; pfam02706 1300254004609 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1300254004610 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 1300254004611 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1300254004612 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 1300254004613 TPR motif; other site 1300254004614 binding surface 1300254004615 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1300254004616 O-Antigen ligase; Region: Wzy_C; pfam04932 1300254004617 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 1300254004618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004619 metal binding site [ion binding]; metal-binding site 1300254004620 active site 1300254004621 I-site; other site 1300254004622 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 1300254004623 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1300254004624 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1300254004625 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1300254004626 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 1300254004627 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254004628 putative ADP-binding pocket [chemical binding]; other site 1300254004629 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 1300254004630 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 1300254004631 putative ADP-binding pocket [chemical binding]; other site 1300254004632 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1300254004633 O-Antigen ligase; Region: Wzy_C; pfam04932 1300254004634 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 1300254004635 trimer interface [polypeptide binding]; other site 1300254004636 active site 1300254004637 substrate binding site [chemical binding]; other site 1300254004638 CoA binding site [chemical binding]; other site 1300254004639 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1300254004640 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 1300254004641 active site 1300254004642 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1300254004643 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1300254004644 Transposase domain (DUF772); Region: DUF772; pfam05598 1300254004645 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1300254004646 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1300254004647 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1300254004648 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1300254004649 SopE GEF domain; Region: SopE_GEF; pfam07487 1300254004650 Right handed beta helix region; Region: Beta_helix; pfam13229 1300254004651 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1300254004652 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1300254004653 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1300254004654 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1300254004655 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1300254004656 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1300254004657 substrate binding site; other site 1300254004658 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1300254004659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254004660 NAD(P) binding site [chemical binding]; other site 1300254004661 active site 1300254004662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254004663 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1300254004664 NAD(P) binding site [chemical binding]; other site 1300254004665 active site 1300254004666 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1300254004667 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1300254004668 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1300254004669 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254004670 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1300254004671 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1300254004672 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1300254004673 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 1300254004674 dimer interface [polypeptide binding]; other site 1300254004675 motif 1; other site 1300254004676 active site 1300254004677 motif 2; other site 1300254004678 motif 3; other site 1300254004679 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1300254004680 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 1300254004681 putative tRNA-binding site [nucleotide binding]; other site 1300254004682 B3/4 domain; Region: B3_4; pfam03483 1300254004683 tRNA synthetase B5 domain; Region: B5; smart00874 1300254004684 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 1300254004685 dimer interface [polypeptide binding]; other site 1300254004686 motif 1; other site 1300254004687 motif 3; other site 1300254004688 motif 2; other site 1300254004689 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1300254004690 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 1300254004691 IHF dimer interface [polypeptide binding]; other site 1300254004692 IHF - DNA interface [nucleotide binding]; other site 1300254004693 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 1300254004694 putative deacylase active site [active] 1300254004695 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1300254004696 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 1300254004697 active site 1300254004698 beta-hexosaminidase; Provisional; Region: PRK05337 1300254004699 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1300254004700 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1300254004701 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1300254004702 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1300254004703 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1300254004704 transcription-repair coupling factor; Provisional; Region: PRK10689 1300254004705 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1300254004706 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 1300254004707 ATP binding site [chemical binding]; other site 1300254004708 putative Mg++ binding site [ion binding]; other site 1300254004709 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 1300254004710 nucleotide binding region [chemical binding]; other site 1300254004711 ATP-binding site [chemical binding]; other site 1300254004712 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1300254004713 PilZ domain; Region: PilZ; pfam07238 1300254004714 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1300254004715 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1300254004716 FtsX-like permease family; Region: FtsX; pfam02687 1300254004717 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1300254004718 active site 1300254004719 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 1300254004720 dimer interface [polypeptide binding]; other site 1300254004721 phosphorylation site [posttranslational modification] 1300254004722 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 1300254004723 ATP binding site [chemical binding]; other site 1300254004724 Mg2+ binding site [ion binding]; other site 1300254004725 G-X-G motif; other site 1300254004726 FIST N domain; Region: FIST; pfam08495 1300254004727 FIST C domain; Region: FIST_C; pfam10442 1300254004728 Predicted membrane protein [Function unknown]; Region: COG3235 1300254004729 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1300254004730 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 1300254004731 putative catalytic site [active] 1300254004732 putative phosphate binding site [ion binding]; other site 1300254004733 active site 1300254004734 metal binding site A [ion binding]; metal-binding site 1300254004735 DNA binding site [nucleotide binding] 1300254004736 putative AP binding site [nucleotide binding]; other site 1300254004737 putative metal binding site B [ion binding]; other site 1300254004738 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1300254004739 Fe-S metabolism associated domain; Region: SufE; cl00951 1300254004740 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1300254004741 HDOD domain; Region: HDOD; pfam08668 1300254004742 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1300254004743 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1300254004744 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 1300254004745 active site 1300254004746 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 1300254004747 active site 2 [active] 1300254004748 active site 1 [active] 1300254004749 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 1300254004750 D-galactonate transporter; Region: 2A0114; TIGR00893 1300254004751 putative substrate translocation pore; other site 1300254004752 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1300254004753 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1300254004754 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1300254004755 ligand binding site; other site 1300254004756 oligomer interface; other site 1300254004757 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 1300254004758 dimer interface [polypeptide binding]; other site 1300254004759 N-terminal domain interface [polypeptide binding]; other site 1300254004760 sulfate 1 binding site; other site 1300254004761 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1300254004762 putative hydrophobic ligand binding site [chemical binding]; other site 1300254004763 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1300254004764 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1300254004765 active site 1300254004766 catalytic residues [active] 1300254004767 metal binding site [ion binding]; metal-binding site 1300254004768 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1300254004769 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1300254004770 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1300254004771 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1300254004772 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 1300254004773 carboxyltransferase (CT) interaction site; other site 1300254004774 biotinylation site [posttranslational modification]; other site 1300254004775 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 1300254004776 enoyl-CoA hydratase; Provisional; Region: PRK05995 1300254004777 substrate binding site [chemical binding]; other site 1300254004778 oxyanion hole (OAH) forming residues; other site 1300254004779 trimer interface [polypeptide binding]; other site 1300254004780 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1300254004781 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1300254004782 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1300254004783 isovaleryl-CoA dehydrogenase; Region: PLN02519 1300254004784 substrate binding site [chemical binding]; other site 1300254004785 FAD binding site [chemical binding]; other site 1300254004786 catalytic base [active] 1300254004787 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1300254004788 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1300254004789 DNA binding residues [nucleotide binding] 1300254004790 putative dimer interface [polypeptide binding]; other site 1300254004791 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1300254004792 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 1300254004793 dimer interface [polypeptide binding]; other site 1300254004794 active site 1300254004795 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254004796 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254004797 kynureninase; Region: kynureninase; TIGR01814 1300254004798 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 1300254004799 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254004800 catalytic residue [active] 1300254004801 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1300254004802 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 1300254004803 substrate binding pocket [chemical binding]; other site 1300254004804 membrane-bound complex binding site; other site 1300254004805 hinge residues; other site 1300254004806 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254004807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004808 metal binding site [ion binding]; metal-binding site 1300254004809 active site 1300254004810 I-site; other site 1300254004811 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1300254004812 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1300254004813 exonuclease I; Provisional; Region: sbcB; PRK11779 1300254004814 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1300254004815 active site 1300254004816 catalytic site [active] 1300254004817 substrate binding site [chemical binding]; other site 1300254004818 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1300254004819 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1300254004820 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 1300254004821 putative active site [active] 1300254004822 heme pocket [chemical binding]; other site 1300254004823 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 1300254004824 phosphorylation site [posttranslational modification] 1300254004825 dimer interface [polypeptide binding]; other site 1300254004826 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 1300254004827 ATP binding site [chemical binding]; other site 1300254004828 Mg2+ binding site [ion binding]; other site 1300254004829 G-X-G motif; other site 1300254004830 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254004831 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 1300254004832 active site 1300254004833 phosphorylation site [posttranslational modification] 1300254004834 intermolecular recognition site; other site 1300254004835 dimerization interface [polypeptide binding]; other site 1300254004836 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 1300254004837 catalytic nucleophile [active] 1300254004838 FOG: CBS domain [General function prediction only]; Region: COG0517 1300254004839 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 1300254004840 Phytase; Region: Phytase; cl17685 1300254004841 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 1300254004842 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1300254004843 active site 1300254004844 metal binding site [ion binding]; metal-binding site 1300254004845 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1300254004846 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254004847 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 1300254004848 N-terminal plug; other site 1300254004849 ligand-binding site [chemical binding]; other site 1300254004850 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254004851 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254004852 metal binding site [ion binding]; metal-binding site 1300254004853 active site 1300254004854 I-site; other site 1300254004855 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1300254004856 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1300254004857 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1300254004858 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1300254004859 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 1300254004860 ATP binding site [chemical binding]; other site 1300254004861 putative Mg++ binding site [ion binding]; other site 1300254004862 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 1300254004863 nucleotide binding region [chemical binding]; other site 1300254004864 ATP-binding site [chemical binding]; other site 1300254004865 Helicase associated domain (HA2); Region: HA2; pfam04408 1300254004866 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1300254004867 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1300254004868 PilZ domain; Region: PilZ; pfam07238 1300254004869 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 1300254004870 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1300254004871 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1300254004872 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1300254004873 putative RNA binding site [nucleotide binding]; other site 1300254004874 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 1300254004875 S-adenosylmethionine binding site [chemical binding]; other site 1300254004876 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1300254004877 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1300254004878 NAD(P) binding site [chemical binding]; other site 1300254004879 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1300254004880 RNA/DNA hybrid binding site [nucleotide binding]; other site 1300254004881 active site 1300254004882 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1300254004883 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 1300254004884 active site 1300254004885 catalytic site [active] 1300254004886 substrate binding site [chemical binding]; other site 1300254004887 TIGR03503 family protein; Region: TIGR03503 1300254004888 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1300254004889 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1300254004890 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 1300254004891 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1300254004892 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1300254004893 Walker A/P-loop; other site 1300254004894 ATP binding site [chemical binding]; other site 1300254004895 Q-loop/lid; other site 1300254004896 ABC transporter signature motif; other site 1300254004897 Walker B; other site 1300254004898 D-loop; other site 1300254004899 H-loop/switch region; other site 1300254004900 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1300254004901 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1300254004902 FtsX-like permease family; Region: FtsX; pfam02687 1300254004903 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1300254004904 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1300254004905 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1300254004906 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1300254004907 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1300254004908 succinylarginine dihydrolase; Provisional; Region: PRK13281 1300254004909 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1300254004910 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 1300254004911 active site 1300254004912 interdomain interaction site; other site 1300254004913 putative metal-binding site [ion binding]; other site 1300254004914 nucleotide binding site [chemical binding]; other site 1300254004915 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 1300254004916 domain I; other site 1300254004917 DNA binding groove [nucleotide binding] 1300254004918 phosphate binding site [ion binding]; other site 1300254004919 domain II; other site 1300254004920 domain III; other site 1300254004921 nucleotide binding site [chemical binding]; other site 1300254004922 catalytic site [active] 1300254004923 domain IV; other site 1300254004924 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1300254004925 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1300254004926 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1300254004927 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1300254004928 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1300254004929 potential frameshift: common BLAST hit: gi|410861434|ref|YP_006976668.1| zinc metalloendopeptidase 1300254004930 potential frameshift: common BLAST hit: gi|410861434|ref|YP_006976668.1| zinc metalloendopeptidase 1300254004931 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1300254004932 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1300254004933 GTP binding site; other site 1300254004934 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 1300254004935 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1300254004936 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 1300254004937 putative molybdopterin cofactor binding site [chemical binding]; other site 1300254004938 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 1300254004939 putative molybdopterin cofactor binding site; other site 1300254004940 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254004941 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1300254004942 Coenzyme A binding pocket [chemical binding]; other site 1300254004943 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 1300254004944 motif II; other site 1300254004945 Ecdysteroid kinase; Region: EcKinase; cl17738 1300254004946 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1300254004947 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 1300254004948 homodimer interface [polypeptide binding]; other site 1300254004949 oligonucleotide binding site [chemical binding]; other site 1300254004950 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1300254004951 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 1300254004952 RNA binding surface [nucleotide binding]; other site 1300254004953 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1300254004954 active site 1300254004955 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1300254004956 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 1300254004957 motif II; other site 1300254004958 Maf-like protein; Region: Maf; pfam02545 1300254004959 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 1300254004960 active site 1300254004961 dimer interface [polypeptide binding]; other site 1300254004962 hypothetical protein; Provisional; Region: PRK11193 1300254004963 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1300254004964 putative phosphate acyltransferase; Provisional; Region: PRK05331 1300254004965 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1300254004966 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1300254004967 dimer interface [polypeptide binding]; other site 1300254004968 active site 1300254004969 CoA binding pocket [chemical binding]; other site 1300254004970 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1300254004971 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1300254004972 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1300254004973 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1300254004974 NAD(P) binding site [chemical binding]; other site 1300254004975 homotetramer interface [polypeptide binding]; other site 1300254004976 homodimer interface [polypeptide binding]; other site 1300254004977 active site 1300254004978 acyl carrier protein; Provisional; Region: acpP; PRK00982 1300254004979 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1300254004980 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 1300254004981 dimer interface [polypeptide binding]; other site 1300254004982 active site 1300254004983 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1300254004984 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 1300254004985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254004986 catalytic residue [active] 1300254004987 YceG-like family; Region: YceG; pfam02618 1300254004988 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1300254004989 dimerization interface [polypeptide binding]; other site 1300254004990 thymidylate kinase; Validated; Region: tmk; PRK00698 1300254004991 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 1300254004992 TMP-binding site; other site 1300254004993 ATP-binding site [chemical binding]; other site 1300254004994 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1300254004995 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1300254004996 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 1300254004997 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1300254004998 active site 1300254004999 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 1300254005000 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 1300254005001 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1300254005002 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1300254005003 NAD(P) binding site [chemical binding]; other site 1300254005004 putative active site [active] 1300254005005 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1300254005006 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1300254005007 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254005008 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254005009 metal binding site [ion binding]; metal-binding site 1300254005010 active site 1300254005011 I-site; other site 1300254005012 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 1300254005013 active site 1300254005014 Zn binding site [ion binding]; other site 1300254005015 Tic20-like protein; Region: Tic20; pfam09685 1300254005016 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1300254005017 classical (c) SDRs; Region: SDR_c; cd05233 1300254005018 NAD(P) binding site [chemical binding]; other site 1300254005019 active site 1300254005020 haloalkane dehalogenase; Provisional; Region: PRK00870 1300254005021 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 1300254005022 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1300254005023 substrate binding site [chemical binding]; other site 1300254005024 oxyanion hole (OAH) forming residues; other site 1300254005025 trimer interface [polypeptide binding]; other site 1300254005026 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1300254005027 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1300254005028 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1300254005029 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1300254005030 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 1300254005031 dimer interface [polypeptide binding]; other site 1300254005032 active site 1300254005033 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1300254005034 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1300254005035 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254005036 active site 1300254005037 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1300254005038 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1300254005039 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1300254005040 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1300254005041 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1300254005042 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1300254005043 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 1300254005044 motif II; other site 1300254005045 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1300254005046 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1300254005047 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1300254005048 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1300254005049 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1300254005050 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1300254005051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254005052 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 1300254005053 substrate binding pocket [chemical binding]; other site 1300254005054 dimerization interface [polypeptide binding]; other site 1300254005055 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 1300254005056 active site 2 [active] 1300254005057 active site 1 [active] 1300254005058 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254005059 Conserved TM helix; Region: TM_helix; pfam05552 1300254005060 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254005061 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254005062 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 1300254005063 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 1300254005064 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 1300254005065 aromatic arch; other site 1300254005066 DCoH dimer interaction site [polypeptide binding]; other site 1300254005067 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1300254005068 DCoH tetramer interaction site [polypeptide binding]; other site 1300254005069 substrate binding site [chemical binding]; other site 1300254005070 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1300254005071 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1300254005072 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1300254005073 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1300254005074 PAS domain S-box; Region: sensory_box; TIGR00229 1300254005075 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 1300254005076 putative active site [active] 1300254005077 heme pocket [chemical binding]; other site 1300254005078 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 1300254005079 PAS fold; Region: PAS_3; pfam08447 1300254005080 putative active site [active] 1300254005081 heme pocket [chemical binding]; other site 1300254005082 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 1300254005083 dimer interface [polypeptide binding]; other site 1300254005084 phosphorylation site [posttranslational modification] 1300254005085 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 1300254005086 ATP binding site [chemical binding]; other site 1300254005087 Mg2+ binding site [ion binding]; other site 1300254005088 G-X-G motif; other site 1300254005089 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254005090 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 1300254005091 active site 1300254005092 phosphorylation site [posttranslational modification] 1300254005093 intermolecular recognition site; other site 1300254005094 dimerization interface [polypeptide binding]; other site 1300254005095 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 1300254005096 putative binding surface; other site 1300254005097 active site 1300254005098 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1300254005099 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 1300254005100 active site 1300254005101 phosphorylation site [posttranslational modification] 1300254005102 intermolecular recognition site; other site 1300254005103 dimerization interface [polypeptide binding]; other site 1300254005104 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1300254005105 Zn2+ binding site [ion binding]; other site 1300254005106 Mg2+ binding site [ion binding]; other site 1300254005107 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1300254005108 Sm and related proteins; Region: Sm_like; cl00259 1300254005109 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1300254005110 putative oligomer interface [polypeptide binding]; other site 1300254005111 putative RNA binding site [nucleotide binding]; other site 1300254005112 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1300254005113 NusA N-terminal domain; Region: NusA_N; pfam08529 1300254005114 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 1300254005115 RNA binding site [nucleotide binding]; other site 1300254005116 homodimer interface [polypeptide binding]; other site 1300254005117 NusA-like KH domain; Region: KH_5; pfam13184 1300254005118 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 1300254005119 G-X-X-G motif; other site 1300254005120 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1300254005121 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1300254005122 translation initiation factor IF-2; Region: IF-2; TIGR00487 1300254005123 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1300254005124 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1300254005125 G1 box; other site 1300254005126 putative GEF interaction site [polypeptide binding]; other site 1300254005127 GTP/Mg2+ binding site [chemical binding]; other site 1300254005128 Switch I region; other site 1300254005129 G2 box; other site 1300254005130 G3 box; other site 1300254005131 Switch II region; other site 1300254005132 G4 box; other site 1300254005133 G5 box; other site 1300254005134 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 1300254005135 Translation-initiation factor 2; Region: IF-2; pfam11987 1300254005136 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 1300254005137 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1300254005138 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1300254005139 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1300254005140 RNA binding site [nucleotide binding]; other site 1300254005141 active site 1300254005142 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1300254005143 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 1300254005144 16S/18S rRNA binding site [nucleotide binding]; other site 1300254005145 S13e-L30e interaction site [polypeptide binding]; other site 1300254005146 25S rRNA binding site [nucleotide binding]; other site 1300254005147 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 1300254005148 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1300254005149 RNA binding surface [nucleotide binding]; other site 1300254005150 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1300254005151 probable active site [active] 1300254005152 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1300254005153 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 1300254005154 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1300254005155 putative active site [active] 1300254005156 catalytic triad [active] 1300254005157 putative dimer interface [polypeptide binding]; other site 1300254005158 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1300254005159 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1300254005160 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1300254005161 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 1300254005162 active site 1300254005163 phosphorylation site [posttranslational modification] 1300254005164 intermolecular recognition site; other site 1300254005165 dimerization interface [polypeptide binding]; other site 1300254005166 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 1300254005167 generic binding surface I; other site 1300254005168 generic binding surface II; other site 1300254005169 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1300254005170 putative catalytic site [active] 1300254005171 putative metal binding site [ion binding]; other site 1300254005172 putative phosphate binding site [ion binding]; other site 1300254005173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1300254005174 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1300254005175 peroxiredoxin; Region: AhpC; TIGR03137 1300254005176 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 1300254005177 dimer interface [polypeptide binding]; other site 1300254005178 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1300254005179 catalytic triad [active] 1300254005180 peroxidatic and resolving cysteines [active] 1300254005181 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1300254005182 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 1300254005183 catalytic residue [active] 1300254005184 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 1300254005185 catalytic residues [active] 1300254005186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254005187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254005188 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1300254005189 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1300254005190 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1300254005191 diiron binding motif [ion binding]; other site 1300254005192 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1300254005193 Strictosidine synthase; Region: Str_synth; pfam03088 1300254005194 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 1300254005195 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1300254005196 Active site serine [active] 1300254005197 hypothetical protein; Provisional; Region: PRK01254 1300254005198 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1300254005199 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1300254005200 EVE domain; Region: EVE; cl00728 1300254005201 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254005202 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 1300254005203 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1300254005204 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1300254005205 mercuric reductase; Validated; Region: PRK06370 1300254005206 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254005207 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1300254005208 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1300254005209 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1300254005210 hypothetical protein; Provisional; Region: PRK11622 1300254005211 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 1300254005212 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 1300254005213 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 1300254005214 dimer interface [polypeptide binding]; other site 1300254005215 conserved gate region; other site 1300254005216 putative PBP binding loops; other site 1300254005217 ABC-ATPase subunit interface; other site 1300254005218 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1300254005219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254005220 Walker A/P-loop; other site 1300254005221 ATP binding site [chemical binding]; other site 1300254005222 Q-loop/lid; other site 1300254005223 ABC transporter signature motif; other site 1300254005224 Walker B; other site 1300254005225 D-loop; other site 1300254005226 H-loop/switch region; other site 1300254005227 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1300254005228 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1300254005229 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1300254005230 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 1300254005231 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1300254005232 acyl-CoA thioesterase; Provisional; Region: PRK10531 1300254005233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254005234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254005235 active site 1300254005236 I-site; other site 1300254005237 metal binding site [ion binding]; metal-binding site 1300254005238 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1300254005239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254005240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254005241 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 1300254005242 putative effector binding pocket; other site 1300254005243 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 1300254005244 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 1300254005245 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1300254005246 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1300254005247 Walker A/P-loop; other site 1300254005248 ATP binding site [chemical binding]; other site 1300254005249 Q-loop/lid; other site 1300254005250 ABC transporter signature motif; other site 1300254005251 Walker B; other site 1300254005252 D-loop; other site 1300254005253 H-loop/switch region; other site 1300254005254 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254005255 short chain dehydrogenase; Provisional; Region: PRK06181 1300254005256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254005257 NAD(P) binding site [chemical binding]; other site 1300254005258 active site 1300254005259 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1300254005260 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 1300254005261 putative NAD(P) binding site [chemical binding]; other site 1300254005262 active site 1300254005263 putative substrate binding site [chemical binding]; other site 1300254005264 bile acid transporter; Region: bass; TIGR00841 1300254005265 Sodium Bile acid symporter family; Region: SBF; pfam01758 1300254005266 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254005267 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1300254005268 Helix-turn-helix domain; Region: HTH_18; pfam12833 1300254005269 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1300254005270 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 1300254005271 putative active site [active] 1300254005272 putative FMN binding site [chemical binding]; other site 1300254005273 putative substrate binding site [chemical binding]; other site 1300254005274 putative catalytic residue [active] 1300254005275 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 1300254005276 SmpB-tmRNA interface; other site 1300254005277 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1300254005278 putative coenzyme Q binding site [chemical binding]; other site 1300254005279 hypothetical protein; Validated; Region: PRK01777 1300254005280 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1300254005281 MarR family; Region: MarR; pfam01047 1300254005282 BCCT family transporter; Region: BCCT; cl00569 1300254005283 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254005284 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254005285 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 1300254005286 TPR repeat; Region: TPR_11; pfam13414 1300254005287 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 1300254005288 binding surface 1300254005289 TPR motif; other site 1300254005290 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 1300254005291 TPR motif; other site 1300254005292 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1300254005293 binding surface 1300254005294 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 1300254005295 binding surface 1300254005296 TPR motif; other site 1300254005297 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 1300254005298 binding surface 1300254005299 TPR motif; other site 1300254005300 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1300254005301 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1300254005302 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1300254005303 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1300254005304 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1300254005305 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1300254005306 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1300254005307 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1300254005308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254005309 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254005310 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1300254005311 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 1300254005312 catalytic loop [active] 1300254005313 iron binding site [ion binding]; other site 1300254005314 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1300254005315 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 1300254005316 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1300254005317 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1300254005318 Cupin-like domain; Region: Cupin_8; pfam13621 1300254005319 cyclase homology domain; Region: CHD; cd07302 1300254005320 nucleotidyl binding site; other site 1300254005321 metal binding site [ion binding]; metal-binding site 1300254005322 dimer interface [polypeptide binding]; other site 1300254005323 adenylosuccinate lyase; Provisional; Region: PRK09285 1300254005324 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1300254005325 tetramer interface [polypeptide binding]; other site 1300254005326 active site 1300254005327 putative lysogenization regulator; Reviewed; Region: PRK00218 1300254005328 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1300254005329 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 1300254005330 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1300254005331 pseudouridine synthase; Region: TIGR00093 1300254005332 probable active site [active] 1300254005333 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1300254005334 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1300254005335 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 1300254005336 DNA-binding site [nucleotide binding]; DNA binding site 1300254005337 RNA-binding motif; other site 1300254005338 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1300254005339 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1300254005340 Clp amino terminal domain; Region: Clp_N; pfam02861 1300254005341 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 1300254005342 Walker A motif; other site 1300254005343 ATP binding site [chemical binding]; other site 1300254005344 Walker B motif; other site 1300254005345 arginine finger; other site 1300254005346 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 1300254005347 Walker A motif; other site 1300254005348 ATP binding site [chemical binding]; other site 1300254005349 Walker B motif; other site 1300254005350 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1300254005351 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 1300254005352 rRNA binding site [nucleotide binding]; other site 1300254005353 predicted 30S ribosome binding site; other site 1300254005354 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1300254005355 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1300254005356 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1300254005357 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1300254005358 thioredoxin reductase; Provisional; Region: PRK10262 1300254005359 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254005360 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254005361 Protein of unknown function, DUF412; Region: DUF412; pfam04217 1300254005362 SprT homologues; Region: SprT; cl01182 1300254005363 SprT-like family; Region: SprT-like; pfam10263 1300254005364 protease 4; Provisional; Region: PRK10949 1300254005365 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1300254005366 tandem repeat interface [polypeptide binding]; other site 1300254005367 oligomer interface [polypeptide binding]; other site 1300254005368 active site residues [active] 1300254005369 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1300254005370 tandem repeat interface [polypeptide binding]; other site 1300254005371 oligomer interface [polypeptide binding]; other site 1300254005372 active site residues [active] 1300254005373 DoxX; Region: DoxX; pfam07681 1300254005374 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 1300254005375 putative FMN binding site [chemical binding]; other site 1300254005376 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1300254005377 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1300254005378 active site 1300254005379 homodimer interface [polypeptide binding]; other site 1300254005380 lipoyl synthase; Provisional; Region: PRK05481 1300254005381 lipoate-protein ligase B; Provisional; Region: PRK14342 1300254005382 hypothetical protein; Provisional; Region: PRK04998 1300254005383 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1300254005384 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1300254005385 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1300254005386 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1300254005387 rare lipoprotein A; Region: rlpA; TIGR00413 1300254005388 Sporulation related domain; Region: SPOR; pfam05036 1300254005389 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1300254005390 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1300254005391 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1300254005392 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1300254005393 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1300254005394 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1300254005395 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1300254005396 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1300254005397 active site 1300254005398 (T/H)XGH motif; other site 1300254005399 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1300254005400 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1300254005401 Lipopolysaccharide-assembly; Region: LptE; cl01125 1300254005402 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1300254005403 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1300254005404 HIGH motif; other site 1300254005405 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1300254005406 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1300254005407 active site 1300254005408 KMSKS motif; other site 1300254005409 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1300254005410 tRNA binding surface [nucleotide binding]; other site 1300254005411 AAA domain; Region: AAA_32; pfam13654 1300254005412 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1300254005413 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254005414 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254005415 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254005416 metal binding site [ion binding]; metal-binding site 1300254005417 active site 1300254005418 I-site; other site 1300254005419 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1300254005420 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1300254005421 NAD binding site [chemical binding]; other site 1300254005422 homodimer interface [polypeptide binding]; other site 1300254005423 homotetramer interface [polypeptide binding]; other site 1300254005424 active site 1300254005425 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1300254005426 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1300254005427 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 1300254005428 S-adenosylmethionine binding site [chemical binding]; other site 1300254005429 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1300254005430 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 1300254005431 Walker A motif; other site 1300254005432 ATP binding site [chemical binding]; other site 1300254005433 Walker B motif; other site 1300254005434 arginine finger; other site 1300254005435 Peptidase family M41; Region: Peptidase_M41; pfam01434 1300254005436 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1300254005437 dihydropteroate synthase; Region: DHPS; TIGR01496 1300254005438 substrate binding pocket [chemical binding]; other site 1300254005439 dimer interface [polypeptide binding]; other site 1300254005440 inhibitor binding site; inhibition site 1300254005441 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1300254005442 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 1300254005443 active site 1300254005444 substrate binding site [chemical binding]; other site 1300254005445 metal binding site [ion binding]; metal-binding site 1300254005446 triosephosphate isomerase; Provisional; Region: PRK14567 1300254005447 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 1300254005448 dimer interface [polypeptide binding]; other site 1300254005449 substrate binding site [chemical binding]; other site 1300254005450 catalytic triad [active] 1300254005451 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1300254005452 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1300254005453 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1300254005454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254005455 NAD(P) binding site [chemical binding]; other site 1300254005456 active site 1300254005457 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 1300254005458 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1300254005459 active site 1300254005460 motif I; other site 1300254005461 motif II; other site 1300254005462 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1300254005463 enterobactin exporter EntS; Provisional; Region: PRK10489 1300254005464 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1300254005465 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 1300254005466 active site 1300254005467 DNA binding site [nucleotide binding] 1300254005468 Int/Topo IB signature motif; other site 1300254005469 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1300254005470 Na binding site [ion binding]; other site 1300254005471 gamma-glutamyl kinase; Provisional; Region: PRK13402 1300254005472 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 1300254005473 nucleotide binding site [chemical binding]; other site 1300254005474 homotetrameric interface [polypeptide binding]; other site 1300254005475 putative phosphate binding site [ion binding]; other site 1300254005476 putative allosteric binding site; other site 1300254005477 PUA domain; Region: PUA; cl00607 1300254005478 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1300254005479 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1300254005480 putative catalytic cysteine [active] 1300254005481 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254005482 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254005483 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1300254005484 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 1300254005485 active site 1300254005486 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1300254005487 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1300254005488 trimer interface [polypeptide binding]; other site 1300254005489 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1300254005490 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1300254005491 RNase E interface [polypeptide binding]; other site 1300254005492 trimer interface [polypeptide binding]; other site 1300254005493 active site 1300254005494 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1300254005495 putative nucleic acid binding region [nucleotide binding]; other site 1300254005496 G-X-X-G motif; other site 1300254005497 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1300254005498 RNA binding site [nucleotide binding]; other site 1300254005499 domain interface; other site 1300254005500 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 1300254005501 potential frameshift: common BLAST hit: gi|332139759|ref|YP_004425497.1| transposase 1300254005502 potential frameshift: common BLAST hit: gi|410862838|ref|YP_006978072.1| transposase 1300254005503 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1300254005504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1300254005505 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1300254005506 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 1300254005507 non-specific DNA binding site [nucleotide binding]; other site 1300254005508 salt bridge; other site 1300254005509 sequence-specific DNA binding site [nucleotide binding]; other site 1300254005510 Domain of unknown function (DUF955); Region: DUF955; cl01076 1300254005511 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 1300254005512 putative active site [active] 1300254005513 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 1300254005514 active site 1300254005515 catalytic residues [active] 1300254005516 DNA binding site [nucleotide binding] 1300254005517 Int/Topo IB signature motif; other site 1300254005518 AAA ATPase domain; Region: AAA_16; pfam13191 1300254005519 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1300254005520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1300254005521 AAA domain; Region: AAA_17; pfam13207 1300254005522 AAA domain; Region: AAA_18; pfam13238 1300254005523 MAPEG family; Region: MAPEG; cl09190 1300254005524 transport protein TonB; Provisional; Region: PRK10819 1300254005525 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1300254005526 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1300254005527 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254005528 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 1300254005529 DNA binding residues [nucleotide binding] 1300254005530 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 1300254005531 active site 1300254005532 catalytic motif [active] 1300254005533 Zn binding site [ion binding]; other site 1300254005534 lipoprotein NlpI; Provisional; Region: PRK11189 1300254005535 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 1300254005536 binding surface 1300254005537 TPR motif; other site 1300254005538 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1300254005539 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1300254005540 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1300254005541 Walker A/P-loop; other site 1300254005542 ATP binding site [chemical binding]; other site 1300254005543 Q-loop/lid; other site 1300254005544 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1300254005545 ABC transporter signature motif; other site 1300254005546 Walker B; other site 1300254005547 D-loop; other site 1300254005548 H-loop/switch region; other site 1300254005549 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1300254005550 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1300254005551 FtsZ protein binding site [polypeptide binding]; other site 1300254005552 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1300254005553 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1300254005554 nucleotide binding pocket [chemical binding]; other site 1300254005555 K-X-D-G motif; other site 1300254005556 catalytic site [active] 1300254005557 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1300254005558 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1300254005559 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1300254005560 Dimer interface [polypeptide binding]; other site 1300254005561 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1300254005562 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1300254005563 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1300254005564 Competence protein; Region: Competence; pfam03772 1300254005565 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1300254005566 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254005567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254005568 Walker A/P-loop; other site 1300254005569 ATP binding site [chemical binding]; other site 1300254005570 Q-loop/lid; other site 1300254005571 ABC transporter signature motif; other site 1300254005572 Walker B; other site 1300254005573 D-loop; other site 1300254005574 H-loop/switch region; other site 1300254005575 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1300254005576 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1300254005577 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1300254005578 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1300254005579 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1300254005580 Ligand binding site; other site 1300254005581 oligomer interface; other site 1300254005582 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1300254005583 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1300254005584 NADP binding site [chemical binding]; other site 1300254005585 homodimer interface [polypeptide binding]; other site 1300254005586 active site 1300254005587 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1300254005588 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1300254005589 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 1300254005590 FeS/SAM binding site; other site 1300254005591 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1300254005592 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1300254005593 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 1300254005594 putative ATP binding site [chemical binding]; other site 1300254005595 putative substrate interface [chemical binding]; other site 1300254005596 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1300254005597 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1300254005598 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1300254005599 putative dimer interface [polypeptide binding]; other site 1300254005600 N-terminal domain interface [polypeptide binding]; other site 1300254005601 putative substrate binding pocket (H-site) [chemical binding]; other site 1300254005602 Pirin-related protein [General function prediction only]; Region: COG1741 1300254005603 Pirin; Region: Pirin; pfam02678 1300254005604 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1300254005605 phosphomannomutase CpsG; Provisional; Region: PRK15414 1300254005606 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 1300254005607 active site 1300254005608 substrate binding site [chemical binding]; other site 1300254005609 metal binding site [ion binding]; metal-binding site 1300254005610 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1300254005611 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 1300254005612 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1300254005613 dimer interface [polypeptide binding]; other site 1300254005614 active site 1300254005615 citrylCoA binding site [chemical binding]; other site 1300254005616 NADH binding [chemical binding]; other site 1300254005617 cationic pore residues; other site 1300254005618 oxalacetate/citrate binding site [chemical binding]; other site 1300254005619 coenzyme A binding site [chemical binding]; other site 1300254005620 catalytic triad [active] 1300254005621 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 1300254005622 Iron-sulfur protein interface; other site 1300254005623 proximal quinone binding site [chemical binding]; other site 1300254005624 SdhD (CybS) interface [polypeptide binding]; other site 1300254005625 proximal heme binding site [chemical binding]; other site 1300254005626 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 1300254005627 SdhC subunit interface [polypeptide binding]; other site 1300254005628 proximal heme binding site [chemical binding]; other site 1300254005629 cardiolipin binding site; other site 1300254005630 Iron-sulfur protein interface; other site 1300254005631 proximal quinone binding site [chemical binding]; other site 1300254005632 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1300254005633 L-aspartate oxidase; Provisional; Region: PRK06175 1300254005634 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1300254005635 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1300254005636 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 1300254005637 catalytic loop [active] 1300254005638 iron binding site [ion binding]; other site 1300254005639 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1300254005640 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 1300254005641 TPP-binding site [chemical binding]; other site 1300254005642 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1300254005643 dimer interface [polypeptide binding]; other site 1300254005644 PYR/PP interface [polypeptide binding]; other site 1300254005645 TPP binding site [chemical binding]; other site 1300254005646 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 1300254005647 E3 interaction surface; other site 1300254005648 lipoyl attachment site [posttranslational modification]; other site 1300254005649 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1300254005650 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 1300254005651 E3 interaction surface; other site 1300254005652 lipoyl attachment site [posttranslational modification]; other site 1300254005653 e3 binding domain; Region: E3_binding; pfam02817 1300254005654 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1300254005655 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1300254005656 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1300254005657 CoA-ligase; Region: Ligase_CoA; pfam00549 1300254005658 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1300254005659 CoA binding domain; Region: CoA_binding; pfam02629 1300254005660 CoA-ligase; Region: Ligase_CoA; pfam00549 1300254005661 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254005662 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 1300254005663 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 1300254005664 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1300254005665 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254005666 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 1300254005667 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 1300254005668 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1300254005669 carbohydrate binding site [chemical binding]; other site 1300254005670 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 1300254005671 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 1300254005672 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 1300254005673 Ca binding site [ion binding]; other site 1300254005674 active site 1300254005675 catalytic site [active] 1300254005676 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1300254005677 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1300254005678 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1300254005679 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1300254005680 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1300254005681 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1300254005682 active site 1300254005683 nucleophile elbow; other site 1300254005684 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1300254005685 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1300254005686 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 1300254005687 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1300254005688 active site 1300254005689 catalytic site [active] 1300254005690 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 1300254005691 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 1300254005692 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1300254005693 Ca binding site [ion binding]; other site 1300254005694 active site 1300254005695 homodimer interface [polypeptide binding]; other site 1300254005696 catalytic site [active] 1300254005697 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 1300254005698 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1300254005699 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 1300254005700 putative substrate translocation pore; other site 1300254005701 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 1300254005702 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1300254005703 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1300254005704 active site 1300254005705 catalytic site [active] 1300254005706 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1300254005707 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1300254005708 DNA binding site [nucleotide binding] 1300254005709 domain linker motif; other site 1300254005710 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 1300254005711 putative dimerization interface [polypeptide binding]; other site 1300254005712 putative ligand binding site [chemical binding]; other site 1300254005713 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1300254005714 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1300254005715 active site 1300254005716 HIGH motif; other site 1300254005717 nucleotide binding site [chemical binding]; other site 1300254005718 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1300254005719 KMSKS motif; other site 1300254005720 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1300254005721 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1300254005722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254005723 NAD(P) binding site [chemical binding]; other site 1300254005724 active site 1300254005725 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 1300254005726 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 1300254005727 Penicillin amidase; Region: Penicil_amidase; pfam01804 1300254005728 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 1300254005729 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 1300254005730 active site 1300254005731 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 1300254005732 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1300254005733 putative inner membrane peptidase; Provisional; Region: PRK11778 1300254005734 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1300254005735 tandem repeat interface [polypeptide binding]; other site 1300254005736 oligomer interface [polypeptide binding]; other site 1300254005737 active site residues [active] 1300254005738 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1300254005739 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254005740 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1300254005741 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1300254005742 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1300254005743 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 1300254005744 S-adenosylmethionine binding site [chemical binding]; other site 1300254005745 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1300254005746 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1300254005747 putative ligand binding site [chemical binding]; other site 1300254005748 putative NAD binding site [chemical binding]; other site 1300254005749 catalytic site [active] 1300254005750 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 1300254005751 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1300254005752 catalytic residues [active] 1300254005753 dimer interface [polypeptide binding]; other site 1300254005754 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1300254005755 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1300254005756 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254005757 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 1300254005758 active site 1300254005759 phosphorylation site [posttranslational modification] 1300254005760 intermolecular recognition site; other site 1300254005761 dimerization interface [polypeptide binding]; other site 1300254005762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1300254005763 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1300254005764 substrate binding pocket [chemical binding]; other site 1300254005765 FAD binding site [chemical binding]; other site 1300254005766 catalytic base [active] 1300254005767 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 1300254005768 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1300254005769 substrate binding site [chemical binding]; other site 1300254005770 oxyanion hole (OAH) forming residues; other site 1300254005771 trimer interface [polypeptide binding]; other site 1300254005772 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1300254005773 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1300254005774 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1300254005775 S-adenosylmethionine binding site [chemical binding]; other site 1300254005776 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1300254005777 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1300254005778 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 1300254005779 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1300254005780 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1300254005781 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 1300254005782 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1300254005783 Peptidase family M23; Region: Peptidase_M23; pfam01551 1300254005784 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1300254005785 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1300254005786 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 1300254005787 protein binding site [polypeptide binding]; other site 1300254005788 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1300254005789 PilZ domain; Region: PilZ; pfam07238 1300254005790 Protein of unknown function (DUF962); Region: DUF962; cl01879 1300254005791 Histidine kinase; Region: His_kinase; pfam06580 1300254005792 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 1300254005793 ATP binding site [chemical binding]; other site 1300254005794 Mg2+ binding site [ion binding]; other site 1300254005795 G-X-G motif; other site 1300254005796 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1300254005797 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 1300254005798 active site 1300254005799 phosphorylation site [posttranslational modification] 1300254005800 intermolecular recognition site; other site 1300254005801 dimerization interface [polypeptide binding]; other site 1300254005802 LytTr DNA-binding domain; Region: LytTR; smart00850 1300254005803 6-phosphofructokinase; Provisional; Region: PRK03202 1300254005804 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1300254005805 active site 1300254005806 ADP/pyrophosphate binding site [chemical binding]; other site 1300254005807 dimerization interface [polypeptide binding]; other site 1300254005808 allosteric effector site; other site 1300254005809 fructose-1,6-bisphosphate binding site; other site 1300254005810 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 1300254005811 CoenzymeA binding site [chemical binding]; other site 1300254005812 subunit interaction site [polypeptide binding]; other site 1300254005813 PHB binding site; other site 1300254005814 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1300254005815 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1300254005816 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1300254005817 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1300254005818 putative NAD(P) binding site [chemical binding]; other site 1300254005819 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1300254005820 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1300254005821 putative NAD(P) binding site [chemical binding]; other site 1300254005822 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1300254005823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254005824 NAD(P) binding site [chemical binding]; other site 1300254005825 active site 1300254005826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254005827 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 1300254005828 putative effector binding pocket; other site 1300254005829 dimerization interface [polypeptide binding]; other site 1300254005830 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 1300254005831 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 1300254005832 active site 1300254005833 substrate binding sites [chemical binding]; other site 1300254005834 Winged helix-turn helix; Region: HTH_29; pfam13551 1300254005835 Integrase core domain; Region: rve; pfam00665 1300254005836 Homeodomain-like domain; Region: HTH_23; pfam13384 1300254005837 Winged helix-turn helix; Region: HTH_29; pfam13551 1300254005838 Homeodomain-like domain; Region: HTH_32; pfam13565 1300254005839 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 1300254005840 metal-binding site [ion binding] 1300254005841 MerT mercuric transport protein; Region: MerT; cl03578 1300254005842 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1300254005843 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1300254005844 DNA binding residues [nucleotide binding] 1300254005845 dimer interface [polypeptide binding]; other site 1300254005846 mercury binding site [ion binding]; other site 1300254005847 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1300254005848 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1300254005849 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 1300254005850 FeS/SAM binding site; other site 1300254005851 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254005852 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 1300254005853 active site 1300254005854 phosphorylation site [posttranslational modification] 1300254005855 intermolecular recognition site; other site 1300254005856 dimerization interface [polypeptide binding]; other site 1300254005857 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 1300254005858 binding surface 1300254005859 TPR motif; other site 1300254005860 TPR repeat; Region: TPR_11; pfam13414 1300254005861 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 1300254005862 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1300254005863 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1300254005864 active site residue [active] 1300254005865 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 1300254005866 EF-hand domain pair; Region: EF_hand_5; pfam13499 1300254005867 Ca2+ binding site [ion binding]; other site 1300254005868 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 1300254005869 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1300254005870 ATP binding site [chemical binding]; other site 1300254005871 Mg++ binding site [ion binding]; other site 1300254005872 motif III; other site 1300254005873 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 1300254005874 nucleotide binding region [chemical binding]; other site 1300254005875 ATP-binding site [chemical binding]; other site 1300254005876 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1300254005877 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1300254005878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254005879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254005880 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 1300254005881 putative dimerization interface [polypeptide binding]; other site 1300254005882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254005883 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 1300254005884 ATP binding site [chemical binding]; other site 1300254005885 Mg2+ binding site [ion binding]; other site 1300254005886 G-X-G motif; other site 1300254005887 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1300254005888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254005889 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1300254005890 substrate binding site [chemical binding]; other site 1300254005891 dimerization interface [polypeptide binding]; other site 1300254005892 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1300254005893 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1300254005894 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1300254005895 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 1300254005896 putative active site [active] 1300254005897 putative CoA binding site [chemical binding]; other site 1300254005898 nudix motif; other site 1300254005899 metal binding site [ion binding]; metal-binding site 1300254005900 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1300254005901 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1300254005902 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1300254005903 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1300254005904 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1300254005905 RmuC family; Region: RmuC; pfam02646 1300254005906 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1300254005907 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1300254005908 active site 1300254005909 catalytic residues [active] 1300254005910 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 1300254005911 PA/protease or protease-like domain interface [polypeptide binding]; other site 1300254005912 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1300254005913 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 1300254005914 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1300254005915 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 1300254005916 tetramer interface [polypeptide binding]; other site 1300254005917 TPP-binding site [chemical binding]; other site 1300254005918 heterodimer interface [polypeptide binding]; other site 1300254005919 phosphorylation loop region [posttranslational modification] 1300254005920 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 1300254005921 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 1300254005922 alpha subunit interface [polypeptide binding]; other site 1300254005923 TPP binding site [chemical binding]; other site 1300254005924 heterodimer interface [polypeptide binding]; other site 1300254005925 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1300254005926 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1300254005927 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 1300254005928 E3 interaction surface; other site 1300254005929 lipoyl attachment site [posttranslational modification]; other site 1300254005930 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 1300254005931 E3 interaction surface; other site 1300254005932 lipoyl attachment site [posttranslational modification]; other site 1300254005933 e3 binding domain; Region: E3_binding; pfam02817 1300254005934 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1300254005935 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1300254005936 Protein kinase domain; Region: Pkinase; pfam00069 1300254005937 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1300254005938 active site 1300254005939 ATP binding site [chemical binding]; other site 1300254005940 substrate binding site [chemical binding]; other site 1300254005941 activation loop (A-loop); other site 1300254005942 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1300254005943 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 1300254005944 active site 1300254005945 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_repeat1; cd03444 1300254005946 catalytic triad [active] 1300254005947 dimer interface [polypeptide binding]; other site 1300254005948 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1300254005949 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 1300254005950 trimer interface [polypeptide binding]; other site 1300254005951 putative metal binding site [ion binding]; other site 1300254005952 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 1300254005953 homodimer interface [polypeptide binding]; other site 1300254005954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254005955 catalytic residue [active] 1300254005956 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1300254005957 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1300254005958 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1300254005959 GAF domain; Region: GAF_2; pfam13185 1300254005960 ProP expression regulator; Provisional; Region: PRK04950 1300254005961 ProQ/FINO family; Region: ProQ; pfam04352 1300254005962 carboxy-terminal protease; Provisional; Region: PRK11186 1300254005963 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 1300254005964 protein binding site [polypeptide binding]; other site 1300254005965 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1300254005966 Catalytic dyad [active] 1300254005967 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1300254005968 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1300254005969 Na2 binding site [ion binding]; other site 1300254005970 putative substrate binding site 1 [chemical binding]; other site 1300254005971 Na binding site 1 [ion binding]; other site 1300254005972 putative substrate binding site 2 [chemical binding]; other site 1300254005973 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1300254005974 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1300254005975 aminopeptidase N; Provisional; Region: pepN; PRK14015 1300254005976 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1300254005977 Zn binding site [ion binding]; other site 1300254005978 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1300254005979 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1300254005980 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1300254005981 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1300254005982 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1300254005983 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1300254005984 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1300254005985 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1300254005986 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 1300254005987 quinone interaction residues [chemical binding]; other site 1300254005988 active site 1300254005989 catalytic residues [active] 1300254005990 FMN binding site [chemical binding]; other site 1300254005991 substrate binding site [chemical binding]; other site 1300254005992 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1300254005993 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1300254005994 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 1300254005995 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1300254005996 putative RNA binding site [nucleotide binding]; other site 1300254005997 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 1300254005998 S-adenosylmethionine binding site [chemical binding]; other site 1300254005999 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1300254006000 ABC transporter ATPase component; Reviewed; Region: PRK11147 1300254006001 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254006002 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254006003 ABC transporter; Region: ABC_tran_2; pfam12848 1300254006004 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254006005 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 1300254006006 Ribosome modulation factor; Region: RMF; pfam04957 1300254006007 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 1300254006008 active site 1 [active] 1300254006009 dimer interface [polypeptide binding]; other site 1300254006010 active site 2 [active] 1300254006011 DNA photolyase; Region: DNA_photolyase; pfam00875 1300254006012 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1300254006013 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 1300254006014 DNA photolyase; Region: DNA_photolyase; pfam00875 1300254006015 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1300254006016 DNA photolyase; Region: DNA_photolyase; pfam00875 1300254006017 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1300254006018 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1300254006019 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1300254006020 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1300254006021 Predicted membrane protein [Function unknown]; Region: COG4325 1300254006022 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 1300254006023 active site 1300254006024 DNA binding site [nucleotide binding] 1300254006025 Int/Topo IB signature motif; other site 1300254006026 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1300254006027 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 1300254006028 Ligand Binding Site [chemical binding]; other site 1300254006029 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1300254006030 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1300254006031 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 1300254006032 active site 1300254006033 FMN binding site [chemical binding]; other site 1300254006034 substrate binding site [chemical binding]; other site 1300254006035 3Fe-4S cluster binding site [ion binding]; other site 1300254006036 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1300254006037 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1300254006038 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1300254006039 TrkA-N domain; Region: TrkA_N; pfam02254 1300254006040 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1300254006041 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1300254006042 heme binding site [chemical binding]; other site 1300254006043 ferroxidase pore; other site 1300254006044 ferroxidase diiron center [ion binding]; other site 1300254006045 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1300254006046 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1300254006047 heme binding site [chemical binding]; other site 1300254006048 ferroxidase pore; other site 1300254006049 ferroxidase diiron center [ion binding]; other site 1300254006050 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 1300254006051 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1300254006052 Low-spin heme binding site [chemical binding]; other site 1300254006053 Putative water exit pathway; other site 1300254006054 Binuclear center (active site) [active] 1300254006055 Putative proton exit pathway; other site 1300254006056 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1300254006057 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1300254006058 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 1300254006059 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1300254006060 Cytochrome c; Region: Cytochrom_C; pfam00034 1300254006061 Cytochrome c; Region: Cytochrom_C; pfam00034 1300254006062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1300254006063 FixH; Region: FixH; pfam05751 1300254006064 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1300254006065 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1300254006066 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 1300254006067 metal-binding site [ion binding] 1300254006068 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1300254006069 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1300254006070 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1300254006071 Family description; Region: DsbD_2; pfam13386 1300254006072 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1300254006073 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 1300254006074 ligand binding site [chemical binding]; other site 1300254006075 flexible hinge region; other site 1300254006076 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 1300254006077 putative switch regulator; other site 1300254006078 non-specific DNA interactions [nucleotide binding]; other site 1300254006079 DNA binding site [nucleotide binding] 1300254006080 sequence specific DNA binding site [nucleotide binding]; other site 1300254006081 putative cAMP binding site [chemical binding]; other site 1300254006082 universal stress protein UspE; Provisional; Region: PRK11175 1300254006083 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 1300254006084 Ligand Binding Site [chemical binding]; other site 1300254006085 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 1300254006086 Ligand Binding Site [chemical binding]; other site 1300254006087 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1300254006088 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 1300254006089 Ligand Binding Site [chemical binding]; other site 1300254006090 hypothetical protein; Provisional; Region: PRK10279 1300254006091 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1300254006092 nucleophile elbow; other site 1300254006093 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 1300254006094 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1300254006095 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1300254006096 LysE type translocator; Region: LysE; cl00565 1300254006097 NAD-dependent deacetylase; Provisional; Region: PRK00481 1300254006098 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 1300254006099 NAD+ binding site [chemical binding]; other site 1300254006100 substrate binding site [chemical binding]; other site 1300254006101 Zn binding site [ion binding]; other site 1300254006102 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 1300254006103 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1300254006104 active site residue [active] 1300254006105 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 1300254006106 active site residue [active] 1300254006107 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 1300254006108 dimer interface [polypeptide binding]; other site 1300254006109 catalytic triad [active] 1300254006110 peroxidatic and resolving cysteines [active] 1300254006111 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1300254006112 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1300254006113 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1300254006114 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1300254006115 active site 1300254006116 catalytic site [active] 1300254006117 putative DNA binding site [nucleotide binding]; other site 1300254006118 GIY-YIG motif/motif A; other site 1300254006119 metal binding site [ion binding]; metal-binding site 1300254006120 UvrB/uvrC motif; Region: UVR; pfam02151 1300254006121 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1300254006122 Helix-hairpin-helix motif; Region: HHH; pfam00633 1300254006123 response regulator; Provisional; Region: PRK09483 1300254006124 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 1300254006125 active site 1300254006126 phosphorylation site [posttranslational modification] 1300254006127 intermolecular recognition site; other site 1300254006128 dimerization interface [polypeptide binding]; other site 1300254006129 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 1300254006130 DNA binding residues [nucleotide binding] 1300254006131 dimerization interface [polypeptide binding]; other site 1300254006132 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 1300254006133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006134 homodimer interface [polypeptide binding]; other site 1300254006135 catalytic residue [active] 1300254006136 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 1300254006137 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1300254006138 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1300254006139 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 1300254006140 S-adenosylmethionine binding site [chemical binding]; other site 1300254006141 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1300254006142 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 1300254006143 ATP binding site [chemical binding]; other site 1300254006144 putative Mg++ binding site [ion binding]; other site 1300254006145 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 1300254006146 nucleotide binding region [chemical binding]; other site 1300254006147 ATP-binding site [chemical binding]; other site 1300254006148 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1300254006149 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 1300254006150 active site 1300254006151 DNA binding site [nucleotide binding] 1300254006152 Int/Topo IB signature motif; other site 1300254006153 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1300254006154 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1300254006155 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 1300254006156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1300254006157 Integrase core domain; Region: rve; pfam00665 1300254006158 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1300254006159 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1300254006160 DNA binding residues [nucleotide binding] 1300254006161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1300254006162 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 1300254006163 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1300254006164 putative active site [active] 1300254006165 metal binding site [ion binding]; metal-binding site 1300254006166 Predicted membrane protein [Function unknown]; Region: COG2259 1300254006167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254006168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254006169 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 1300254006170 putative effector binding pocket; other site 1300254006171 dimerization interface [polypeptide binding]; other site 1300254006172 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 1300254006173 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1300254006174 YccA-like proteins; Region: YccA_like; cd10433 1300254006175 DsrE/DsrF-like family; Region: DrsE; cl00672 1300254006176 DsrE/DsrF-like family; Region: DrsE; cl00672 1300254006177 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1300254006178 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1300254006179 Protein required for attachment to host cells; Region: Host_attach; pfam10116 1300254006180 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1300254006181 seryl-tRNA synthetase; Provisional; Region: PRK05431 1300254006182 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1300254006183 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 1300254006184 dimer interface [polypeptide binding]; other site 1300254006185 active site 1300254006186 motif 1; other site 1300254006187 motif 2; other site 1300254006188 motif 3; other site 1300254006189 CrcB-like protein; Region: CRCB; cl09114 1300254006190 recombination factor protein RarA; Reviewed; Region: PRK13342 1300254006191 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 1300254006192 Walker A motif; other site 1300254006193 ATP binding site [chemical binding]; other site 1300254006194 Walker B motif; other site 1300254006195 arginine finger; other site 1300254006196 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1300254006197 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1300254006198 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1300254006199 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1300254006200 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1300254006201 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1300254006202 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1300254006203 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 1300254006204 putative DNA binding site [nucleotide binding]; other site 1300254006205 putative Zn2+ binding site [ion binding]; other site 1300254006206 AsnC family; Region: AsnC_trans_reg; pfam01037 1300254006207 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1300254006208 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1300254006209 hexamer interface [polypeptide binding]; other site 1300254006210 ligand binding site [chemical binding]; other site 1300254006211 putative active site [active] 1300254006212 NAD(P) binding site [chemical binding]; other site 1300254006213 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 1300254006214 active site 1300254006215 dimer interface [polypeptide binding]; other site 1300254006216 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1300254006217 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 1300254006218 binding surface 1300254006219 TPR motif; other site 1300254006220 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1300254006221 PilZ domain; Region: PilZ; pfam07238 1300254006222 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 1300254006223 IHF dimer interface [polypeptide binding]; other site 1300254006224 IHF - DNA interface [nucleotide binding]; other site 1300254006225 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1300254006226 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1300254006227 RNA binding site [nucleotide binding]; other site 1300254006228 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1300254006229 RNA binding site [nucleotide binding]; other site 1300254006230 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1300254006231 RNA binding site [nucleotide binding]; other site 1300254006232 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1300254006233 RNA binding site [nucleotide binding]; other site 1300254006234 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 1300254006235 RNA binding site [nucleotide binding]; other site 1300254006236 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1300254006237 RNA binding site [nucleotide binding]; other site 1300254006238 cytidylate kinase; Provisional; Region: cmk; PRK00023 1300254006239 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 1300254006240 CMP-binding site; other site 1300254006241 The sites determining sugar specificity; other site 1300254006242 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1300254006243 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 1300254006244 hinge; other site 1300254006245 active site 1300254006246 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 1300254006247 homodimer interface [polypeptide binding]; other site 1300254006248 substrate-cofactor binding pocket; other site 1300254006249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006250 catalytic residue [active] 1300254006251 DNA gyrase subunit A; Validated; Region: PRK05560 1300254006252 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 1300254006253 CAP-like domain; other site 1300254006254 active site 1300254006255 primary dimer interface [polypeptide binding]; other site 1300254006256 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1300254006257 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1300254006258 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1300254006259 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1300254006260 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1300254006261 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1300254006262 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1300254006263 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 1300254006264 S-adenosylmethionine binding site [chemical binding]; other site 1300254006265 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1300254006266 ATP cone domain; Region: ATP-cone; pfam03477 1300254006267 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1300254006268 active site 1300254006269 dimer interface [polypeptide binding]; other site 1300254006270 catalytic residues [active] 1300254006271 effector binding site; other site 1300254006272 R2 peptide binding site; other site 1300254006273 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1300254006274 dimer interface [polypeptide binding]; other site 1300254006275 putative radical transfer pathway; other site 1300254006276 diiron center [ion binding]; other site 1300254006277 tyrosyl radical; other site 1300254006278 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1300254006279 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 1300254006280 catalytic loop [active] 1300254006281 iron binding site [ion binding]; other site 1300254006282 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1300254006283 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1300254006284 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 1300254006285 putative active site [active] 1300254006286 putative FMN binding site [chemical binding]; other site 1300254006287 putative substrate binding site [chemical binding]; other site 1300254006288 putative catalytic residue [active] 1300254006289 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1300254006290 GAF domain; Region: GAF; pfam01590 1300254006291 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1300254006292 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1300254006293 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254006294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254006295 metal binding site [ion binding]; metal-binding site 1300254006296 active site 1300254006297 I-site; other site 1300254006298 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 1300254006299 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1300254006300 EamA-like transporter family; Region: EamA; pfam00892 1300254006301 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 1300254006302 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1300254006303 putative active site [active] 1300254006304 putative NTP binding site [chemical binding]; other site 1300254006305 putative nucleic acid binding site [nucleotide binding]; other site 1300254006306 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1300254006307 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1300254006308 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1300254006309 ATP binding site [chemical binding]; other site 1300254006310 active site 1300254006311 substrate binding site [chemical binding]; other site 1300254006312 lipoprotein; Provisional; Region: PRK11679 1300254006313 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1300254006314 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1300254006315 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1300254006316 dimer interface [polypeptide binding]; other site 1300254006317 active site 1300254006318 catalytic residue [active] 1300254006319 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1300254006320 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1300254006321 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1300254006322 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 1300254006323 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1300254006324 catalytic triad [active] 1300254006325 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1300254006326 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1300254006327 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1300254006328 Peptidase family M48; Region: Peptidase_M48; pfam01435 1300254006329 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 1300254006330 TPR motif; other site 1300254006331 binding surface 1300254006332 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 1300254006333 binding surface 1300254006334 TPR motif; other site 1300254006335 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 1300254006336 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1300254006337 catalytic residues [active] 1300254006338 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 1300254006339 ArsC family; Region: ArsC; pfam03960 1300254006340 catalytic residues [active] 1300254006341 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1300254006342 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1300254006343 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1300254006344 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1300254006345 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 1300254006346 Walker A motif; other site 1300254006347 ATP binding site [chemical binding]; other site 1300254006348 Walker B motif; other site 1300254006349 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 1300254006350 arginine finger; other site 1300254006351 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1300254006352 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1300254006353 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1300254006354 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 1300254006355 dimerization interface [polypeptide binding]; other site 1300254006356 putative ATP binding site [chemical binding]; other site 1300254006357 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1300254006358 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1300254006359 active site 1300254006360 substrate binding site [chemical binding]; other site 1300254006361 cosubstrate binding site; other site 1300254006362 catalytic site [active] 1300254006363 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1300254006364 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1300254006365 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1300254006366 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1300254006367 active site 1300254006368 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1300254006369 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 1300254006370 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254006371 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 1300254006372 active site 1300254006373 phosphorylation site [posttranslational modification] 1300254006374 intermolecular recognition site; other site 1300254006375 dimerization interface [polypeptide binding]; other site 1300254006376 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 1300254006377 DNA binding residues [nucleotide binding] 1300254006378 dimerization interface [polypeptide binding]; other site 1300254006379 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 1300254006380 S-adenosylmethionine binding site [chemical binding]; other site 1300254006381 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1300254006382 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 1300254006383 S-adenosylmethionine binding site [chemical binding]; other site 1300254006384 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 1300254006385 active site 1300254006386 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 1300254006387 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 1300254006388 active site 1300254006389 motif I; other site 1300254006390 motif II; other site 1300254006391 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 1300254006392 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 1300254006393 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 1300254006394 trehalose synthase; Region: treS_nterm; TIGR02456 1300254006395 active site 1300254006396 homodimer interface [polypeptide binding]; other site 1300254006397 catalytic site [active] 1300254006398 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1300254006399 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 1300254006400 motif II; other site 1300254006401 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1300254006402 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 1300254006403 dimer interface [polypeptide binding]; other site 1300254006404 putative functional site; other site 1300254006405 putative MPT binding site; other site 1300254006406 multidrug efflux protein; Reviewed; Region: PRK01766 1300254006407 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1300254006408 cation binding site [ion binding]; other site 1300254006409 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1300254006410 Ligand binding site; other site 1300254006411 metal-binding site 1300254006412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1300254006413 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1300254006414 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 1300254006415 Walker A motif; other site 1300254006416 ATP binding site [chemical binding]; other site 1300254006417 Walker B motif; other site 1300254006418 arginine finger; other site 1300254006419 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1300254006420 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 1300254006421 dimer interface [polypeptide binding]; other site 1300254006422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006423 catalytic residue [active] 1300254006424 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 1300254006425 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1300254006426 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1300254006427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1300254006428 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1300254006429 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1300254006430 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1300254006431 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1300254006432 Predicted transcriptional regulator [Transcription]; Region: COG2944 1300254006433 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 1300254006434 salt bridge; other site 1300254006435 non-specific DNA binding site [nucleotide binding]; other site 1300254006436 sequence-specific DNA binding site [nucleotide binding]; other site 1300254006437 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1300254006438 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1300254006439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1300254006440 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1300254006441 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1300254006442 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1300254006443 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1300254006444 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1300254006445 enoyl-CoA hydratase; Provisional; Region: PRK06688 1300254006446 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 1300254006447 substrate binding site [chemical binding]; other site 1300254006448 oxyanion hole (OAH) forming residues; other site 1300254006449 trimer interface [polypeptide binding]; other site 1300254006450 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1300254006451 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1300254006452 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254006453 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 1300254006454 catalytic residues [active] 1300254006455 dimer interface [polypeptide binding]; other site 1300254006456 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1300254006457 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1300254006458 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1300254006459 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1300254006460 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1300254006461 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1300254006462 CHRD domain; Region: CHRD; pfam07452 1300254006463 CHRD domain; Region: CHRD; pfam07452 1300254006464 CHRD domain; Region: CHRD; pfam07452 1300254006465 hypothetical protein; Provisional; Region: PRK05939 1300254006466 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 1300254006467 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254006468 catalytic residue [active] 1300254006469 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1300254006470 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1300254006471 putative acyl-acceptor binding pocket; other site 1300254006472 NRDE protein; Region: NRDE; cl01315 1300254006473 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1300254006474 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 1300254006475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006476 homodimer interface [polypeptide binding]; other site 1300254006477 catalytic residue [active] 1300254006478 Peptidase S46; Region: Peptidase_S46; pfam10459 1300254006479 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1300254006480 short chain dehydrogenase; Provisional; Region: PRK07035 1300254006481 classical (c) SDRs; Region: SDR_c; cd05233 1300254006482 NAD(P) binding site [chemical binding]; other site 1300254006483 active site 1300254006484 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1300254006485 classical (c) SDRs; Region: SDR_c; cd05233 1300254006486 NAD(P) binding site [chemical binding]; other site 1300254006487 active site 1300254006488 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1300254006489 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1300254006490 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254006491 active site 1300254006492 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1300254006493 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1300254006494 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1300254006495 conserved cys residue [active] 1300254006496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1300254006497 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254006498 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 1300254006499 N-terminal plug; other site 1300254006500 ligand-binding site [chemical binding]; other site 1300254006501 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1300254006502 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254006503 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254006504 Protein export membrane protein; Region: SecD_SecF; cl14618 1300254006505 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254006506 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254006507 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 1300254006508 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1300254006509 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 1300254006510 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1300254006511 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 1300254006512 Ligand binding site [chemical binding]; other site 1300254006513 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1300254006514 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1300254006515 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254006516 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1300254006517 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1300254006518 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1300254006519 acyl-CoA esterase; Provisional; Region: PRK10673 1300254006520 PGAP1-like protein; Region: PGAP1; pfam07819 1300254006521 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1300254006522 flavodoxin FldA; Validated; Region: PRK09267 1300254006523 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1300254006524 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1300254006525 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 1300254006526 N-terminal plug; other site 1300254006527 ligand-binding site [chemical binding]; other site 1300254006528 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1300254006529 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 1300254006530 dimerization interface [polypeptide binding]; other site 1300254006531 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254006532 dimer interface [polypeptide binding]; other site 1300254006533 putative CheW interface [polypeptide binding]; other site 1300254006534 ferric uptake regulator; Provisional; Region: fur; PRK09462 1300254006535 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1300254006536 metal binding site 2 [ion binding]; metal-binding site 1300254006537 putative DNA binding helix; other site 1300254006538 metal binding site 1 [ion binding]; metal-binding site 1300254006539 dimer interface [polypeptide binding]; other site 1300254006540 structural Zn2+ binding site [ion binding]; other site 1300254006541 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1300254006542 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 1300254006543 homodimer interface [polypeptide binding]; other site 1300254006544 substrate-cofactor binding pocket; other site 1300254006545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006546 catalytic residue [active] 1300254006547 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1300254006548 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1300254006549 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1300254006550 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1300254006551 putative active site [active] 1300254006552 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1300254006553 S1 domain; Region: S1_2; pfam13509 1300254006554 OsmC-like protein; Region: OsmC; cl00767 1300254006555 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254006556 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254006557 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254006558 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1300254006559 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1300254006560 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1300254006561 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1300254006562 aminotransferase AlaT; Validated; Region: PRK09265 1300254006563 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 1300254006564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006565 homodimer interface [polypeptide binding]; other site 1300254006566 catalytic residue [active] 1300254006567 HD domain; Region: HD_3; cl17350 1300254006568 5'-nucleotidase; Provisional; Region: PRK03826 1300254006569 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254006570 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1300254006571 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254006572 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254006573 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1300254006574 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 1300254006575 catalytic loop [active] 1300254006576 iron binding site [ion binding]; other site 1300254006577 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1300254006578 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 1300254006579 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1300254006580 active site 1300254006581 catalytic tetrad [active] 1300254006582 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1300254006583 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1300254006584 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1300254006585 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1300254006586 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254006587 catalytic site [active] 1300254006588 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1300254006589 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1300254006590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1300254006591 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1300254006592 HD domain; Region: HD_3; cl17350 1300254006593 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1300254006594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1300254006595 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1300254006596 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1300254006597 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 1300254006598 Moco binding site; other site 1300254006599 metal coordination site [ion binding]; other site 1300254006600 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1300254006601 Predicted membrane protein [Function unknown]; Region: COG1238 1300254006602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1300254006603 SEC-C motif; Region: SEC-C; pfam02810 1300254006604 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1300254006605 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1300254006606 NAD(P) binding site [chemical binding]; other site 1300254006607 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 1300254006608 Phosphotransferase enzyme family; Region: APH; pfam01636 1300254006609 putative active site [active] 1300254006610 putative substrate binding site [chemical binding]; other site 1300254006611 ATP binding site [chemical binding]; other site 1300254006612 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1300254006613 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254006614 active site 1300254006615 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 1300254006616 catalytic core [active] 1300254006617 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 1300254006618 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254006619 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254006620 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 1300254006621 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1300254006622 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1300254006623 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1300254006624 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 1300254006625 catalytic residues [active] 1300254006626 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 1300254006627 oxyanion hole [active] 1300254006628 active site 1300254006629 catalytic triad [active] 1300254006630 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1300254006631 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 1300254006632 FeS/SAM binding site; other site 1300254006633 HemN C-terminal domain; Region: HemN_C; pfam06969 1300254006634 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 1300254006635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254006636 Walker A/P-loop; other site 1300254006637 ATP binding site [chemical binding]; other site 1300254006638 Q-loop/lid; other site 1300254006639 ABC transporter signature motif; other site 1300254006640 Walker B; other site 1300254006641 D-loop; other site 1300254006642 H-loop/switch region; other site 1300254006643 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 1300254006644 putative PBP binding loops; other site 1300254006645 ABC-ATPase subunit interface; other site 1300254006646 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1300254006647 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1300254006648 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1300254006649 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 1300254006650 MoaE homodimer interface [polypeptide binding]; other site 1300254006651 MoaD interaction [polypeptide binding]; other site 1300254006652 active site residues [active] 1300254006653 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1300254006654 MoaE interaction surface [polypeptide binding]; other site 1300254006655 MoeB interaction surface [polypeptide binding]; other site 1300254006656 thiocarboxylated glycine; other site 1300254006657 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 1300254006658 trimer interface [polypeptide binding]; other site 1300254006659 dimer interface [polypeptide binding]; other site 1300254006660 putative active site [active] 1300254006661 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 1300254006662 MPT binding site; other site 1300254006663 trimer interface [polypeptide binding]; other site 1300254006664 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1300254006665 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 1300254006666 ATP binding site [chemical binding]; other site 1300254006667 substrate interface [chemical binding]; other site 1300254006668 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1300254006669 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1300254006670 active site 1300254006671 Zn binding site [ion binding]; other site 1300254006672 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1300254006673 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 1300254006674 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 1300254006675 active site 1300254006676 aminotransferase; Validated; Region: PRK07337 1300254006677 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 1300254006678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006679 homodimer interface [polypeptide binding]; other site 1300254006680 catalytic residue [active] 1300254006681 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1300254006682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254006683 NAD(P) binding site [chemical binding]; other site 1300254006684 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1300254006685 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 1300254006686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254006687 homodimer interface [polypeptide binding]; other site 1300254006688 catalytic residue [active] 1300254006689 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1300254006690 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1300254006691 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 1300254006692 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional; Region: PRK08575 1300254006693 substrate binding site [chemical binding]; other site 1300254006694 THF binding site; other site 1300254006695 zinc-binding site [ion binding]; other site 1300254006696 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 1300254006697 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 1300254006698 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 1300254006699 active site 2 [active] 1300254006700 active site 1 [active] 1300254006701 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1300254006702 EamA-like transporter family; Region: EamA; pfam00892 1300254006703 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1300254006704 AAA domain; Region: AAA_30; pfam13604 1300254006705 Family description; Region: UvrD_C_2; pfam13538 1300254006706 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1300254006707 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1300254006708 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1300254006709 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1300254006710 dUTPase; Region: dUTPase_2; pfam08761 1300254006711 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 1300254006712 active site 1300254006713 homodimer interface [polypeptide binding]; other site 1300254006714 metal binding site [ion binding]; metal-binding site 1300254006715 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1300254006716 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1300254006717 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1300254006718 acyl-activating enzyme (AAE) consensus motif; other site 1300254006719 putative AMP binding site [chemical binding]; other site 1300254006720 putative active site [active] 1300254006721 putative CoA binding site [chemical binding]; other site 1300254006722 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1300254006723 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 1300254006724 PAS domain; Region: PAS_9; pfam13426 1300254006725 putative active site [active] 1300254006726 heme pocket [chemical binding]; other site 1300254006727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254006728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254006729 metal binding site [ion binding]; metal-binding site 1300254006730 active site 1300254006731 I-site; other site 1300254006732 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 1300254006733 conserved hypothetical protein; Region: MG423; TIGR00649 1300254006734 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1300254006735 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1300254006736 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1300254006737 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1300254006738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254006739 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 1300254006740 dimerization interface [polypeptide binding]; other site 1300254006741 Protein of unknown function, DUF; Region: DUF413; pfam04219 1300254006742 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 1300254006743 dimerization interface [polypeptide binding]; other site 1300254006744 putative DNA binding site [nucleotide binding]; other site 1300254006745 putative Zn2+ binding site [ion binding]; other site 1300254006746 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 1300254006747 active site residue [active] 1300254006748 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254006749 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254006750 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 1300254006751 dimerization interface [polypeptide binding]; other site 1300254006752 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1300254006753 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1300254006754 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 1300254006755 active site 1300254006756 phosphorylation site [posttranslational modification] 1300254006757 intermolecular recognition site; other site 1300254006758 dimerization interface [polypeptide binding]; other site 1300254006759 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 1300254006760 Walker A motif; other site 1300254006761 ATP binding site [chemical binding]; other site 1300254006762 Walker B motif; other site 1300254006763 arginine finger; other site 1300254006764 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1300254006765 CHASE3 domain; Region: CHASE3; pfam05227 1300254006766 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 1300254006767 dimer interface [polypeptide binding]; other site 1300254006768 phosphorylation site [posttranslational modification] 1300254006769 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 1300254006770 ATP binding site [chemical binding]; other site 1300254006771 Mg2+ binding site [ion binding]; other site 1300254006772 G-X-G motif; other site 1300254006773 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254006774 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 1300254006775 active site 1300254006776 phosphorylation site [posttranslational modification] 1300254006777 intermolecular recognition site; other site 1300254006778 dimerization interface [polypeptide binding]; other site 1300254006779 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254006780 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 1300254006781 active site 1300254006782 phosphorylation site [posttranslational modification] 1300254006783 intermolecular recognition site; other site 1300254006784 dimerization interface [polypeptide binding]; other site 1300254006785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254006786 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 1300254006787 dimer interface [polypeptide binding]; other site 1300254006788 phosphorylation site [posttranslational modification] 1300254006789 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 1300254006790 ATP binding site [chemical binding]; other site 1300254006791 Mg2+ binding site [ion binding]; other site 1300254006792 G-X-G motif; other site 1300254006793 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254006794 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 1300254006795 active site 1300254006796 phosphorylation site [posttranslational modification] 1300254006797 intermolecular recognition site; other site 1300254006798 dimerization interface [polypeptide binding]; other site 1300254006799 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254006800 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 1300254006801 active site 1300254006802 phosphorylation site [posttranslational modification] 1300254006803 intermolecular recognition site; other site 1300254006804 dimerization interface [polypeptide binding]; other site 1300254006805 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1300254006806 HD domain; Region: HD_3; cl17350 1300254006807 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1300254006808 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1300254006809 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 1300254006810 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1300254006811 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1300254006812 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1300254006813 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1300254006814 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1300254006815 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1300254006816 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1300254006817 putative active site [active] 1300254006818 Zn binding site [ion binding]; other site 1300254006819 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1300254006820 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1300254006821 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1300254006822 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 1300254006823 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1300254006824 SelR domain; Region: SelR; pfam01641 1300254006825 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1300254006826 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1300254006827 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1300254006828 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1300254006829 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 1300254006830 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1300254006831 active site 1300254006832 catalytic site [active] 1300254006833 glycogen branching enzyme; Provisional; Region: PRK05402 1300254006834 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1300254006835 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1300254006836 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1300254006837 active site 1300254006838 catalytic site [active] 1300254006839 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1300254006840 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1300254006841 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1300254006842 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1300254006843 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1300254006844 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1300254006845 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1300254006846 active site 1300254006847 phosphate binding residues; other site 1300254006848 catalytic residues [active] 1300254006849 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1300254006850 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1300254006851 active site 1300254006852 intersubunit interface [polypeptide binding]; other site 1300254006853 catalytic residue [active] 1300254006854 glucokinase; Provisional; Region: glk; PRK00292 1300254006855 glucokinase, proteobacterial type; Region: glk; TIGR00749 1300254006856 phosphogluconate dehydratase; Validated; Region: PRK09054 1300254006857 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1300254006858 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1300254006859 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 1300254006860 putative active site [active] 1300254006861 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1300254006862 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1300254006863 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1300254006864 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1300254006865 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1300254006866 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 1300254006867 putative active site [active] 1300254006868 pyruvate kinase; Provisional; Region: PRK05826 1300254006869 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 1300254006870 domain interfaces; other site 1300254006871 active site 1300254006872 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1300254006873 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 1300254006874 active site 1300254006875 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1300254006876 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1300254006877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1300254006878 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1300254006879 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254006880 active site 1300254006881 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1300254006882 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 1300254006883 Ligand binding site [chemical binding]; other site 1300254006884 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1300254006885 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1300254006886 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 1300254006887 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1300254006888 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1300254006889 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1300254006890 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1300254006891 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 1300254006892 transmembrane helices; other site 1300254006893 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 1300254006894 Putative transposase; Region: Y2_Tnp; pfam04986 1300254006895 potential frameshift: common BLAST hit: gi|410863656|ref|YP_006978890.1| keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase 1300254006896 glucokinase; Provisional; Region: glk; PRK00292 1300254006897 glucokinase, proteobacterial type; Region: glk; TIGR00749 1300254006898 phosphogluconate dehydratase; Validated; Region: PRK09054 1300254006899 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1300254006900 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1300254006901 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 1300254006902 putative active site [active] 1300254006903 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1300254006904 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1300254006905 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1300254006906 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1300254006907 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1300254006908 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 1300254006909 putative active site [active] 1300254006910 pyruvate kinase; Provisional; Region: PRK05826 1300254006911 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 1300254006912 domain interfaces; other site 1300254006913 active site 1300254006914 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1300254006915 potential frameshift: common BLAST hit: gi|332141742|ref|YP_004427480.1| putative alginate lyase 1300254006916 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1300254006917 BON domain; Region: BON; pfam04972 1300254006918 BON domain; Region: BON; pfam04972 1300254006919 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1300254006920 putative catalytic site [active] 1300254006921 putative metal binding site [ion binding]; other site 1300254006922 putative phosphate binding site [ion binding]; other site 1300254006923 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 1300254006924 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 1300254006925 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 1300254006926 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1300254006927 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1300254006928 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1300254006929 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1300254006930 potential frameshift: common BLAST hit: gi|332141752|ref|YP_004427490.1| two-component hybrid sensor and regulator 1300254006931 WYL domain; Region: WYL; pfam13280 1300254006932 PEP-CTERM motif; Region: VPEP; pfam07589 1300254006933 Endonuclease I; Region: Endonuclease_1; pfam04231 1300254006934 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1300254006935 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 1300254006936 generic binding surface I; other site 1300254006937 generic binding surface II; other site 1300254006938 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1300254006939 putative active site [active] 1300254006940 putative catalytic site [active] 1300254006941 putative Mg binding site IVb [ion binding]; other site 1300254006942 putative phosphate binding site [ion binding]; other site 1300254006943 putative DNA binding site [nucleotide binding]; other site 1300254006944 putative Mg binding site IVa [ion binding]; other site 1300254006945 HAMP domain; Region: HAMP; pfam00672 1300254006946 dimerization interface [polypeptide binding]; other site 1300254006947 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254006948 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254006949 dimer interface [polypeptide binding]; other site 1300254006950 putative CheW interface [polypeptide binding]; other site 1300254006951 DNA topoisomerase I; Validated; Region: PRK07219 1300254006952 PBP superfamily domain; Region: PBP_like_2; cl17296 1300254006953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254006954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254006955 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 1300254006956 dimerization interface [polypeptide binding]; other site 1300254006957 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1300254006958 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1300254006959 dimer interface [polypeptide binding]; other site 1300254006960 active site 1300254006961 metal binding site [ion binding]; metal-binding site 1300254006962 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254006963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254006964 metal binding site [ion binding]; metal-binding site 1300254006965 active site 1300254006966 I-site; other site 1300254006967 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 1300254006968 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 1300254006969 putative FMN binding site [chemical binding]; other site 1300254006970 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 1300254006971 active site 1300254006972 phosphorylation site [posttranslational modification] 1300254006973 intermolecular recognition site; other site 1300254006974 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1300254006975 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1300254006976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1300254006977 Zn2+ binding site [ion binding]; other site 1300254006978 Mg2+ binding site [ion binding]; other site 1300254006979 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1300254006980 GAF domain; Region: GAF; pfam01590 1300254006981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254006982 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 1300254006983 dimer interface [polypeptide binding]; other site 1300254006984 phosphorylation site [posttranslational modification] 1300254006985 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 1300254006986 ATP binding site [chemical binding]; other site 1300254006987 Mg2+ binding site [ion binding]; other site 1300254006988 G-X-G motif; other site 1300254006989 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254006990 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1300254006991 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 1300254006992 transmembrane helices; other site 1300254006993 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1300254006994 trimer interface [polypeptide binding]; other site 1300254006995 active site 1300254006996 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1300254006997 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 1300254006998 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1300254006999 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1300254007000 active site 1300254007001 HIGH motif; other site 1300254007002 KMSKS motif; other site 1300254007003 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1300254007004 anticodon binding site; other site 1300254007005 tRNA binding surface [nucleotide binding]; other site 1300254007006 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 1300254007007 dimer interface [polypeptide binding]; other site 1300254007008 putative tRNA-binding site [nucleotide binding]; other site 1300254007009 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254007010 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254007011 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1300254007012 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1300254007013 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1300254007014 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 1300254007015 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254007016 catalytic residue [active] 1300254007017 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1300254007018 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1300254007019 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1300254007020 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1300254007021 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1300254007022 active site 1300254007023 HIGH motif; other site 1300254007024 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1300254007025 KMSKS motif; other site 1300254007026 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1300254007027 tRNA binding surface [nucleotide binding]; other site 1300254007028 anticodon binding site; other site 1300254007029 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 1300254007030 substrate binding site [chemical binding]; other site 1300254007031 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1300254007032 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1300254007033 putative active site [active] 1300254007034 putative metal binding site [ion binding]; other site 1300254007035 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 1300254007036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1300254007037 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 1300254007038 sucrose phosphorylase; Provisional; Region: PRK13840 1300254007039 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 1300254007040 active site 1300254007041 homodimer interface [polypeptide binding]; other site 1300254007042 catalytic site [active] 1300254007043 Predicted transcriptional regulators [Transcription]; Region: COG1733 1300254007044 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 1300254007045 dimerization interface [polypeptide binding]; other site 1300254007046 putative DNA binding site [nucleotide binding]; other site 1300254007047 putative Zn2+ binding site [ion binding]; other site 1300254007048 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1300254007049 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1300254007050 NADP binding site [chemical binding]; other site 1300254007051 dimer interface [polypeptide binding]; other site 1300254007052 hydroperoxidase II; Provisional; Region: katE; PRK11249 1300254007053 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1300254007054 tetramer interface [polypeptide binding]; other site 1300254007055 heme binding pocket [chemical binding]; other site 1300254007056 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1300254007057 domain interactions; other site 1300254007058 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1300254007059 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1300254007060 putative NAD(P) binding site [chemical binding]; other site 1300254007061 dimer interface [polypeptide binding]; other site 1300254007062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254007063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254007064 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 1300254007065 putative effector binding pocket; other site 1300254007066 dimerization interface [polypeptide binding]; other site 1300254007067 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1300254007068 Nidogen-like; Region: NIDO; pfam06119 1300254007069 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 1300254007070 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1300254007071 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1300254007072 Protein of unknown function, DUF479; Region: DUF479; cl01203 1300254007073 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1300254007074 active site 1300254007075 dinuclear metal binding site [ion binding]; other site 1300254007076 dimerization interface [polypeptide binding]; other site 1300254007077 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1300254007078 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1300254007079 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 1300254007080 active site 1300254007081 tetramer interface [polypeptide binding]; other site 1300254007082 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1300254007083 active site 1300254007084 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1300254007085 Colicin V production protein; Region: Colicin_V; cl00567 1300254007086 cell division protein DedD; Provisional; Region: PRK11633 1300254007087 Sporulation related domain; Region: SPOR; pfam05036 1300254007088 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1300254007089 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1300254007090 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1300254007091 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1300254007092 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1300254007093 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1300254007094 dimerization interface 3.5A [polypeptide binding]; other site 1300254007095 active site 1300254007096 FimV N-terminal domain; Region: FimV_core; TIGR03505 1300254007097 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1300254007098 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1300254007099 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1300254007100 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1300254007101 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1300254007102 ligand binding site [chemical binding]; other site 1300254007103 NAD binding site [chemical binding]; other site 1300254007104 catalytic site [active] 1300254007105 homodimer interface [polypeptide binding]; other site 1300254007106 aldolase II superfamily protein; Provisional; Region: PRK07044 1300254007107 intersubunit interface [polypeptide binding]; other site 1300254007108 active site 1300254007109 Zn2+ binding site [ion binding]; other site 1300254007110 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1300254007111 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 1300254007112 ligand binding site [chemical binding]; other site 1300254007113 flexible hinge region; other site 1300254007114 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1300254007115 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1300254007116 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1300254007117 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1300254007118 Beta-lactamase; Region: Beta-lactamase; pfam00144 1300254007119 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1300254007120 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 1300254007121 dimer interface [polypeptide binding]; other site 1300254007122 active site 1300254007123 Kelch motif; Region: Kelch_6; pfam13964 1300254007124 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1300254007125 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1300254007126 Predicted integral membrane protein [Function unknown]; Region: COG5616 1300254007127 Predicted integral membrane protein [Function unknown]; Region: COG5616 1300254007128 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1300254007129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254007130 Coenzyme A binding pocket [chemical binding]; other site 1300254007131 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 1300254007132 active site 1300254007133 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1300254007134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254007135 Coenzyme A binding pocket [chemical binding]; other site 1300254007136 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1300254007137 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1300254007138 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1300254007139 DNA binding residues [nucleotide binding] 1300254007140 putative dimer interface [polypeptide binding]; other site 1300254007141 putative metal binding residues [ion binding]; other site 1300254007142 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 1300254007143 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1300254007144 putative NAD(P) binding site [chemical binding]; other site 1300254007145 potential frameshift: common BLAST hit: gi|256823024|ref|YP_003146987.1| peptidase M15A 1300254007146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1300254007147 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1300254007148 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1300254007149 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1300254007150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254007151 Walker A/P-loop; other site 1300254007152 ATP binding site [chemical binding]; other site 1300254007153 ABC transporter; Region: ABC_tran; pfam00005 1300254007154 Q-loop/lid; other site 1300254007155 ABC transporter signature motif; other site 1300254007156 Walker B; other site 1300254007157 D-loop; other site 1300254007158 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 1300254007159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254007160 Walker A/P-loop; other site 1300254007161 ATP binding site [chemical binding]; other site 1300254007162 Q-loop/lid; other site 1300254007163 ABC transporter signature motif; other site 1300254007164 Walker B; other site 1300254007165 D-loop; other site 1300254007166 H-loop/switch region; other site 1300254007167 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1300254007168 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1300254007169 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1300254007170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254007171 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 1300254007172 dimer interface [polypeptide binding]; other site 1300254007173 phosphorylation site [posttranslational modification] 1300254007174 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 1300254007175 ATP binding site [chemical binding]; other site 1300254007176 Mg2+ binding site [ion binding]; other site 1300254007177 G-X-G motif; other site 1300254007178 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 1300254007179 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254007180 active site 1300254007181 phosphorylation site [posttranslational modification] 1300254007182 intermolecular recognition site; other site 1300254007183 dimerization interface [polypeptide binding]; other site 1300254007184 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254007185 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 1300254007186 active site 1300254007187 phosphorylation site [posttranslational modification] 1300254007188 intermolecular recognition site; other site 1300254007189 dimerization interface [polypeptide binding]; other site 1300254007190 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1300254007191 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1300254007192 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254007193 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254007194 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1300254007195 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254007196 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254007197 YfcL protein; Region: YfcL; pfam08891 1300254007198 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1300254007199 Protein of unknown function, DUF462; Region: DUF462; pfam04315 1300254007200 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 1300254007201 active site 1300254007202 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1300254007203 catalytic motif [active] 1300254007204 Catalytic residue [active] 1300254007205 HopJ type III effector protein; Region: HopJ; pfam08888 1300254007206 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1300254007207 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 1300254007208 active site 1300254007209 FMN binding site [chemical binding]; other site 1300254007210 2,4-decadienoyl-CoA binding site; other site 1300254007211 catalytic residue [active] 1300254007212 4Fe-4S cluster binding site [ion binding]; other site 1300254007213 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1300254007214 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254007215 enoyl-CoA hydratase; Provisional; Region: PRK06142 1300254007216 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 1300254007217 substrate binding site [chemical binding]; other site 1300254007218 oxyanion hole (OAH) forming residues; other site 1300254007219 trimer interface [polypeptide binding]; other site 1300254007220 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1300254007221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254007222 WHG domain; Region: WHG; pfam13305 1300254007223 choline dehydrogenase; Validated; Region: PRK02106 1300254007224 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1300254007225 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1300254007226 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1300254007227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1300254007228 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254007229 Bacterial transcriptional repressor; Region: TetR; pfam13972 1300254007230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1300254007231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1300254007232 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 1300254007233 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 1300254007234 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1300254007235 active site 1300254007236 nucleophile elbow; other site 1300254007237 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1300254007238 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1300254007239 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254007240 fatty acid metabolism regulator; Provisional; Region: PRK04984 1300254007241 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1300254007242 DNA-binding site [nucleotide binding]; DNA binding site 1300254007243 FadR C-terminal domain; Region: FadR_C; pfam07840 1300254007244 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1300254007245 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1300254007246 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1300254007247 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1300254007248 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1300254007249 hypothetical protein; Provisional; Region: PRK05170 1300254007250 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1300254007251 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 1300254007252 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1300254007253 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 1300254007254 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1300254007255 YcgL domain; Region: YcgL; pfam05166 1300254007256 ribonuclease D; Provisional; Region: PRK10829 1300254007257 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1300254007258 catalytic site [active] 1300254007259 putative active site [active] 1300254007260 putative substrate binding site [chemical binding]; other site 1300254007261 HRDC domain; Region: HRDC; pfam00570 1300254007262 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1300254007263 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1300254007264 acyl-activating enzyme (AAE) consensus motif; other site 1300254007265 putative AMP binding site [chemical binding]; other site 1300254007266 putative active site [active] 1300254007267 putative CoA binding site [chemical binding]; other site 1300254007268 PGAP1-like protein; Region: PGAP1; pfam07819 1300254007269 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254007270 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 1300254007271 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1300254007272 Glycoprotease family; Region: Peptidase_M22; pfam00814 1300254007273 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1300254007274 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1300254007275 DEAD_2; Region: DEAD_2; pfam06733 1300254007276 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1300254007277 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 1300254007278 Ca2+ binding site [ion binding]; other site 1300254007279 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 1300254007280 active site 1300254007281 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1300254007282 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 1300254007283 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1300254007284 active site 1300254007285 catalytic site [active] 1300254007286 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1300254007287 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254007288 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 1300254007289 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1300254007290 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1300254007291 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 1300254007292 N-terminal plug; other site 1300254007293 ligand-binding site [chemical binding]; other site 1300254007294 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1300254007295 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1300254007296 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1300254007297 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 1300254007298 histidinol dehydrogenase; Region: hisD; TIGR00069 1300254007299 NAD binding site [chemical binding]; other site 1300254007300 dimerization interface [polypeptide binding]; other site 1300254007301 product binding site; other site 1300254007302 substrate binding site [chemical binding]; other site 1300254007303 zinc binding site [ion binding]; other site 1300254007304 catalytic residues [active] 1300254007305 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1300254007306 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 1300254007307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254007308 homodimer interface [polypeptide binding]; other site 1300254007309 catalytic residue [active] 1300254007310 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1300254007311 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 1300254007312 active site 1300254007313 motif I; other site 1300254007314 motif II; other site 1300254007315 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1300254007316 putative active site pocket [active] 1300254007317 4-fold oligomerization interface [polypeptide binding]; other site 1300254007318 metal binding residues [ion binding]; metal-binding site 1300254007319 3-fold/trimer interface [polypeptide binding]; other site 1300254007320 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1300254007321 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1300254007322 putative active site [active] 1300254007323 oxyanion strand; other site 1300254007324 catalytic triad [active] 1300254007325 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 1300254007326 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1300254007327 catalytic residues [active] 1300254007328 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 1300254007329 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1300254007330 substrate binding site [chemical binding]; other site 1300254007331 glutamase interaction surface [polypeptide binding]; other site 1300254007332 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1300254007333 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1300254007334 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 1300254007335 metal binding site [ion binding]; metal-binding site 1300254007336 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1300254007337 Cache domain; Region: Cache_1; pfam02743 1300254007338 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1300254007339 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 1300254007340 dimerization interface [polypeptide binding]; other site 1300254007341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254007342 dimer interface [polypeptide binding]; other site 1300254007343 putative CheW interface [polypeptide binding]; other site 1300254007344 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1300254007345 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254007346 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254007347 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1300254007348 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254007349 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1300254007350 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1300254007351 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254007352 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 1300254007353 N-terminal plug; other site 1300254007354 ligand-binding site [chemical binding]; other site 1300254007355 MAPEG family; Region: MAPEG; cl09190 1300254007356 adenylate kinase; Reviewed; Region: adk; PRK00279 1300254007357 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 1300254007358 AMP-binding site [chemical binding]; other site 1300254007359 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1300254007360 heat shock protein 90; Provisional; Region: PRK05218 1300254007361 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 1300254007362 ATP binding site [chemical binding]; other site 1300254007363 Mg2+ binding site [ion binding]; other site 1300254007364 G-X-G motif; other site 1300254007365 recombination protein RecR; Reviewed; Region: recR; PRK00076 1300254007366 RecR protein; Region: RecR; pfam02132 1300254007367 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 1300254007368 putative active site [active] 1300254007369 putative metal-binding site [ion binding]; other site 1300254007370 tetramer interface [polypeptide binding]; other site 1300254007371 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1300254007372 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 1300254007373 putative active site [active] 1300254007374 heme pocket [chemical binding]; other site 1300254007375 von Willebrand factor type D domain; Region: VWD; cl02516 1300254007376 GAF domain; Region: GAF; pfam01590 1300254007377 Phytochrome region; Region: PHY; pfam00360 1300254007378 HWE histidine kinase; Region: HWE_HK; pfam07536 1300254007379 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 1300254007380 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254007381 active site 1300254007382 phosphorylation site [posttranslational modification] 1300254007383 intermolecular recognition site; other site 1300254007384 dimerization interface [polypeptide binding]; other site 1300254007385 hypothetical protein; Validated; Region: PRK00153 1300254007386 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1300254007387 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 1300254007388 Walker A motif; other site 1300254007389 ATP binding site [chemical binding]; other site 1300254007390 Walker B motif; other site 1300254007391 arginine finger; other site 1300254007392 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1300254007393 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1300254007394 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1300254007395 active site 1300254007396 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1300254007397 hypothetical protein; Provisional; Region: PRK05409 1300254007398 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 1300254007399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1300254007400 DNA binding site [nucleotide binding] 1300254007401 AAA ATPase domain; Region: AAA_16; pfam13191 1300254007402 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 1300254007403 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 1300254007404 PAS domain; Region: PAS_9; pfam13426 1300254007405 putative active site [active] 1300254007406 heme pocket [chemical binding]; other site 1300254007407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254007408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254007409 metal binding site [ion binding]; metal-binding site 1300254007410 active site 1300254007411 I-site; other site 1300254007412 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1300254007413 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1300254007414 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1300254007415 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 1300254007416 binding surface 1300254007417 TPR motif; other site 1300254007418 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 1300254007419 TPR motif; other site 1300254007420 binding surface 1300254007421 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 1300254007422 binding surface 1300254007423 TPR motif; other site 1300254007424 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 1300254007425 TPR motif; other site 1300254007426 binding surface 1300254007427 D-lactate dehydrogenase; Provisional; Region: PRK11183 1300254007428 FAD binding domain; Region: FAD_binding_4; pfam01565 1300254007429 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1300254007430 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1300254007431 Clp amino terminal domain; Region: Clp_N; pfam02861 1300254007432 Clp amino terminal domain; Region: Clp_N; pfam02861 1300254007433 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 1300254007434 Walker A motif; other site 1300254007435 ATP binding site [chemical binding]; other site 1300254007436 Walker B motif; other site 1300254007437 arginine finger; other site 1300254007438 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 1300254007439 Walker A motif; other site 1300254007440 ATP binding site [chemical binding]; other site 1300254007441 Walker B motif; other site 1300254007442 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1300254007443 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1300254007444 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1300254007445 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1300254007446 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 1300254007447 RNA binding surface [nucleotide binding]; other site 1300254007448 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1300254007449 active site 1300254007450 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1300254007451 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 1300254007452 Putative zinc-finger; Region: zf-HC2; pfam13490 1300254007453 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1300254007454 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1300254007455 RNA polymerase sigma factor; Provisional; Region: PRK11924 1300254007456 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254007457 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 1300254007458 DNA binding residues [nucleotide binding] 1300254007459 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1300254007460 SnoaL-like domain; Region: SnoaL_2; pfam12680 1300254007461 short chain dehydrogenase; Provisional; Region: PRK06101 1300254007462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254007463 NAD(P) binding site [chemical binding]; other site 1300254007464 active site 1300254007465 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1300254007466 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1300254007467 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1300254007468 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1300254007469 Histone methylation protein DOT1; Region: DOT1; pfam08123 1300254007470 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 1300254007471 S-adenosylmethionine binding site [chemical binding]; other site 1300254007472 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 1300254007473 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1300254007474 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1300254007475 ligand binding site [chemical binding]; other site 1300254007476 flagellar motor protein PomA; Reviewed; Region: PRK08990 1300254007477 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1300254007478 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1300254007479 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1300254007480 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1300254007481 substrate binding pocket [chemical binding]; other site 1300254007482 chain length determination region; other site 1300254007483 substrate-Mg2+ binding site; other site 1300254007484 catalytic residues [active] 1300254007485 aspartate-rich region 1; other site 1300254007486 active site lid residues [active] 1300254007487 aspartate-rich region 2; other site 1300254007488 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1300254007489 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 1300254007490 TPP-binding site; other site 1300254007491 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 1300254007492 PYR/PP interface [polypeptide binding]; other site 1300254007493 dimer interface [polypeptide binding]; other site 1300254007494 TPP binding site [chemical binding]; other site 1300254007495 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1300254007496 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1300254007497 tetramer interfaces [polypeptide binding]; other site 1300254007498 binuclear metal-binding site [ion binding]; other site 1300254007499 thiamine monophosphate kinase; Provisional; Region: PRK05731 1300254007500 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 1300254007501 ATP binding site [chemical binding]; other site 1300254007502 dimerization interface [polypeptide binding]; other site 1300254007503 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 1300254007504 putative RNA binding site [nucleotide binding]; other site 1300254007505 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 1300254007506 homopentamer interface [polypeptide binding]; other site 1300254007507 active site 1300254007508 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1300254007509 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1300254007510 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1300254007511 dimerization interface [polypeptide binding]; other site 1300254007512 active site 1300254007513 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1300254007514 Lumazine binding domain; Region: Lum_binding; pfam00677 1300254007515 Lumazine binding domain; Region: Lum_binding; pfam00677 1300254007516 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1300254007517 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 1300254007518 catalytic motif [active] 1300254007519 Zn binding site [ion binding]; other site 1300254007520 RibD C-terminal domain; Region: RibD_C; cl17279 1300254007521 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1300254007522 ATP cone domain; Region: ATP-cone; pfam03477 1300254007523 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1300254007524 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 1300254007525 dimer interface [polypeptide binding]; other site 1300254007526 active site 1300254007527 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1300254007528 folate binding site [chemical binding]; other site 1300254007529 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1300254007530 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1300254007531 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 1300254007532 trimer interface [polypeptide binding]; other site 1300254007533 active site 1300254007534 UDP-GlcNAc binding site [chemical binding]; other site 1300254007535 lipid binding site [chemical binding]; lipid-binding site 1300254007536 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1300254007537 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254007538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254007539 ABC transporter; Region: ABC_tran_2; pfam12848 1300254007540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254007541 DNA repair protein RadA; Provisional; Region: PRK11823 1300254007542 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 1300254007543 Walker A motif/ATP binding site; other site 1300254007544 ATP binding site [chemical binding]; other site 1300254007545 Walker B motif; other site 1300254007546 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1300254007547 PilZ domain; Region: PilZ; pfam07238 1300254007548 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1300254007549 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 1300254007550 motif II; other site 1300254007551 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1300254007552 active site 1300254007553 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1300254007554 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1300254007555 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1300254007556 GTPase Era; Reviewed; Region: era; PRK00089 1300254007557 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1300254007558 G1 box; other site 1300254007559 GTP/Mg2+ binding site [chemical binding]; other site 1300254007560 Switch I region; other site 1300254007561 G2 box; other site 1300254007562 Switch II region; other site 1300254007563 G3 box; other site 1300254007564 G4 box; other site 1300254007565 G5 box; other site 1300254007566 KH domain; Region: KH_2; pfam07650 1300254007567 ribonuclease III; Reviewed; Region: rnc; PRK00102 1300254007568 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 1300254007569 dimerization interface [polypeptide binding]; other site 1300254007570 active site 1300254007571 metal binding site [ion binding]; metal-binding site 1300254007572 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 1300254007573 dsRNA binding site [nucleotide binding]; other site 1300254007574 signal peptidase I; Provisional; Region: PRK10861 1300254007575 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 1300254007576 Catalytic site [active] 1300254007577 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 1300254007578 GTP-binding protein LepA; Provisional; Region: PRK05433 1300254007579 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1300254007580 G1 box; other site 1300254007581 putative GEF interaction site [polypeptide binding]; other site 1300254007582 GTP/Mg2+ binding site [chemical binding]; other site 1300254007583 Switch I region; other site 1300254007584 G2 box; other site 1300254007585 G3 box; other site 1300254007586 Switch II region; other site 1300254007587 G4 box; other site 1300254007588 G5 box; other site 1300254007589 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 1300254007590 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 1300254007591 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1300254007592 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1300254007593 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1300254007594 MucB/RseB family; Region: MucB_RseB; pfam03888 1300254007595 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1300254007596 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1300254007597 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1300254007598 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254007599 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 1300254007600 DNA binding residues [nucleotide binding] 1300254007601 L-aspartate oxidase; Provisional; Region: PRK09077 1300254007602 L-aspartate oxidase; Provisional; Region: PRK06175 1300254007603 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1300254007604 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 1300254007605 active site 2 [active] 1300254007606 active site 1 [active] 1300254007607 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1300254007608 putative global regulator; Reviewed; Region: PRK09559 1300254007609 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1300254007610 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1300254007611 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1300254007612 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1300254007613 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1300254007614 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1300254007615 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 1300254007616 homodimer interface [polypeptide binding]; other site 1300254007617 NAD binding pocket [chemical binding]; other site 1300254007618 ATP binding pocket [chemical binding]; other site 1300254007619 Mg binding site [ion binding]; other site 1300254007620 active-site loop [active] 1300254007621 Type II transport protein GspH; Region: GspH; pfam12019 1300254007622 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1300254007623 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1300254007624 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1300254007625 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1300254007626 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1300254007627 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1300254007628 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1300254007629 PilX N-terminal; Region: PilX_N; pfam14341 1300254007630 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1300254007631 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1300254007632 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1300254007633 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1300254007634 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1300254007635 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1300254007636 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1300254007637 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1300254007638 lipoprotein signal peptidase; Provisional; Region: PRK14787 1300254007639 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1300254007640 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1300254007641 active site 1300254007642 HIGH motif; other site 1300254007643 nucleotide binding site [chemical binding]; other site 1300254007644 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1300254007645 active site 1300254007646 KMSKS motif; other site 1300254007647 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1300254007648 tRNA binding surface [nucleotide binding]; other site 1300254007649 anticodon binding site; other site 1300254007650 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1300254007651 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1300254007652 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1300254007653 active site 1300254007654 Riboflavin kinase; Region: Flavokinase; smart00904 1300254007655 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1300254007656 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1300254007657 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1300254007658 short chain dehydrogenase; Provisional; Region: PRK08251 1300254007659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254007660 NAD(P) binding site [chemical binding]; other site 1300254007661 active site 1300254007662 Phosphotransferase enzyme family; Region: APH; pfam01636 1300254007663 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 1300254007664 putative active site [active] 1300254007665 putative substrate binding site [chemical binding]; other site 1300254007666 ATP binding site [chemical binding]; other site 1300254007667 short chain dehydrogenase; Provisional; Region: PRK05650 1300254007668 classical (c) SDRs; Region: SDR_c; cd05233 1300254007669 NAD(P) binding site [chemical binding]; other site 1300254007670 active site 1300254007671 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1300254007672 Sodium Bile acid symporter family; Region: SBF; pfam01758 1300254007673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254007674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254007675 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 1300254007676 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1300254007677 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1300254007678 putative active site [active] 1300254007679 putative metal binding site [ion binding]; other site 1300254007680 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 1300254007681 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1300254007682 putative acyl-acceptor binding pocket; other site 1300254007683 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1300254007684 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1300254007685 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1300254007686 metal binding site [ion binding]; metal-binding site 1300254007687 dimer interface [polypeptide binding]; other site 1300254007688 periplasmic folding chaperone; Provisional; Region: PRK10788 1300254007689 SurA N-terminal domain; Region: SurA_N_3; cl07813 1300254007690 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1300254007691 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 1300254007692 IHF dimer interface [polypeptide binding]; other site 1300254007693 IHF - DNA interface [nucleotide binding]; other site 1300254007694 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1300254007695 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1300254007696 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1300254007697 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 1300254007698 Walker A motif; other site 1300254007699 ATP binding site [chemical binding]; other site 1300254007700 Walker B motif; other site 1300254007701 arginine finger; other site 1300254007702 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1300254007703 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1300254007704 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1300254007705 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 1300254007706 Walker A motif; other site 1300254007707 ATP binding site [chemical binding]; other site 1300254007708 Walker B motif; other site 1300254007709 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1300254007710 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1300254007711 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1300254007712 oligomer interface [polypeptide binding]; other site 1300254007713 active site residues [active] 1300254007714 trigger factor; Provisional; Region: tig; PRK01490 1300254007715 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1300254007716 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1300254007717 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1300254007718 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1300254007719 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1300254007720 homodimer interface [polypeptide binding]; other site 1300254007721 NADP binding site [chemical binding]; other site 1300254007722 substrate binding site [chemical binding]; other site 1300254007723 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1300254007724 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1300254007725 homodimer interaction site [polypeptide binding]; other site 1300254007726 cofactor binding site; other site 1300254007727 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1300254007728 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 1300254007729 dimer interface [polypeptide binding]; other site 1300254007730 motif 1; other site 1300254007731 active site 1300254007732 motif 2; other site 1300254007733 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 1300254007734 putative deacylase active site [active] 1300254007735 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 1300254007736 active site 1300254007737 motif 3; other site 1300254007738 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 1300254007739 anticodon binding site; other site 1300254007740 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1300254007741 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 1300254007742 dimerization interface [polypeptide binding]; other site 1300254007743 substrate binding site [chemical binding]; other site 1300254007744 active site 1300254007745 calcium binding site [ion binding]; other site 1300254007746 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1300254007747 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1300254007748 putative active site [active] 1300254007749 Zn binding site [ion binding]; other site 1300254007750 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1300254007751 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254007752 dimer interface [polypeptide binding]; other site 1300254007753 putative CheW interface [polypeptide binding]; other site 1300254007754 GMP synthase; Reviewed; Region: guaA; PRK00074 1300254007755 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1300254007756 AMP/PPi binding site [chemical binding]; other site 1300254007757 candidate oxyanion hole; other site 1300254007758 catalytic triad [active] 1300254007759 potential glutamine specificity residues [chemical binding]; other site 1300254007760 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 1300254007761 ATP Binding subdomain [chemical binding]; other site 1300254007762 Ligand Binding sites [chemical binding]; other site 1300254007763 Dimerization subdomain; other site 1300254007764 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1300254007765 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 1300254007766 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 1300254007767 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 1300254007768 active site 1300254007769 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1300254007770 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 1300254007771 generic binding surface II; other site 1300254007772 generic binding surface I; other site 1300254007773 GTP-binding protein Der; Reviewed; Region: PRK00093 1300254007774 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1300254007775 G1 box; other site 1300254007776 GTP/Mg2+ binding site [chemical binding]; other site 1300254007777 Switch I region; other site 1300254007778 G2 box; other site 1300254007779 Switch II region; other site 1300254007780 G3 box; other site 1300254007781 G4 box; other site 1300254007782 G5 box; other site 1300254007783 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1300254007784 G1 box; other site 1300254007785 GTP/Mg2+ binding site [chemical binding]; other site 1300254007786 Switch I region; other site 1300254007787 G2 box; other site 1300254007788 G3 box; other site 1300254007789 Switch II region; other site 1300254007790 G4 box; other site 1300254007791 G5 box; other site 1300254007792 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1300254007793 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1300254007794 Trp docking motif [polypeptide binding]; other site 1300254007795 active site 1300254007796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1300254007797 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1300254007798 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1300254007799 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 1300254007800 dimer interface [polypeptide binding]; other site 1300254007801 motif 1; other site 1300254007802 active site 1300254007803 motif 2; other site 1300254007804 motif 3; other site 1300254007805 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 1300254007806 anticodon binding site; other site 1300254007807 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1300254007808 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1300254007809 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1300254007810 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1300254007811 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 1300254007812 non-specific DNA binding site [nucleotide binding]; other site 1300254007813 salt bridge; other site 1300254007814 sequence-specific DNA binding site [nucleotide binding]; other site 1300254007815 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1300254007816 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1300254007817 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 1300254007818 binding surface 1300254007819 TPR motif; other site 1300254007820 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 1300254007821 binding surface 1300254007822 TPR motif; other site 1300254007823 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 1300254007824 binding surface 1300254007825 TPR motif; other site 1300254007826 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1300254007827 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1300254007828 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1300254007829 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 1300254007830 FeS/SAM binding site; other site 1300254007831 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 1300254007832 active site 1300254007833 multimer interface [polypeptide binding]; other site 1300254007834 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1300254007835 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 1300254007836 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1300254007837 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1300254007838 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 1300254007839 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254007840 catalytic residue [active] 1300254007841 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1300254007842 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1300254007843 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1300254007844 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1300254007845 Walker A/P-loop; other site 1300254007846 ATP binding site [chemical binding]; other site 1300254007847 Q-loop/lid; other site 1300254007848 ABC transporter signature motif; other site 1300254007849 Walker B; other site 1300254007850 D-loop; other site 1300254007851 H-loop/switch region; other site 1300254007852 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1300254007853 putative ABC transporter; Region: ycf24; CHL00085 1300254007854 cysteine desulfurase; Provisional; Region: PRK14012 1300254007855 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1300254007856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254007857 catalytic residue [active] 1300254007858 Transcriptional regulator; Region: Rrf2; cl17282 1300254007859 Rrf2 family protein; Region: rrf2_super; TIGR00738 1300254007860 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1300254007861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1300254007862 serine O-acetyltransferase; Region: cysE; TIGR01172 1300254007863 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 1300254007864 trimer interface [polypeptide binding]; other site 1300254007865 active site 1300254007866 substrate binding site [chemical binding]; other site 1300254007867 CoA binding site [chemical binding]; other site 1300254007868 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1300254007869 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1300254007870 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1300254007871 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 1300254007872 active site 1300254007873 dimerization interface [polypeptide binding]; other site 1300254007874 LytTr DNA-binding domain; Region: LytTR; smart00850 1300254007875 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1300254007876 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1300254007877 Protein export membrane protein; Region: SecD_SecF; pfam02355 1300254007878 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1300254007879 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1300254007880 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1300254007881 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1300254007882 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1300254007883 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1300254007884 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1300254007885 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1300254007886 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1300254007887 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 1300254007888 PspA/IM30 family; Region: PspA_IM30; pfam04012 1300254007889 Ion channel; Region: Ion_trans_2; pfam07885 1300254007890 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 1300254007891 Predicted membrane protein [Function unknown]; Region: COG3766 1300254007892 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1300254007893 hypothetical protein; Provisional; Region: PRK11653 1300254007894 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1300254007895 Rhomboid family; Region: Rhomboid; cl11446 1300254007896 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1300254007897 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1300254007898 Walker A/P-loop; other site 1300254007899 ATP binding site [chemical binding]; other site 1300254007900 Q-loop/lid; other site 1300254007901 ABC transporter signature motif; other site 1300254007902 Walker B; other site 1300254007903 D-loop; other site 1300254007904 H-loop/switch region; other site 1300254007905 FtsX-like permease family; Region: FtsX; pfam02687 1300254007906 FtsX-like permease family; Region: FtsX; pfam02687 1300254007907 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 1300254007908 glutaminase; Provisional; Region: PRK00971 1300254007909 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1300254007910 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1300254007911 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 1300254007912 dimer interface [polypeptide binding]; other site 1300254007913 active site 1300254007914 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1300254007915 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254007916 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 1300254007917 active site 1300254007918 phosphorylation site [posttranslational modification] 1300254007919 intermolecular recognition site; other site 1300254007920 dimerization interface [polypeptide binding]; other site 1300254007921 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 1300254007922 tetramer interface [polypeptide binding]; other site 1300254007923 active site 1300254007924 Mg2+/Mn2+ binding site [ion binding]; other site 1300254007925 isocitrate lyase; Region: PLN02892 1300254007926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254007927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254007928 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 1300254007929 substrate binding pocket [chemical binding]; other site 1300254007930 dimerization interface [polypeptide binding]; other site 1300254007931 malate synthase G; Provisional; Region: PRK02999 1300254007932 active site 1300254007933 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1300254007934 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1300254007935 active site 1300254007936 nucleophile elbow; other site 1300254007937 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1300254007938 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1300254007939 putative NAD(P) binding site [chemical binding]; other site 1300254007940 active site 1300254007941 putative substrate binding site [chemical binding]; other site 1300254007942 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 1300254007943 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1300254007944 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1300254007945 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 1300254007946 putative active site [active] 1300254007947 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1300254007948 PEP-CTERM motif; Region: VPEP; pfam07589 1300254007949 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1300254007950 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 1300254007951 binding surface 1300254007952 TPR motif; other site 1300254007953 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 1300254007954 binding surface 1300254007955 TPR motif; other site 1300254007956 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 1300254007957 binding surface 1300254007958 TPR motif; other site 1300254007959 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 1300254007960 TPR motif; other site 1300254007961 binding surface 1300254007962 PEP-CTERM motif; Region: VPEP; pfam07589 1300254007963 hypothetical protein; Validated; Region: PRK08223 1300254007964 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 1300254007965 ATP binding site [chemical binding]; other site 1300254007966 substrate interface [chemical binding]; other site 1300254007967 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1300254007968 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 1300254007969 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1300254007970 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254007971 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 1300254007972 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 1300254007973 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1300254007974 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1300254007975 active site 1300254007976 catalytic triad [active] 1300254007977 oxyanion hole [active] 1300254007978 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1300254007979 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1300254007980 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 1300254007981 active site 1300254007982 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254007983 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1300254007984 putative ADP-binding pocket [chemical binding]; other site 1300254007985 O-Antigen ligase; Region: Wzy_C; cl04850 1300254007986 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1300254007987 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254007988 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1300254007989 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1300254007990 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 1300254007991 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254007992 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1300254007993 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 1300254007994 active site 1300254007995 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1300254007996 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 1300254007997 dimer interface [polypeptide binding]; other site 1300254007998 active site 1300254007999 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1300254008000 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1300254008001 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1300254008002 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1300254008003 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1300254008004 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 1300254008005 active site 1300254008006 dimer interface [polypeptide binding]; other site 1300254008007 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 1300254008008 Ligand Binding Site [chemical binding]; other site 1300254008009 Molecular Tunnel; other site 1300254008010 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 1300254008011 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1300254008012 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1300254008013 putative ADP-binding pocket [chemical binding]; other site 1300254008014 exosortase A; Region: exosortase_1; TIGR03109 1300254008015 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1300254008016 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 1300254008017 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1300254008018 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 1300254008019 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 1300254008020 putative active site [active] 1300254008021 putative catalytic site [active] 1300254008022 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1300254008023 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1300254008024 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1300254008025 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1300254008026 SLBB domain; Region: SLBB; pfam10531 1300254008027 Chain length determinant protein; Region: Wzz; pfam02706 1300254008028 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1300254008029 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1300254008030 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 1300254008031 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1300254008032 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1300254008033 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 1300254008034 putative ribose interaction site [chemical binding]; other site 1300254008035 putative ADP binding site [chemical binding]; other site 1300254008036 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1300254008037 active site 1300254008038 nucleotide binding site [chemical binding]; other site 1300254008039 HIGH motif; other site 1300254008040 KMSKS motif; other site 1300254008041 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1300254008042 GIY-YIG motif/motif A; other site 1300254008043 putative active site [active] 1300254008044 putative metal binding site [ion binding]; other site 1300254008045 Tricarboxylate carrier; Region: Mtc; cl04275 1300254008046 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1300254008047 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1300254008048 metal binding triad; other site 1300254008049 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1300254008050 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1300254008051 metal binding triad; other site 1300254008052 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1300254008053 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1300254008054 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1300254008055 putative acyl-acceptor binding pocket; other site 1300254008056 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 1300254008057 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1300254008058 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1300254008059 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 1300254008060 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254008061 active site 1300254008062 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1300254008063 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 1300254008064 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254008065 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254008066 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 1300254008067 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254008068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254008069 metal binding site [ion binding]; metal-binding site 1300254008070 active site 1300254008071 I-site; other site 1300254008072 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 1300254008073 thymidine kinase; Provisional; Region: PRK04296 1300254008074 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254008075 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 1300254008076 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 1300254008077 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1300254008078 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1300254008079 DNA binding site [nucleotide binding] 1300254008080 domain linker motif; other site 1300254008081 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 1300254008082 putative dimerization interface [polypeptide binding]; other site 1300254008083 putative ligand binding site [chemical binding]; other site 1300254008084 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1300254008085 active site 1300254008086 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 1300254008087 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1300254008088 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 1300254008089 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1300254008090 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1300254008091 GTP/Mg2+ binding site [chemical binding]; other site 1300254008092 G4 box; other site 1300254008093 G5 box; other site 1300254008094 G1 box; other site 1300254008095 Switch I region; other site 1300254008096 G2 box; other site 1300254008097 G3 box; other site 1300254008098 Switch II region; other site 1300254008099 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1300254008100 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1300254008101 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1300254008102 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 1300254008103 substrate binding site [chemical binding]; other site 1300254008104 oxyanion hole (OAH) forming residues; other site 1300254008105 trimer interface [polypeptide binding]; other site 1300254008106 Predicted membrane protein [Function unknown]; Region: COG4539 1300254008107 META domain; Region: META; pfam03724 1300254008108 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1300254008109 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1300254008110 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1300254008111 NAD(P) binding site [chemical binding]; other site 1300254008112 catalytic residues [active] 1300254008113 choline dehydrogenase; Validated; Region: PRK02106 1300254008114 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1300254008115 BCCT family transporter; Region: BCCT; cl00569 1300254008116 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1300254008117 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 1300254008118 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1300254008119 S-adenosylmethionine binding site [chemical binding]; other site 1300254008120 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1300254008121 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 1300254008122 active site 1300254008123 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1300254008124 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254008125 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1300254008126 active site 1300254008127 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1300254008128 RES domain; Region: RES; pfam08808 1300254008129 DsrE/DsrF-like family; Region: DrsE; pfam02635 1300254008130 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1300254008131 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1300254008132 dimer interface [polypeptide binding]; other site 1300254008133 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 1300254008134 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1300254008135 active site 1300254008136 phosphorylation site [posttranslational modification] 1300254008137 intermolecular recognition site; other site 1300254008138 dimerization interface [polypeptide binding]; other site 1300254008139 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 1300254008140 DNA binding site [nucleotide binding] 1300254008141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254008142 HAMP domain; Region: HAMP; pfam00672 1300254008143 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 1300254008144 dimer interface [polypeptide binding]; other site 1300254008145 phosphorylation site [posttranslational modification] 1300254008146 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 1300254008147 ATP binding site [chemical binding]; other site 1300254008148 Mg2+ binding site [ion binding]; other site 1300254008149 G-X-G motif; other site 1300254008150 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1300254008151 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1300254008152 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1300254008153 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1300254008154 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1300254008155 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1300254008156 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1300254008157 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1300254008158 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1300254008159 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1300254008160 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1300254008161 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1300254008162 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1300254008163 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1300254008164 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254008165 dimer interface [polypeptide binding]; other site 1300254008166 active site 1300254008167 metal binding site [ion binding]; metal-binding site 1300254008168 glutathione binding site [chemical binding]; other site 1300254008169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1300254008170 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1300254008171 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1300254008172 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1300254008173 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 1300254008174 catalytic loop [active] 1300254008175 iron binding site [ion binding]; other site 1300254008176 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1300254008177 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1300254008178 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1300254008179 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1300254008180 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1300254008181 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1300254008182 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1300254008183 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1300254008184 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 1300254008185 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1300254008186 hypothetical protein; Provisional; Region: PRK06194 1300254008187 classical (c) SDRs; Region: SDR_c; cd05233 1300254008188 NAD(P) binding site [chemical binding]; other site 1300254008189 active site 1300254008190 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1300254008191 classical (c) SDRs; Region: SDR_c; cd05233 1300254008192 NAD(P) binding site [chemical binding]; other site 1300254008193 active site 1300254008194 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1300254008195 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1300254008196 proposed catalytic triad [active] 1300254008197 conserved cys residue [active] 1300254008198 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1300254008199 YaeQ protein; Region: YaeQ; pfam07152 1300254008200 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1300254008201 catalytic motif [active] 1300254008202 Catalytic residue [active] 1300254008203 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 1300254008204 putative FMN binding site [chemical binding]; other site 1300254008205 putative dimer interface [polypeptide binding]; other site 1300254008206 sugar efflux transporter; Region: 2A0120; TIGR00899 1300254008207 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 1300254008208 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 1300254008209 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1300254008210 NADP binding site [chemical binding]; other site 1300254008211 dimer interface [polypeptide binding]; other site 1300254008212 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1300254008213 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 1300254008214 ATP binding site [chemical binding]; other site 1300254008215 putative Mg++ binding site [ion binding]; other site 1300254008216 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 1300254008217 nucleotide binding region [chemical binding]; other site 1300254008218 ATP-binding site [chemical binding]; other site 1300254008219 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1300254008220 putative hydrophobic ligand binding site [chemical binding]; other site 1300254008221 protein interface [polypeptide binding]; other site 1300254008222 gate; other site 1300254008223 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1300254008224 active site 1300254008225 homodimer interface [polypeptide binding]; other site 1300254008226 SAM binding site [chemical binding]; other site 1300254008227 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1300254008228 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 1300254008229 binding surface 1300254008230 TPR motif; other site 1300254008231 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 1300254008232 binding surface 1300254008233 TPR motif; other site 1300254008234 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1300254008235 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254008236 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 1300254008237 dimer interface [polypeptide binding]; other site 1300254008238 phosphorylation site [posttranslational modification] 1300254008239 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 1300254008240 ATP binding site [chemical binding]; other site 1300254008241 Mg2+ binding site [ion binding]; other site 1300254008242 G-X-G motif; other site 1300254008243 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254008244 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 1300254008245 active site 1300254008246 phosphorylation site [posttranslational modification] 1300254008247 intermolecular recognition site; other site 1300254008248 dimerization interface [polypeptide binding]; other site 1300254008249 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254008250 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 1300254008251 active site 1300254008252 phosphorylation site [posttranslational modification] 1300254008253 intermolecular recognition site; other site 1300254008254 dimerization interface [polypeptide binding]; other site 1300254008255 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 1300254008256 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1300254008257 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1300254008258 Phytochrome region; Region: PHY; pfam00360 1300254008259 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 1300254008260 dimer interface [polypeptide binding]; other site 1300254008261 phosphorylation site [posttranslational modification] 1300254008262 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 1300254008263 ATP binding site [chemical binding]; other site 1300254008264 Mg2+ binding site [ion binding]; other site 1300254008265 G-X-G motif; other site 1300254008266 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254008267 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 1300254008268 active site 1300254008269 phosphorylation site [posttranslational modification] 1300254008270 intermolecular recognition site; other site 1300254008271 dimerization interface [polypeptide binding]; other site 1300254008272 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1300254008273 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1300254008274 Beta-lactamase; Region: Beta-lactamase; pfam00144 1300254008275 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1300254008276 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1300254008277 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 1300254008278 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1300254008279 UreF; Region: UreF; pfam01730 1300254008280 urease accessory protein UreE; Provisional; Region: PRK14113 1300254008281 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 1300254008282 dimer interface [polypeptide binding]; other site 1300254008283 catalytic residues [active] 1300254008284 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1300254008285 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 1300254008286 subunit interactions [polypeptide binding]; other site 1300254008287 active site 1300254008288 flap region; other site 1300254008289 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 1300254008290 gamma-beta subunit interface [polypeptide binding]; other site 1300254008291 alpha-beta subunit interface [polypeptide binding]; other site 1300254008292 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 1300254008293 alpha-gamma subunit interface [polypeptide binding]; other site 1300254008294 beta-gamma subunit interface [polypeptide binding]; other site 1300254008295 UreD urease accessory protein; Region: UreD; pfam01774 1300254008296 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1300254008297 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1300254008298 Walker A/P-loop; other site 1300254008299 ATP binding site [chemical binding]; other site 1300254008300 Q-loop/lid; other site 1300254008301 ABC transporter signature motif; other site 1300254008302 Walker B; other site 1300254008303 D-loop; other site 1300254008304 H-loop/switch region; other site 1300254008305 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1300254008306 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1300254008307 Walker A/P-loop; other site 1300254008308 ATP binding site [chemical binding]; other site 1300254008309 Q-loop/lid; other site 1300254008310 ABC transporter signature motif; other site 1300254008311 Walker B; other site 1300254008312 D-loop; other site 1300254008313 H-loop/switch region; other site 1300254008314 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1300254008315 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 1300254008316 TM-ABC transporter signature motif; other site 1300254008317 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 1300254008318 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1300254008319 TM-ABC transporter signature motif; other site 1300254008320 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1300254008321 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1300254008322 putative ligand binding site [chemical binding]; other site 1300254008323 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1300254008324 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1300254008325 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1300254008326 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 1300254008327 dimer interface [polypeptide binding]; other site 1300254008328 phosphorylation site [posttranslational modification] 1300254008329 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 1300254008330 ATP binding site [chemical binding]; other site 1300254008331 Mg2+ binding site [ion binding]; other site 1300254008332 G-X-G motif; other site 1300254008333 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254008334 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 1300254008335 active site 1300254008336 phosphorylation site [posttranslational modification] 1300254008337 intermolecular recognition site; other site 1300254008338 dimerization interface [polypeptide binding]; other site 1300254008339 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254008340 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 1300254008341 active site 1300254008342 phosphorylation site [posttranslational modification] 1300254008343 intermolecular recognition site; other site 1300254008344 dimerization interface [polypeptide binding]; other site 1300254008345 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 1300254008346 DNA binding residues [nucleotide binding] 1300254008347 dimerization interface [polypeptide binding]; other site 1300254008348 Fic family protein [Function unknown]; Region: COG3177 1300254008349 Fic/DOC family; Region: Fic; pfam02661 1300254008350 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 1300254008351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 1300254008352 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 1300254008353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 1300254008354 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 1300254008355 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1300254008356 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1300254008357 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 1300254008358 WYL domain; Region: WYL; pfam13280 1300254008359 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1300254008360 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1300254008361 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 1300254008362 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1300254008363 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1300254008364 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1300254008365 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1300254008366 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1300254008367 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1300254008368 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1300254008369 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1300254008370 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 1300254008371 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 1300254008372 ATP binding site [chemical binding]; other site 1300254008373 putative Mg++ binding site [ion binding]; other site 1300254008374 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]; Region: CDC6; COG1474 1300254008375 glycine dehydrogenase; Provisional; Region: PRK05367 1300254008376 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 1300254008377 tetramer interface [polypeptide binding]; other site 1300254008378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254008379 catalytic residue [active] 1300254008380 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 1300254008381 tetramer interface [polypeptide binding]; other site 1300254008382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254008383 catalytic residue [active] 1300254008384 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 1300254008385 lipoyl attachment site [posttranslational modification]; other site 1300254008386 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1300254008387 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1300254008388 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1300254008389 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 1300254008390 active site 1300254008391 dimer interface [polypeptide binding]; other site 1300254008392 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1300254008393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254008394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254008395 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1300254008396 dimerization interface [polypeptide binding]; other site 1300254008397 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1300254008398 L-lactate permease; Region: Lactate_perm; cl00701 1300254008399 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1300254008400 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1300254008401 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1300254008402 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 1300254008403 active site 1300254008404 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1300254008405 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1300254008406 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1300254008407 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1300254008408 proline aminopeptidase P II; Provisional; Region: PRK10879 1300254008409 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1300254008410 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 1300254008411 active site 1300254008412 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1300254008413 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1300254008414 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 1300254008415 substrate binding site [chemical binding]; other site 1300254008416 dimer interface [polypeptide binding]; other site 1300254008417 ATP binding site [chemical binding]; other site 1300254008418 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 1300254008419 active site 1300254008420 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1300254008421 GAF domain; Region: GAF; pfam01590 1300254008422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254008423 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 1300254008424 dimer interface [polypeptide binding]; other site 1300254008425 phosphorylation site [posttranslational modification] 1300254008426 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 1300254008427 ATP binding site [chemical binding]; other site 1300254008428 Mg2+ binding site [ion binding]; other site 1300254008429 G-X-G motif; other site 1300254008430 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254008431 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 1300254008432 active site 1300254008433 phosphorylation site [posttranslational modification] 1300254008434 intermolecular recognition site; other site 1300254008435 dimerization interface [polypeptide binding]; other site 1300254008436 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1300254008437 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1300254008438 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 1300254008439 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1300254008440 active site 1300254008441 dimer interface [polypeptide binding]; other site 1300254008442 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1300254008443 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1300254008444 ligand binding site [chemical binding]; other site 1300254008445 NAD binding site [chemical binding]; other site 1300254008446 tetramer interface [polypeptide binding]; other site 1300254008447 catalytic site [active] 1300254008448 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1300254008449 L-serine binding site [chemical binding]; other site 1300254008450 ACT domain interface; other site 1300254008451 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1300254008452 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1300254008453 HDOD domain; Region: HDOD; pfam08668 1300254008454 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1300254008455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 1300254008456 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1300254008457 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1300254008458 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254008459 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254008460 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1300254008461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254008462 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 1300254008463 substrate binding pocket [chemical binding]; other site 1300254008464 dimerization interface [polypeptide binding]; other site 1300254008465 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1300254008466 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1300254008467 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254008468 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1300254008469 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 1300254008470 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1300254008471 E3 interaction surface; other site 1300254008472 lipoyl attachment site [posttranslational modification]; other site 1300254008473 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 1300254008474 E3 interaction surface; other site 1300254008475 lipoyl attachment site [posttranslational modification]; other site 1300254008476 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 1300254008477 E3 interaction surface; other site 1300254008478 lipoyl attachment site [posttranslational modification]; other site 1300254008479 e3 binding domain; Region: E3_binding; pfam02817 1300254008480 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1300254008481 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1300254008482 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 1300254008483 dimer interface [polypeptide binding]; other site 1300254008484 TPP-binding site [chemical binding]; other site 1300254008485 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1300254008486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1300254008487 DNA-binding site [nucleotide binding]; DNA binding site 1300254008488 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1300254008489 regulatory protein AmpE; Provisional; Region: PRK10987 1300254008490 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1300254008491 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 1300254008492 amidase catalytic site [active] 1300254008493 Zn binding residues [ion binding]; other site 1300254008494 substrate binding site [chemical binding]; other site 1300254008495 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1300254008496 catalytic motif [active] 1300254008497 Catalytic residue [active] 1300254008498 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1300254008499 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 1300254008500 dimerization interface [polypeptide binding]; other site 1300254008501 active site 1300254008502 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1300254008503 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1300254008504 Pilin (bacterial filament); Region: Pilin; pfam00114 1300254008505 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1300254008506 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1300254008507 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1300254008508 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 1300254008509 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1300254008510 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1300254008511 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1300254008512 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 1300254008513 CoA-binding site [chemical binding]; other site 1300254008514 ATP-binding [chemical binding]; other site 1300254008515 hypothetical protein; Provisional; Region: PRK05287 1300254008516 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1300254008517 aspartoacylase; Provisional; Region: PRK02259 1300254008518 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1300254008519 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 1300254008520 active site 1300254008521 8-oxo-dGMP binding site [chemical binding]; other site 1300254008522 nudix motif; other site 1300254008523 metal binding site [ion binding]; metal-binding site 1300254008524 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1300254008525 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1300254008526 SEC-C motif; Region: SEC-C; pfam02810 1300254008527 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1300254008528 Peptidase family M23; Region: Peptidase_M23; pfam01551 1300254008529 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1300254008530 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1300254008531 cell division protein FtsZ; Validated; Region: PRK09330 1300254008532 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 1300254008533 nucleotide binding site [chemical binding]; other site 1300254008534 SulA interaction site; other site 1300254008535 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1300254008536 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1300254008537 nucleotide binding site [chemical binding]; other site 1300254008538 Cell division protein FtsA; Region: FtsA; pfam14450 1300254008539 cell division protein FtsQ; Provisional; Region: PRK10775 1300254008540 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1300254008541 Cell division protein FtsQ; Region: FtsQ; pfam03799 1300254008542 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1300254008543 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1300254008544 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1300254008545 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1300254008546 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1300254008547 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1300254008548 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1300254008549 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1300254008550 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 1300254008551 active site 1300254008552 homodimer interface [polypeptide binding]; other site 1300254008553 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1300254008554 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1300254008555 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1300254008556 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1300254008557 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1300254008558 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 1300254008559 Mg++ binding site [ion binding]; other site 1300254008560 putative catalytic motif [active] 1300254008561 putative substrate binding site [chemical binding]; other site 1300254008562 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1300254008563 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1300254008564 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1300254008565 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1300254008566 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1300254008567 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1300254008568 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1300254008569 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1300254008570 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1300254008571 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1300254008572 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1300254008573 Cell division protein FtsL; Region: FtsL; pfam04999 1300254008574 MraW methylase family; Region: Methyltransf_5; pfam01795 1300254008575 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1300254008576 cell division protein MraZ; Reviewed; Region: PRK00326 1300254008577 MraZ protein; Region: MraZ; pfam02381 1300254008578 MraZ protein; Region: MraZ; pfam02381 1300254008579 SapC; Region: SapC; pfam07277 1300254008580 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 1300254008581 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1300254008582 active site 1300254008583 dimer interface [polypeptide binding]; other site 1300254008584 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1300254008585 Outer membrane efflux protein; Region: OEP; pfam02321 1300254008586 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254008587 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 1300254008588 catalytic triad [active] 1300254008589 dimer interface [polypeptide binding]; other site 1300254008590 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1300254008591 ParA-like protein; Provisional; Region: PHA02518 1300254008592 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 1300254008593 P-loop; other site 1300254008594 Magnesium ion binding site [ion binding]; other site 1300254008595 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1300254008596 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1300254008597 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254008598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254008599 metal binding site [ion binding]; metal-binding site 1300254008600 active site 1300254008601 I-site; other site 1300254008602 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 1300254008603 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 1300254008604 active site 1300254008605 phosphorylation site [posttranslational modification] 1300254008606 intermolecular recognition site; other site 1300254008607 dimerization interface [polypeptide binding]; other site 1300254008608 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 1300254008609 Walker A motif; other site 1300254008610 ATP binding site [chemical binding]; other site 1300254008611 Walker B motif; other site 1300254008612 arginine finger; other site 1300254008613 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 1300254008614 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 1300254008615 ATP binding site [chemical binding]; other site 1300254008616 Mg2+ binding site [ion binding]; other site 1300254008617 G-X-G motif; other site 1300254008618 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1300254008619 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 1300254008620 active site 1300254008621 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254008622 Peptidase family M48; Region: Peptidase_M48; pfam01435 1300254008623 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254008624 RNA methyltransferase, RsmE family; Region: TIGR00046 1300254008625 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1300254008626 glutathione synthetase; Provisional; Region: PRK05246 1300254008627 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1300254008628 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1300254008629 hypothetical protein; Validated; Region: PRK00228 1300254008630 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1300254008631 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1300254008632 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1300254008633 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 1300254008634 ATP binding site [chemical binding]; other site 1300254008635 Walker B motif; other site 1300254008636 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1300254008637 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 1300254008638 Walker A motif; other site 1300254008639 ATP binding site [chemical binding]; other site 1300254008640 Walker B motif; other site 1300254008641 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1300254008642 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1300254008643 catalytic residue [active] 1300254008644 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1300254008645 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1300254008646 YGGT family; Region: YGGT; pfam02325 1300254008647 YGGT family; Region: YGGT; pfam02325 1300254008648 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1300254008649 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1300254008650 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 1300254008651 active site 1300254008652 FMN binding site [chemical binding]; other site 1300254008653 2,4-decadienoyl-CoA binding site; other site 1300254008654 catalytic residue [active] 1300254008655 4Fe-4S cluster binding site [ion binding]; other site 1300254008656 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1300254008657 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254008658 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 1300254008659 active site 1300254008660 metal binding site [ion binding]; metal-binding site 1300254008661 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1300254008662 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1300254008663 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 1300254008664 putative C-terminal domain interface [polypeptide binding]; other site 1300254008665 putative GSH binding site (G-site) [chemical binding]; other site 1300254008666 putative dimer interface [polypeptide binding]; other site 1300254008667 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1300254008668 dimer interface [polypeptide binding]; other site 1300254008669 N-terminal domain interface [polypeptide binding]; other site 1300254008670 substrate binding pocket (H-site) [chemical binding]; other site 1300254008671 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 1300254008672 E-class dimer interface [polypeptide binding]; other site 1300254008673 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1300254008674 P-class dimer interface [polypeptide binding]; other site 1300254008675 active site 1300254008676 Cu2+ binding site [ion binding]; other site 1300254008677 Zn2+ binding site [ion binding]; other site 1300254008678 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1300254008679 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1300254008680 Predicted membrane protein [Function unknown]; Region: COG2323 1300254008681 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1300254008682 AzlC protein; Region: AzlC; pfam03591 1300254008683 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1300254008684 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 1300254008685 non-specific DNA binding site [nucleotide binding]; other site 1300254008686 salt bridge; other site 1300254008687 sequence-specific DNA binding site [nucleotide binding]; other site 1300254008688 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 1300254008689 MFS transport protein AraJ; Provisional; Region: PRK10091 1300254008690 putative substrate translocation pore; other site 1300254008691 RNA recognition motif; Region: RRM; smart00360 1300254008692 hypothetical protein; Validated; Region: PRK02101 1300254008693 transaldolase-like protein; Provisional; Region: PTZ00411 1300254008694 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1300254008695 active site 1300254008696 dimer interface [polypeptide binding]; other site 1300254008697 catalytic residue [active] 1300254008698 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1300254008699 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 1300254008700 active site 1300254008701 dimer interface [polypeptide binding]; other site 1300254008702 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 1300254008703 dimer interface [polypeptide binding]; other site 1300254008704 active site 1300254008705 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 1300254008706 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1300254008707 ligand binding site [chemical binding]; other site 1300254008708 active site 1300254008709 UGI interface [polypeptide binding]; other site 1300254008710 catalytic site [active] 1300254008711 threonine synthase; Validated; Region: PRK09225 1300254008712 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1300254008713 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254008714 catalytic residue [active] 1300254008715 homoserine kinase; Provisional; Region: PRK01212 1300254008716 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1300254008717 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1300254008718 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 1300254008719 putative catalytic residues [active] 1300254008720 putative nucleotide binding site [chemical binding]; other site 1300254008721 putative aspartate binding site [chemical binding]; other site 1300254008722 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1300254008723 dimer interface [polypeptide binding]; other site 1300254008724 putative threonine allosteric regulatory site; other site 1300254008725 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1300254008726 putative threonine allosteric regulatory site; other site 1300254008727 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1300254008728 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1300254008729 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1300254008730 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1300254008731 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254008732 ABC transporter signature motif; other site 1300254008733 Walker B; other site 1300254008734 D-loop; other site 1300254008735 H-loop/switch region; other site 1300254008736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254008737 Walker A/P-loop; other site 1300254008738 ATP binding site [chemical binding]; other site 1300254008739 Q-loop/lid; other site 1300254008740 ABC transporter signature motif; other site 1300254008741 Walker B; other site 1300254008742 D-loop; other site 1300254008743 H-loop/switch region; other site 1300254008744 LysR family transcriptional regulator; Provisional; Region: PRK14997 1300254008745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254008746 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 1300254008747 dimerization interface [polypeptide binding]; other site 1300254008748 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1300254008749 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1300254008750 substrate binding site [chemical binding]; other site 1300254008751 catalytic Zn binding site [ion binding]; other site 1300254008752 NAD binding site [chemical binding]; other site 1300254008753 structural Zn binding site [ion binding]; other site 1300254008754 dimer interface [polypeptide binding]; other site 1300254008755 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 1300254008756 catalytic residues [active] 1300254008757 active site 1300254008758 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 1300254008759 dimerization interface [polypeptide binding]; other site 1300254008760 putative DNA binding site [nucleotide binding]; other site 1300254008761 putative Zn2+ binding site [ion binding]; other site 1300254008762 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1300254008763 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1300254008764 active site 1300254008765 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1300254008766 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1300254008767 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1300254008768 arsenical-resistance protein; Region: acr3; TIGR00832 1300254008769 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254008770 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 1300254008771 active site 1300254008772 phosphorylation site [posttranslational modification] 1300254008773 intermolecular recognition site; other site 1300254008774 dimerization interface [polypeptide binding]; other site 1300254008775 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1300254008776 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1300254008777 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1300254008778 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 1300254008779 active site 1300254008780 phosphorylation site [posttranslational modification] 1300254008781 intermolecular recognition site; other site 1300254008782 dimerization interface [polypeptide binding]; other site 1300254008783 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 1300254008784 DNA binding site [nucleotide binding] 1300254008785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254008786 HAMP domain; Region: HAMP; pfam00672 1300254008787 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 1300254008788 dimer interface [polypeptide binding]; other site 1300254008789 phosphorylation site [posttranslational modification] 1300254008790 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 1300254008791 ATP binding site [chemical binding]; other site 1300254008792 Mg2+ binding site [ion binding]; other site 1300254008793 G-X-G motif; other site 1300254008794 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1300254008795 Nucleopolyhedrovirus LEF-12 protein; Region: Nucleo_LEF-12; pfam06256 1300254008796 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1300254008797 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 1300254008798 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254008799 catalytic residue [active] 1300254008800 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 1300254008801 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1300254008802 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 1300254008803 active site 1300254008804 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1300254008805 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1300254008806 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1300254008807 putative hydrophobic ligand binding site [chemical binding]; other site 1300254008808 protein interface [polypeptide binding]; other site 1300254008809 gate; other site 1300254008810 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1300254008811 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1300254008812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1300254008813 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1300254008814 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1300254008815 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1300254008816 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1300254008817 dimer interface [polypeptide binding]; other site 1300254008818 active site 1300254008819 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1300254008820 catalytic residues [active] 1300254008821 substrate binding site [chemical binding]; other site 1300254008822 Predicted methyltransferases [General function prediction only]; Region: COG0313 1300254008823 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1300254008824 putative SAM binding site [chemical binding]; other site 1300254008825 putative homodimer interface [polypeptide binding]; other site 1300254008826 LppC putative lipoprotein; Region: LppC; pfam04348 1300254008827 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1300254008828 putative ligand binding site [chemical binding]; other site 1300254008829 hypothetical protein; Reviewed; Region: PRK12497 1300254008830 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 1300254008831 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254008832 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 1300254008833 dimer interface [polypeptide binding]; other site 1300254008834 active site 1300254008835 BON domain; Region: BON; pfam04972 1300254008836 BON domain; Region: BON; pfam04972 1300254008837 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 1300254008838 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1300254008839 putative substrate translocation pore; other site 1300254008840 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1300254008841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1300254008842 Histidine kinase; Region: HisKA_3; pfam07730 1300254008843 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254008844 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 1300254008845 active site 1300254008846 phosphorylation site [posttranslational modification] 1300254008847 intermolecular recognition site; other site 1300254008848 dimerization interface [polypeptide binding]; other site 1300254008849 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 1300254008850 DNA binding residues [nucleotide binding] 1300254008851 dimerization interface [polypeptide binding]; other site 1300254008852 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254008853 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 1300254008854 N-terminal plug; other site 1300254008855 ligand-binding site [chemical binding]; other site 1300254008856 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1300254008857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1300254008858 DNA-binding site [nucleotide binding]; DNA binding site 1300254008859 FCD domain; Region: FCD; pfam07729 1300254008860 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1300254008861 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 1300254008862 tetramer interface [polypeptide binding]; other site 1300254008863 active site 1300254008864 Mg2+/Mn2+ binding site [ion binding]; other site 1300254008865 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1300254008866 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 1300254008867 dimer interface [polypeptide binding]; other site 1300254008868 active site 1300254008869 citrylCoA binding site [chemical binding]; other site 1300254008870 oxalacetate/citrate binding site [chemical binding]; other site 1300254008871 coenzyme A binding site [chemical binding]; other site 1300254008872 catalytic triad [active] 1300254008873 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1300254008874 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1300254008875 substrate binding site [chemical binding]; other site 1300254008876 ligand binding site [chemical binding]; other site 1300254008877 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 1300254008878 substrate binding site [chemical binding]; other site 1300254008879 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1300254008880 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254008881 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 1300254008882 active site 1300254008883 phosphorylation site [posttranslational modification] 1300254008884 intermolecular recognition site; other site 1300254008885 dimerization interface [polypeptide binding]; other site 1300254008886 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254008887 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 1300254008888 active site 1300254008889 phosphorylation site [posttranslational modification] 1300254008890 intermolecular recognition site; other site 1300254008891 dimerization interface [polypeptide binding]; other site 1300254008892 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254008893 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254008894 metal binding site [ion binding]; metal-binding site 1300254008895 active site 1300254008896 I-site; other site 1300254008897 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 1300254008898 Na binding site [ion binding]; other site 1300254008899 Predicted membrane protein [Function unknown]; Region: COG3428 1300254008900 Bacterial PH domain; Region: DUF304; pfam03703 1300254008901 Bacterial PH domain; Region: DUF304; pfam03703 1300254008902 Uncharacterized conserved protein [Function unknown]; Region: COG3402 1300254008903 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1300254008904 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 1300254008905 putative active site [active] 1300254008906 heme pocket [chemical binding]; other site 1300254008907 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 1300254008908 dimer interface [polypeptide binding]; other site 1300254008909 phosphorylation site [posttranslational modification] 1300254008910 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 1300254008911 ATP binding site [chemical binding]; other site 1300254008912 Mg2+ binding site [ion binding]; other site 1300254008913 G-X-G motif; other site 1300254008914 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 1300254008915 active site 1300254008916 phosphorylation site [posttranslational modification] 1300254008917 intermolecular recognition site; other site 1300254008918 dimerization interface [polypeptide binding]; other site 1300254008919 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 1300254008920 putative binding surface; other site 1300254008921 active site 1300254008922 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1300254008923 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 1300254008924 amidase catalytic site [active] 1300254008925 Zn binding residues [ion binding]; other site 1300254008926 substrate binding site [chemical binding]; other site 1300254008927 Bacterial SH3 domain; Region: SH3_3; pfam08239 1300254008928 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1300254008929 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 1300254008930 active site 1300254008931 dimer interface [polypeptide binding]; other site 1300254008932 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1300254008933 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 1300254008934 active site 1300254008935 FMN binding site [chemical binding]; other site 1300254008936 substrate binding site [chemical binding]; other site 1300254008937 3Fe-4S cluster binding site [ion binding]; other site 1300254008938 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 1300254008939 domain interface; other site 1300254008940 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1300254008941 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 1300254008942 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254008943 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1300254008944 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1300254008945 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1300254008946 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1300254008947 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1300254008948 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 1300254008949 cobalamin binding residues [chemical binding]; other site 1300254008950 putative BtuC binding residues; other site 1300254008951 dimer interface [polypeptide binding]; other site 1300254008952 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 1300254008953 active site residue [active] 1300254008954 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1300254008955 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1300254008956 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254008957 Coenzyme A binding pocket [chemical binding]; other site 1300254008958 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1300254008959 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1300254008960 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1300254008961 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1300254008962 active site 1300254008963 HIGH motif; other site 1300254008964 dimer interface [polypeptide binding]; other site 1300254008965 KMSKS motif; other site 1300254008966 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 1300254008967 RNA binding surface [nucleotide binding]; other site 1300254008968 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1300254008969 putative peptidase; Provisional; Region: PRK11649 1300254008970 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1300254008971 Peptidase family M23; Region: Peptidase_M23; pfam01551 1300254008972 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1300254008973 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1300254008974 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 1300254008975 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1300254008976 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1300254008977 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 1300254008978 FMN binding site [chemical binding]; other site 1300254008979 active site 1300254008980 substrate binding site [chemical binding]; other site 1300254008981 catalytic residue [active] 1300254008982 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1300254008983 putative hydrophobic ligand binding site [chemical binding]; other site 1300254008984 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1300254008985 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 1300254008986 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254008987 catalytic residue [active] 1300254008988 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1300254008989 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1300254008990 NAD binding site [chemical binding]; other site 1300254008991 ligand binding site [chemical binding]; other site 1300254008992 catalytic site [active] 1300254008993 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1300254008994 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1300254008995 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1300254008996 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1300254008997 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1300254008998 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 1300254008999 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1300254009000 Switch I; other site 1300254009001 Switch II; other site 1300254009002 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1300254009003 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1300254009004 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1300254009005 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1300254009006 Class II fumarases; Region: Fumarase_classII; cd01362 1300254009007 active site 1300254009008 tetramer interface [polypeptide binding]; other site 1300254009009 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1300254009010 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1300254009011 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 1300254009012 Cl- selectivity filter; other site 1300254009013 Cl- binding residues [ion binding]; other site 1300254009014 pore gating glutamate residue; other site 1300254009015 dimer interface [polypeptide binding]; other site 1300254009016 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1300254009017 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1300254009018 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1300254009019 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1300254009020 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1300254009021 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 1300254009022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254009023 homodimer interface [polypeptide binding]; other site 1300254009024 catalytic residue [active] 1300254009025 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254009026 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 1300254009027 active site 1300254009028 phosphorylation site [posttranslational modification] 1300254009029 intermolecular recognition site; other site 1300254009030 dimerization interface [polypeptide binding]; other site 1300254009031 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1300254009032 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1300254009033 G1 box; other site 1300254009034 putative GEF interaction site [polypeptide binding]; other site 1300254009035 GTP/Mg2+ binding site [chemical binding]; other site 1300254009036 Switch I region; other site 1300254009037 G2 box; other site 1300254009038 G3 box; other site 1300254009039 Switch II region; other site 1300254009040 G4 box; other site 1300254009041 G5 box; other site 1300254009042 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 1300254009043 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 1300254009044 glutamine synthetase; Provisional; Region: glnA; PRK09469 1300254009045 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1300254009046 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1300254009047 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1300254009048 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1300254009049 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 1300254009050 putative active site [active] 1300254009051 heme pocket [chemical binding]; other site 1300254009052 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 1300254009053 dimer interface [polypeptide binding]; other site 1300254009054 phosphorylation site [posttranslational modification] 1300254009055 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 1300254009056 ATP binding site [chemical binding]; other site 1300254009057 Mg2+ binding site [ion binding]; other site 1300254009058 G-X-G motif; other site 1300254009059 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1300254009060 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 1300254009061 active site 1300254009062 phosphorylation site [posttranslational modification] 1300254009063 intermolecular recognition site; other site 1300254009064 dimerization interface [polypeptide binding]; other site 1300254009065 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 1300254009066 Walker A motif; other site 1300254009067 ATP binding site [chemical binding]; other site 1300254009068 Walker B motif; other site 1300254009069 arginine finger; other site 1300254009070 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1300254009071 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 1300254009072 putative binding surface; other site 1300254009073 active site 1300254009074 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1300254009075 Zn2+ binding site [ion binding]; other site 1300254009076 Mg2+ binding site [ion binding]; other site 1300254009077 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1300254009078 putative acyl-acceptor binding pocket; other site 1300254009079 RNase E inhibitor protein; Provisional; Region: PRK11191 1300254009080 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1300254009081 potential frameshift: common BLAST hit: gi|332142595|ref|YP_004428333.1| response regulator containing a CheY-like receiver domain and a 1300254009082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1300254009083 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1300254009084 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 1300254009085 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1300254009086 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1300254009087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254009088 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 1300254009089 dimer interface [polypeptide binding]; other site 1300254009090 phosphorylation site [posttranslational modification] 1300254009091 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 1300254009092 ATP binding site [chemical binding]; other site 1300254009093 Mg2+ binding site [ion binding]; other site 1300254009094 G-X-G motif; other site 1300254009095 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254009096 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 1300254009097 active site 1300254009098 phosphorylation site [posttranslational modification] 1300254009099 intermolecular recognition site; other site 1300254009100 dimerization interface [polypeptide binding]; other site 1300254009101 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1300254009102 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1300254009103 HIGH motif; other site 1300254009104 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1300254009105 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1300254009106 active site 1300254009107 KMSKS motif; other site 1300254009108 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1300254009109 tRNA binding surface [nucleotide binding]; other site 1300254009110 anticodon binding site; other site 1300254009111 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1300254009112 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1300254009113 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1300254009114 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 1300254009115 interface (dimer of trimers) [polypeptide binding]; other site 1300254009116 Substrate-binding/catalytic site; other site 1300254009117 Zn-binding sites [ion binding]; other site 1300254009118 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1300254009119 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1300254009120 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1300254009121 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1300254009122 RDD family; Region: RDD; pfam06271 1300254009123 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254009124 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 1300254009125 RNA polymerase sigma factor; Provisional; Region: PRK12514 1300254009126 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254009127 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 1300254009128 DNA binding residues [nucleotide binding] 1300254009129 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1300254009130 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1300254009131 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1300254009132 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1300254009133 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1300254009134 potential frameshift: common BLAST hit: gi|332139759|ref|YP_004425497.1| transposase 1300254009135 potential frameshift: common BLAST hit: gi|410862838|ref|YP_006978072.1| transposase 1300254009136 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1300254009137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1300254009138 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1300254009139 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 1300254009140 non-specific DNA binding site [nucleotide binding]; other site 1300254009141 salt bridge; other site 1300254009142 sequence-specific DNA binding site [nucleotide binding]; other site 1300254009143 Domain of unknown function (DUF955); Region: DUF955; cl01076 1300254009144 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 1300254009145 putative active site [active] 1300254009146 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 1300254009147 active site 1300254009148 catalytic residues [active] 1300254009149 DNA binding site [nucleotide binding] 1300254009150 Int/Topo IB signature motif; other site 1300254009151 AAA ATPase domain; Region: AAA_16; pfam13191 1300254009152 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1300254009153 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1300254009154 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1300254009155 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1300254009156 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 1300254009157 homotrimer interaction site [polypeptide binding]; other site 1300254009158 putative active site [active] 1300254009159 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 1300254009160 active site flap/lid [active] 1300254009161 nucleophilic elbow; other site 1300254009162 catalytic triad [active] 1300254009163 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1300254009164 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1300254009165 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1300254009166 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1300254009167 potential frameshift: common BLAST hit: gi|407701250|ref|YP_006826037.1| PAS sensor signal transduction histidine kinase 1300254009168 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1300254009169 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1300254009170 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1300254009171 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1300254009172 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1300254009173 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1300254009174 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1300254009175 Walker A/P-loop; other site 1300254009176 ATP binding site [chemical binding]; other site 1300254009177 Q-loop/lid; other site 1300254009178 ABC transporter signature motif; other site 1300254009179 Walker B; other site 1300254009180 D-loop; other site 1300254009181 H-loop/switch region; other site 1300254009182 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1300254009183 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 1300254009184 ABC-ATPase subunit interface; other site 1300254009185 dimer interface [polypeptide binding]; other site 1300254009186 putative PBP binding regions; other site 1300254009187 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 1300254009188 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1300254009189 intersubunit interface [polypeptide binding]; other site 1300254009190 HmuY protein; Region: HmuY; pfam14064 1300254009191 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 1300254009192 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1300254009193 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 1300254009194 N-terminal plug; other site 1300254009195 ligand-binding site [chemical binding]; other site 1300254009196 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1300254009197 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 1300254009198 Walker A motif; other site 1300254009199 ATP binding site [chemical binding]; other site 1300254009200 Walker B motif; other site 1300254009201 arginine finger; other site 1300254009202 triosephosphate isomerase; Provisional; Region: PRK14567 1300254009203 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 1300254009204 substrate binding site [chemical binding]; other site 1300254009205 dimer interface [polypeptide binding]; other site 1300254009206 catalytic triad [active] 1300254009207 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 1300254009208 AMP binding site [chemical binding]; other site 1300254009209 metal binding site [ion binding]; metal-binding site 1300254009210 active site 1300254009211 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 1300254009212 AMP binding site [chemical binding]; other site 1300254009213 metal binding site [ion binding]; metal-binding site 1300254009214 active site 1300254009215 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1300254009216 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 1300254009217 glycerol kinase; Provisional; Region: glpK; PRK00047 1300254009218 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1300254009219 N- and C-terminal domain interface [polypeptide binding]; other site 1300254009220 active site 1300254009221 MgATP binding site [chemical binding]; other site 1300254009222 catalytic site [active] 1300254009223 metal binding site [ion binding]; metal-binding site 1300254009224 glycerol binding site [chemical binding]; other site 1300254009225 homotetramer interface [polypeptide binding]; other site 1300254009226 homodimer interface [polypeptide binding]; other site 1300254009227 FBP binding site [chemical binding]; other site 1300254009228 protein IIAGlc interface [polypeptide binding]; other site 1300254009229 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1300254009230 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1300254009231 Walker A/P-loop; other site 1300254009232 ATP binding site [chemical binding]; other site 1300254009233 Q-loop/lid; other site 1300254009234 ABC transporter signature motif; other site 1300254009235 Walker B; other site 1300254009236 D-loop; other site 1300254009237 H-loop/switch region; other site 1300254009238 Predicted transcriptional regulators [Transcription]; Region: COG1733 1300254009239 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1300254009240 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1300254009241 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1300254009242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1300254009243 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1300254009244 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1300254009245 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1300254009246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1300254009247 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1300254009248 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 1300254009249 amphipathic channel; other site 1300254009250 Asn-Pro-Ala signature motifs; other site 1300254009251 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1300254009252 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 1300254009253 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1300254009254 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 1300254009255 N-terminal plug; other site 1300254009256 ligand-binding site [chemical binding]; other site 1300254009257 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 1300254009258 Asp-box motif; other site 1300254009259 catalytic site [active] 1300254009260 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1300254009261 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1300254009262 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1300254009263 Beta-Casp domain; Region: Beta-Casp; smart01027 1300254009264 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1300254009265 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1300254009266 hypothetical protein; Validated; Region: PRK00029 1300254009267 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1300254009268 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1300254009269 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 1300254009270 active site 1300254009271 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1300254009272 NAD binding site [chemical binding]; other site 1300254009273 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1300254009274 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1300254009275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254009276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254009277 metal binding site [ion binding]; metal-binding site 1300254009278 active site 1300254009279 I-site; other site 1300254009280 Predicted permeases [General function prediction only]; Region: COG0679 1300254009281 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1300254009282 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1300254009283 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1300254009284 dimer interface [polypeptide binding]; other site 1300254009285 Trp docking motif [polypeptide binding]; other site 1300254009286 active site 1300254009287 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1300254009288 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 1300254009289 substrate binding pocket [chemical binding]; other site 1300254009290 membrane-bound complex binding site; other site 1300254009291 hinge residues; other site 1300254009292 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1300254009293 ligand binding site [chemical binding]; other site 1300254009294 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1300254009295 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1300254009296 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1300254009297 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1300254009298 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1300254009299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254009300 Walker A/P-loop; other site 1300254009301 ATP binding site [chemical binding]; other site 1300254009302 Q-loop/lid; other site 1300254009303 ABC transporter signature motif; other site 1300254009304 Walker B; other site 1300254009305 D-loop; other site 1300254009306 H-loop/switch region; other site 1300254009307 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1300254009308 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1300254009309 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1300254009310 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 1300254009311 interface (dimer of trimers) [polypeptide binding]; other site 1300254009312 Substrate-binding/catalytic site; other site 1300254009313 Zn-binding sites [ion binding]; other site 1300254009314 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1300254009315 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1300254009316 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1300254009317 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1300254009318 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1300254009319 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 1300254009320 FeS/SAM binding site; other site 1300254009321 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1300254009322 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1300254009323 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254009324 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254009325 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 1300254009326 Gram-negative porin; Region: Porin_4; pfam13609 1300254009327 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254009328 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 1300254009329 active site 1300254009330 phosphorylation site [posttranslational modification] 1300254009331 intermolecular recognition site; other site 1300254009332 dimerization interface [polypeptide binding]; other site 1300254009333 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 1300254009334 DNA binding residues [nucleotide binding] 1300254009335 dimerization interface [polypeptide binding]; other site 1300254009336 PAS fold; Region: PAS_7; pfam12860 1300254009337 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254009338 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 1300254009339 dimer interface [polypeptide binding]; other site 1300254009340 phosphorylation site [posttranslational modification] 1300254009341 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 1300254009342 ATP binding site [chemical binding]; other site 1300254009343 G-X-G motif; other site 1300254009344 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 1300254009345 active site 1300254009346 phosphorylation site [posttranslational modification] 1300254009347 intermolecular recognition site; other site 1300254009348 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1300254009349 FIST N domain; Region: FIST; pfam08495 1300254009350 FIST C domain; Region: FIST_C; pfam10442 1300254009351 FMN-binding domain; Region: FMN_bind; cl01081 1300254009352 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1300254009353 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1300254009354 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1300254009355 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1300254009356 NAD(P) binding site [chemical binding]; other site 1300254009357 catalytic residues [active] 1300254009358 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254009359 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 1300254009360 active site 1300254009361 phosphorylation site [posttranslational modification] 1300254009362 intermolecular recognition site; other site 1300254009363 dimerization interface [polypeptide binding]; other site 1300254009364 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 1300254009365 DNA binding residues [nucleotide binding] 1300254009366 dimerization interface [polypeptide binding]; other site 1300254009367 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1300254009368 Histidine kinase; Region: HisKA_3; pfam07730 1300254009369 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 1300254009370 ATP binding site [chemical binding]; other site 1300254009371 Mg2+ binding site [ion binding]; other site 1300254009372 G-X-G motif; other site 1300254009373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254009374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254009375 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 1300254009376 dimerization interface [polypeptide binding]; other site 1300254009377 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1300254009378 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1300254009379 tetrameric interface [polypeptide binding]; other site 1300254009380 NAD binding site [chemical binding]; other site 1300254009381 catalytic residues [active] 1300254009382 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1300254009383 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1300254009384 BCCT family transporter; Region: BCCT; pfam02028 1300254009385 D-lactate dehydrogenase; Provisional; Region: PRK11183 1300254009386 FAD binding domain; Region: FAD_binding_4; pfam01565 1300254009387 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1300254009388 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254009389 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 1300254009390 DNA binding residues [nucleotide binding] 1300254009391 dimerization interface [polypeptide binding]; other site 1300254009392 lipoprotein; Provisional; Region: PRK11443 1300254009393 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1300254009394 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1300254009395 Curli assembly protein CsgE; Region: CsgE; pfam10627 1300254009396 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1300254009397 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1300254009398 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1300254009399 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1300254009400 catalytic triad [active] 1300254009401 putative active site [active] 1300254009402 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1300254009403 FOG: PKD repeat [General function prediction only]; Region: COG3291 1300254009404 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 1300254009405 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254009406 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 1300254009407 active site 1300254009408 phosphorylation site [posttranslational modification] 1300254009409 intermolecular recognition site; other site 1300254009410 dimerization interface [polypeptide binding]; other site 1300254009411 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 1300254009412 DNA binding residues [nucleotide binding] 1300254009413 dimerization interface [polypeptide binding]; other site 1300254009414 MASE1; Region: MASE1; cl17823 1300254009415 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1300254009416 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 1300254009417 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 1300254009418 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1300254009419 ATP binding site [chemical binding]; other site 1300254009420 Mg++ binding site [ion binding]; other site 1300254009421 motif III; other site 1300254009422 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 1300254009423 nucleotide binding region [chemical binding]; other site 1300254009424 ATP-binding site [chemical binding]; other site 1300254009425 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 1300254009426 dimerization interface [polypeptide binding]; other site 1300254009427 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254009428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254009429 metal binding site [ion binding]; metal-binding site 1300254009430 active site 1300254009431 I-site; other site 1300254009432 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 1300254009433 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1300254009434 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1300254009435 active site 1300254009436 intersubunit interface [polypeptide binding]; other site 1300254009437 catalytic residue [active] 1300254009438 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 1300254009439 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1300254009440 substrate binding site [chemical binding]; other site 1300254009441 ATP binding site [chemical binding]; other site 1300254009442 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1300254009443 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1300254009444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1300254009445 DNA-binding site [nucleotide binding]; DNA binding site 1300254009446 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1300254009447 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254009448 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254009449 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1300254009450 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1300254009451 heme binding site [chemical binding]; other site 1300254009452 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1300254009453 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1300254009454 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1300254009455 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 1300254009456 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1300254009457 putative active site [active] 1300254009458 putative active site [active] 1300254009459 catalytic site [active] 1300254009460 catalytic site [active] 1300254009461 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1300254009462 putative active site [active] 1300254009463 catalytic site [active] 1300254009464 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1300254009465 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1300254009466 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1300254009467 putative catalytic site [active] 1300254009468 putative metal binding site [ion binding]; other site 1300254009469 putative phosphate binding site [ion binding]; other site 1300254009470 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254009471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254009472 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 1300254009473 dimerization interface [polypeptide binding]; other site 1300254009474 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254009475 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 1300254009476 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 1300254009477 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254009478 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1300254009479 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 1300254009480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254009481 homodimer interface [polypeptide binding]; other site 1300254009482 catalytic residue [active] 1300254009483 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254009484 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 1300254009485 active site 1300254009486 phosphorylation site [posttranslational modification] 1300254009487 intermolecular recognition site; other site 1300254009488 dimerization interface [polypeptide binding]; other site 1300254009489 CheC-like family; Region: CheC; pfam04509 1300254009490 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1300254009491 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 1300254009492 ATP binding site [chemical binding]; other site 1300254009493 Mg2+ binding site [ion binding]; other site 1300254009494 G-X-G motif; other site 1300254009495 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1300254009496 DNA polymerase II; Reviewed; Region: PRK05762 1300254009497 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1300254009498 active site 1300254009499 catalytic site [active] 1300254009500 substrate binding site [chemical binding]; other site 1300254009501 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 1300254009502 active site 1300254009503 metal-binding site 1300254009504 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 1300254009505 pseudo EF-hand loop; other site 1300254009506 Ca2+ binding site [ion binding]; other site 1300254009507 AMP-binding domain protein; Validated; Region: PRK08315 1300254009508 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1300254009509 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1300254009510 acyl-activating enzyme (AAE) consensus motif; other site 1300254009511 acyl-activating enzyme (AAE) consensus motif; other site 1300254009512 putative AMP binding site [chemical binding]; other site 1300254009513 putative active site [active] 1300254009514 putative CoA binding site [chemical binding]; other site 1300254009515 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1300254009516 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1300254009517 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1300254009518 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 1300254009519 S-adenosylmethionine binding site [chemical binding]; other site 1300254009520 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1300254009521 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254009522 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 1300254009523 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1300254009524 Di-iron ligands [ion binding]; other site 1300254009525 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1300254009526 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254009527 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1300254009528 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1300254009529 ligand binding site [chemical binding]; other site 1300254009530 active site 1300254009531 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254009532 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 1300254009533 active site 1300254009534 phosphorylation site [posttranslational modification] 1300254009535 intermolecular recognition site; other site 1300254009536 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1300254009537 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254009538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254009539 metal binding site [ion binding]; metal-binding site 1300254009540 active site 1300254009541 I-site; other site 1300254009542 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 1300254009543 TIGR03899 family protein; Region: TIGR03899 1300254009544 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1300254009545 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 1300254009546 Active Sites [active] 1300254009547 sulfite reductase subunit beta; Provisional; Region: PRK13504 1300254009548 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1300254009549 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1300254009550 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1300254009551 Flavodoxin; Region: Flavodoxin_1; pfam00258 1300254009552 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 1300254009553 FAD binding pocket [chemical binding]; other site 1300254009554 FAD binding motif [chemical binding]; other site 1300254009555 catalytic residues [active] 1300254009556 NAD binding pocket [chemical binding]; other site 1300254009557 phosphate binding motif [ion binding]; other site 1300254009558 beta-alpha-beta structure motif; other site 1300254009559 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1300254009560 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1300254009561 PspC domain; Region: PspC; pfam04024 1300254009562 phage shock protein A; Region: phageshock_pspA; TIGR02977 1300254009563 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1300254009564 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 1300254009565 FMN binding site [chemical binding]; other site 1300254009566 active site 1300254009567 catalytic residues [active] 1300254009568 substrate binding site [chemical binding]; other site 1300254009569 hypothetical protein; Provisional; Region: PRK09897 1300254009570 hypothetical protein; Provisional; Region: PRK11281 1300254009571 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1300254009572 ligand binding site [chemical binding]; other site 1300254009573 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 1300254009574 Rab subfamily motif 1 (RabSF1); other site 1300254009575 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1300254009576 G1 box; other site 1300254009577 GTP/Mg2+ binding site [chemical binding]; other site 1300254009578 Rab subfamily motif 2 (RabSF2); other site 1300254009579 Switch I region; other site 1300254009580 G2 box; other site 1300254009581 effector interaction site; other site 1300254009582 GDI interaction site; other site 1300254009583 Rab family motif 1 (RabF1); other site 1300254009584 GEF interaction site [polypeptide binding]; other site 1300254009585 Rab family motif 2 (RabF2); other site 1300254009586 G3 box; other site 1300254009587 Switch II region; other site 1300254009588 Rab family motif 3 (RabF3); other site 1300254009589 Rab family motif 4 (RabF4); other site 1300254009590 Rab family motif 5 (RabF5); other site 1300254009591 Rab subfamily motif 3 (RabSF3); other site 1300254009592 G4 box; other site 1300254009593 G5 box; other site 1300254009594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254009595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254009596 metal binding site [ion binding]; metal-binding site 1300254009597 active site 1300254009598 I-site; other site 1300254009599 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 1300254009600 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1300254009601 S-formylglutathione hydrolase; Region: PLN02442 1300254009602 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1300254009603 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1300254009604 putative acyl-acceptor binding pocket; other site 1300254009605 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1300254009606 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1300254009607 putative acyl-acceptor binding pocket; other site 1300254009608 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254009609 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254009610 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1300254009611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254009612 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1300254009613 NAD(P) binding site [chemical binding]; other site 1300254009614 active site 1300254009615 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1300254009616 Na2 binding site [ion binding]; other site 1300254009617 putative substrate binding site 1 [chemical binding]; other site 1300254009618 Na binding site 1 [ion binding]; other site 1300254009619 putative substrate binding site 2 [chemical binding]; other site 1300254009620 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1300254009621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254009622 NAD(P) binding site [chemical binding]; other site 1300254009623 active site 1300254009624 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1300254009625 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1300254009626 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1300254009627 metal binding site [ion binding]; metal-binding site 1300254009628 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1300254009629 putative active site [active] 1300254009630 putative metal binding site [ion binding]; other site 1300254009631 flavodoxin FldB; Provisional; Region: PRK12359 1300254009632 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1300254009633 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1300254009634 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 1300254009635 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1300254009636 potential frameshift: common BLAST hit: gi|410863031|ref|YP_006978265.1| celB protein 1300254009637 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1300254009638 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1300254009639 DXD motif; other site 1300254009640 PilZ domain; Region: PilZ; pfam07238 1300254009641 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1300254009642 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1300254009643 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 1300254009644 S-adenosylmethionine binding site [chemical binding]; other site 1300254009645 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1300254009646 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1300254009647 NAD binding site [chemical binding]; other site 1300254009648 active site 1300254009649 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1300254009650 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1300254009651 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254009652 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1300254009653 pentamer interface [polypeptide binding]; other site 1300254009654 dodecaamer interface [polypeptide binding]; other site 1300254009655 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254009656 I-site; other site 1300254009657 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 1300254009658 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1300254009659 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 1300254009660 tetramer interface [polypeptide binding]; other site 1300254009661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254009662 catalytic residue [active] 1300254009663 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1300254009664 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 1300254009665 active site 1300254009666 amino acid transporter; Region: 2A0306; TIGR00909 1300254009667 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1300254009668 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254009669 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 1300254009670 active site 1300254009671 metal binding site [ion binding]; metal-binding site 1300254009672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254009673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254009674 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 1300254009675 dimerization interface [polypeptide binding]; other site 1300254009676 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1300254009677 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 1300254009678 putative active site [active] 1300254009679 putative dimer interface [polypeptide binding]; other site 1300254009680 hypothetical protein; Provisional; Region: PRK11383 1300254009681 yiaA/B two helix domain; Region: YiaAB; pfam05360 1300254009682 yiaA/B two helix domain; Region: YiaAB; pfam05360 1300254009683 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1300254009684 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1300254009685 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1300254009686 Na binding site [ion binding]; other site 1300254009687 putative substrate binding site [chemical binding]; other site 1300254009688 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254009689 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 1300254009690 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1300254009691 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1300254009692 tetrameric interface [polypeptide binding]; other site 1300254009693 NAD binding site [chemical binding]; other site 1300254009694 catalytic residues [active] 1300254009695 Flavin Reductases; Region: FlaRed; cl00801 1300254009696 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 1300254009697 putative FMN binding site [chemical binding]; other site 1300254009698 pyrimidine utilization protein D; Region: RutD; TIGR03611 1300254009699 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 1300254009700 homotrimer interaction site [polypeptide binding]; other site 1300254009701 putative active site [active] 1300254009702 Isochorismatase family; Region: Isochorismatase; pfam00857 1300254009703 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 1300254009704 catalytic triad [active] 1300254009705 conserved cis-peptide bond; other site 1300254009706 pyrimidine utilization protein A; Region: RutA; TIGR03612 1300254009707 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 1300254009708 active site 1300254009709 dimer interface [polypeptide binding]; other site 1300254009710 non-prolyl cis peptide bond; other site 1300254009711 insertion regions; other site 1300254009712 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1300254009713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1300254009714 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1300254009715 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1300254009716 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 1300254009717 ligand binding site [chemical binding]; other site 1300254009718 flexible hinge region; other site 1300254009719 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1300254009720 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1300254009721 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1300254009722 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254009723 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 1300254009724 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 1300254009725 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1300254009726 Trehalase; Region: Trehalase; cl17346 1300254009727 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1300254009728 GntP family permease; Region: GntP_permease; pfam02447 1300254009729 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1300254009730 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1300254009731 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1300254009732 DNA binding site [nucleotide binding] 1300254009733 domain linker motif; other site 1300254009734 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1300254009735 putative dimerization interface [polypeptide binding]; other site 1300254009736 putative ligand binding site [chemical binding]; other site 1300254009737 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1300254009738 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1300254009739 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1300254009740 active site 1300254009741 DNA polymerase IV; Validated; Region: PRK02406 1300254009742 DNA binding site [nucleotide binding] 1300254009743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1300254009744 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1300254009745 ApbE family; Region: ApbE; pfam02424 1300254009746 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1300254009747 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 1300254009748 FAD binding pocket [chemical binding]; other site 1300254009749 FAD binding motif [chemical binding]; other site 1300254009750 phosphate binding motif [ion binding]; other site 1300254009751 beta-alpha-beta structure motif; other site 1300254009752 NAD binding pocket [chemical binding]; other site 1300254009753 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1300254009754 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1300254009755 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1300254009756 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1300254009757 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1300254009758 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1300254009759 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1300254009760 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1300254009761 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1300254009762 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1300254009763 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1300254009764 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1300254009765 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1300254009766 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1300254009767 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1300254009768 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1300254009769 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1300254009770 heme binding site [chemical binding]; other site 1300254009771 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1300254009772 heme binding site [chemical binding]; other site 1300254009773 malate dehydrogenase; Provisional; Region: PRK05086 1300254009774 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1300254009775 NAD binding site [chemical binding]; other site 1300254009776 dimerization interface [polypeptide binding]; other site 1300254009777 Substrate binding site [chemical binding]; other site 1300254009778 arginine repressor; Provisional; Region: PRK05066 1300254009779 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1300254009780 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1300254009781 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1300254009782 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1300254009783 potential catalytic triad [active] 1300254009784 conserved cys residue [active] 1300254009785 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1300254009786 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 1300254009787 DNA polymerase IV; Validated; Region: PRK03858 1300254009788 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1300254009789 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 1300254009790 Sugar specificity; other site 1300254009791 Pyrimidine base specificity; other site 1300254009792 ATP-binding site [chemical binding]; other site 1300254009793 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1300254009794 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1300254009795 Nucleoside recognition; Region: Gate; pfam07670 1300254009796 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1300254009797 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1300254009798 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1300254009799 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1300254009800 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 1300254009801 TPR motif; other site 1300254009802 TPR repeat; Region: TPR_11; pfam13414 1300254009803 binding surface 1300254009804 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 1300254009805 binding surface 1300254009806 TPR motif; other site 1300254009807 TPR repeat; Region: TPR_11; pfam13414 1300254009808 MAPEG family; Region: MAPEG; pfam01124 1300254009809 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254009810 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 1300254009811 active site 1300254009812 phosphorylation site [posttranslational modification] 1300254009813 intermolecular recognition site; other site 1300254009814 dimerization interface [polypeptide binding]; other site 1300254009815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254009816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254009817 metal binding site [ion binding]; metal-binding site 1300254009818 active site 1300254009819 I-site; other site 1300254009820 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1300254009821 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1300254009822 active site 1300254009823 catalytic site [active] 1300254009824 substrate binding site [chemical binding]; other site 1300254009825 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1300254009826 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 1300254009827 ligand binding site [chemical binding]; other site 1300254009828 flexible hinge region; other site 1300254009829 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 1300254009830 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1300254009831 metal binding triad; other site 1300254009832 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1300254009833 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1300254009834 Na binding site [ion binding]; other site 1300254009835 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1300254009836 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1300254009837 Na binding site [ion binding]; other site 1300254009838 PAS fold; Region: PAS_7; pfam12860 1300254009839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254009840 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 1300254009841 dimer interface [polypeptide binding]; other site 1300254009842 phosphorylation site [posttranslational modification] 1300254009843 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 1300254009844 ATP binding site [chemical binding]; other site 1300254009845 Mg2+ binding site [ion binding]; other site 1300254009846 G-X-G motif; other site 1300254009847 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254009848 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 1300254009849 active site 1300254009850 phosphorylation site [posttranslational modification] 1300254009851 intermolecular recognition site; other site 1300254009852 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1300254009853 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254009854 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1300254009855 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1300254009856 Predicted deacylase [General function prediction only]; Region: COG3608 1300254009857 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1300254009858 putative active site [active] 1300254009859 Zn binding site [ion binding]; other site 1300254009860 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1300254009861 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254009862 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 1300254009863 active site 1300254009864 phosphorylation site [posttranslational modification] 1300254009865 intermolecular recognition site; other site 1300254009866 dimerization interface [polypeptide binding]; other site 1300254009867 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 1300254009868 DNA binding residues [nucleotide binding] 1300254009869 dimerization interface [polypeptide binding]; other site 1300254009870 acetyl-CoA synthetase; Provisional; Region: PRK00174 1300254009871 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1300254009872 active site 1300254009873 CoA binding site [chemical binding]; other site 1300254009874 acyl-activating enzyme (AAE) consensus motif; other site 1300254009875 AMP binding site [chemical binding]; other site 1300254009876 acetate binding site [chemical binding]; other site 1300254009877 Porin subfamily; Region: Porin_2; pfam02530 1300254009878 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1300254009879 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1300254009880 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1300254009881 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 1300254009882 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1300254009883 active site 1300254009884 catalytic tetrad [active] 1300254009885 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1300254009886 PAS domain S-box; Region: sensory_box; TIGR00229 1300254009887 PAS domain S-box; Region: sensory_box; TIGR00229 1300254009888 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 1300254009889 putative active site [active] 1300254009890 heme pocket [chemical binding]; other site 1300254009891 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254009892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254009893 metal binding site [ion binding]; metal-binding site 1300254009894 active site 1300254009895 I-site; other site 1300254009896 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 1300254009897 elongation factor Tu; Reviewed; Region: PRK00049 1300254009898 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1300254009899 G1 box; other site 1300254009900 GEF interaction site [polypeptide binding]; other site 1300254009901 GTP/Mg2+ binding site [chemical binding]; other site 1300254009902 Switch I region; other site 1300254009903 G2 box; other site 1300254009904 G3 box; other site 1300254009905 Switch II region; other site 1300254009906 G4 box; other site 1300254009907 G5 box; other site 1300254009908 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 1300254009909 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 1300254009910 Antibiotic Binding Site [chemical binding]; other site 1300254009911 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1300254009912 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 1300254009913 putative DNA binding site [nucleotide binding]; other site 1300254009914 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1300254009915 putative Zn2+ binding site [ion binding]; other site 1300254009916 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1300254009917 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1300254009918 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1300254009919 FAD binding domain; Region: FAD_binding_4; pfam01565 1300254009920 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1300254009921 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1300254009922 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254009923 dimer interface [polypeptide binding]; other site 1300254009924 putative CheW interface [polypeptide binding]; other site 1300254009925 Outer membrane efflux protein; Region: OEP; pfam02321 1300254009926 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254009927 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254009928 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1300254009929 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254009930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254009931 Q-loop/lid; other site 1300254009932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254009933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254009934 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 1300254009935 dimerization interface [polypeptide binding]; other site 1300254009936 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1300254009937 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1300254009938 putative active site [active] 1300254009939 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1300254009940 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1300254009941 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1300254009942 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1300254009943 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1300254009944 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1300254009945 NAD binding site [chemical binding]; other site 1300254009946 substrate binding site [chemical binding]; other site 1300254009947 homodimer interface [polypeptide binding]; other site 1300254009948 active site 1300254009949 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1300254009950 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1300254009951 NADP binding site [chemical binding]; other site 1300254009952 active site 1300254009953 putative substrate binding site [chemical binding]; other site 1300254009954 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1300254009955 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1300254009956 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1300254009957 substrate binding site; other site 1300254009958 tetramer interface; other site 1300254009959 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1300254009960 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 1300254009961 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1300254009962 nudix motif; other site 1300254009963 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1300254009964 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1300254009965 NADP binding site [chemical binding]; other site 1300254009966 active site 1300254009967 putative substrate binding site [chemical binding]; other site 1300254009968 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1300254009969 catalytic triad [active] 1300254009970 putative active site [active] 1300254009971 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1300254009972 Family description; Region: VCBS; pfam13517 1300254009973 Family description; Region: VCBS; pfam13517 1300254009974 Family description; Region: VCBS; pfam13517 1300254009975 Patatin-like phospholipase; Region: Patatin; pfam01734 1300254009976 active site 1300254009977 nucleophile elbow; other site 1300254009978 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1300254009979 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1300254009980 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1300254009981 NADP-binding site; other site 1300254009982 homotetramer interface [polypeptide binding]; other site 1300254009983 substrate binding site [chemical binding]; other site 1300254009984 homodimer interface [polypeptide binding]; other site 1300254009985 active site 1300254009986 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1300254009987 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1300254009988 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1300254009989 Ligand binding site; other site 1300254009990 oligomer interface; other site 1300254009991 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 1300254009992 active site 1300254009993 metal binding site [ion binding]; metal-binding site 1300254009994 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1300254009995 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 1300254009996 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254009997 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 1300254009998 Exostosin family; Region: Exostosin; pfam03016 1300254009999 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1300254010000 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 1300254010001 S-adenosylmethionine binding site [chemical binding]; other site 1300254010002 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1300254010003 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1300254010004 trimer interface [polypeptide binding]; other site 1300254010005 active site 1300254010006 substrate binding site [chemical binding]; other site 1300254010007 CoA binding site [chemical binding]; other site 1300254010008 Family description; Region: VCBS; pfam13517 1300254010009 Family description; Region: VCBS; pfam13517 1300254010010 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 1300254010011 binding surface 1300254010012 TPR motif; other site 1300254010013 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 1300254010014 binding surface 1300254010015 TPR motif; other site 1300254010016 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1300254010017 Trp docking motif [polypeptide binding]; other site 1300254010018 active site 1300254010019 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1300254010020 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 1300254010021 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 1300254010022 metal ion-dependent adhesion site (MIDAS); other site 1300254010023 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 1300254010024 metal ion-dependent adhesion site (MIDAS); other site 1300254010025 Family description; Region: VCBS; pfam13517 1300254010026 Family description; Region: VCBS; pfam13517 1300254010027 Family description; Region: VCBS; pfam13517 1300254010028 Family description; Region: VCBS; pfam13517 1300254010029 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1300254010030 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1300254010031 Probable Catalytic site; other site 1300254010032 metal-binding site 1300254010033 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1300254010034 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1300254010035 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1300254010036 Probable Catalytic site; other site 1300254010037 metal-binding site 1300254010038 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1300254010039 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1300254010040 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1300254010041 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 1300254010042 active site 1300254010043 catalytic residues [active] 1300254010044 metal binding site [ion binding]; metal-binding site 1300254010045 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 1300254010046 active site 1300254010047 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1300254010048 GSCFA family; Region: GSCFA; pfam08885 1300254010049 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1300254010050 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 1300254010051 active site 1300254010052 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1300254010053 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1300254010054 Probable Catalytic site; other site 1300254010055 metal-binding site 1300254010056 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1300254010057 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1300254010058 Probable Catalytic site; other site 1300254010059 metal-binding site 1300254010060 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1300254010061 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1300254010062 Substrate binding site; other site 1300254010063 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1300254010064 phosphomannomutase CpsG; Provisional; Region: PRK15414 1300254010065 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 1300254010066 active site 1300254010067 substrate binding site [chemical binding]; other site 1300254010068 metal binding site [ion binding]; metal-binding site 1300254010069 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1300254010070 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1300254010071 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1300254010072 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1300254010073 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1300254010074 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1300254010075 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1300254010076 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1300254010077 alphaNTD homodimer interface [polypeptide binding]; other site 1300254010078 alphaNTD - beta interaction site [polypeptide binding]; other site 1300254010079 alphaNTD - beta' interaction site [polypeptide binding]; other site 1300254010080 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1300254010081 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1300254010082 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1300254010083 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 1300254010084 RNA binding surface [nucleotide binding]; other site 1300254010085 30S ribosomal protein S11; Validated; Region: PRK05309 1300254010086 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1300254010087 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1300254010088 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1300254010089 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1300254010090 SecY translocase; Region: SecY; pfam00344 1300254010091 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1300254010092 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 1300254010093 23S rRNA binding site [nucleotide binding]; other site 1300254010094 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1300254010095 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1300254010096 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1300254010097 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 1300254010098 5S rRNA interface [nucleotide binding]; other site 1300254010099 23S rRNA interface [nucleotide binding]; other site 1300254010100 L5 interface [polypeptide binding]; other site 1300254010101 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1300254010102 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1300254010103 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1300254010104 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1300254010105 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1300254010106 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1300254010107 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1300254010108 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1300254010109 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1300254010110 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1300254010111 RNA binding site [nucleotide binding]; other site 1300254010112 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1300254010113 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1300254010114 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1300254010115 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 1300254010116 dimer interface [polypeptide binding]; other site 1300254010117 phosphorylation site [posttranslational modification] 1300254010118 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 1300254010119 ATP binding site [chemical binding]; other site 1300254010120 Mg2+ binding site [ion binding]; other site 1300254010121 G-X-G motif; other site 1300254010122 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254010123 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 1300254010124 active site 1300254010125 phosphorylation site [posttranslational modification] 1300254010126 intermolecular recognition site; other site 1300254010127 dimerization interface [polypeptide binding]; other site 1300254010128 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1300254010129 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1300254010130 active site 1300254010131 catalytic residues [active] 1300254010132 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1300254010133 Abi-like protein; Region: Abi_2; cl01988 1300254010134 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1300254010135 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1300254010136 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1300254010137 ribonuclease R; Region: RNase_R; TIGR02063 1300254010138 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1300254010139 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 1300254010140 RNB domain; Region: RNB; pfam00773 1300254010141 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 1300254010142 RNA binding site [nucleotide binding]; other site 1300254010143 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 1300254010144 non-specific DNA binding site [nucleotide binding]; other site 1300254010145 salt bridge; other site 1300254010146 sequence-specific DNA binding site [nucleotide binding]; other site 1300254010147 PhoD-like phosphatase; Region: PhoD; pfam09423 1300254010148 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1300254010149 putative active site [active] 1300254010150 putative metal binding site [ion binding]; other site 1300254010151 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1300254010152 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1300254010153 Predicted transcriptional regulator [Transcription]; Region: COG3905 1300254010154 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1300254010155 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1300254010156 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 1300254010157 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1300254010158 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 1300254010159 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1300254010160 Sel1-like repeats; Region: SEL1; smart00671 1300254010161 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1300254010162 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1300254010163 FMN reductase; Validated; Region: fre; PRK08051 1300254010164 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 1300254010165 FAD binding pocket [chemical binding]; other site 1300254010166 FAD binding motif [chemical binding]; other site 1300254010167 phosphate binding motif [ion binding]; other site 1300254010168 beta-alpha-beta structure motif; other site 1300254010169 NAD binding pocket [chemical binding]; other site 1300254010170 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 1300254010171 putative active site [active] 1300254010172 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1300254010173 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1300254010174 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 1300254010175 Peptidase family M28; Region: Peptidase_M28; pfam04389 1300254010176 putative metal binding site [ion binding]; other site 1300254010177 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 1300254010178 Interdomain contacts; other site 1300254010179 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1300254010180 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1300254010181 GAF domain; Region: GAF; pfam01590 1300254010182 Phytochrome region; Region: PHY; pfam00360 1300254010183 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 1300254010184 dimer interface [polypeptide binding]; other site 1300254010185 phosphorylation site [posttranslational modification] 1300254010186 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 1300254010187 ATP binding site [chemical binding]; other site 1300254010188 Mg2+ binding site [ion binding]; other site 1300254010189 G-X-G motif; other site 1300254010190 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1300254010191 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 1300254010192 active site 1300254010193 phosphorylation site [posttranslational modification] 1300254010194 intermolecular recognition site; other site 1300254010195 dimerization interface [polypeptide binding]; other site 1300254010196 Predicted transcriptional regulators [Transcription]; Region: COG1510 1300254010197 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 1300254010198 putative DNA binding site [nucleotide binding]; other site 1300254010199 putative Zn2+ binding site [ion binding]; other site 1300254010200 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1300254010201 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1300254010202 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1300254010203 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1300254010204 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 1300254010205 putative DNA binding site [nucleotide binding]; other site 1300254010206 putative Zn2+ binding site [ion binding]; other site 1300254010207 AsnC family; Region: AsnC_trans_reg; pfam01037 1300254010208 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 1300254010209 DNA-binding site [nucleotide binding]; DNA binding site 1300254010210 RNA-binding motif; other site 1300254010211 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1300254010212 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1300254010213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1300254010214 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1300254010215 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1300254010216 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 1300254010217 S-adenosylmethionine binding site [chemical binding]; other site 1300254010218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1300254010219 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1300254010220 oligopeptidase A; Provisional; Region: PRK10911 1300254010221 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1300254010222 active site 1300254010223 Zn binding site [ion binding]; other site 1300254010224 Helix-turn-helix domain; Region: HTH_17; pfam12728 1300254010225 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254010226 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 1300254010227 active site 1300254010228 phosphorylation site [posttranslational modification] 1300254010229 intermolecular recognition site; other site 1300254010230 dimerization interface [polypeptide binding]; other site 1300254010231 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1300254010232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1300254010233 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 1300254010234 dimerization interface [polypeptide binding]; other site 1300254010235 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 1300254010236 ATP binding site [chemical binding]; other site 1300254010237 Mg2+ binding site [ion binding]; other site 1300254010238 G-X-G motif; other site 1300254010239 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1300254010240 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 1300254010241 active site 1300254010242 phosphorylation site [posttranslational modification] 1300254010243 intermolecular recognition site; other site 1300254010244 dimerization interface [polypeptide binding]; other site 1300254010245 HD domain; Region: HD_5; pfam13487 1300254010246 glutathione reductase; Validated; Region: PRK06116 1300254010247 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1300254010248 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254010249 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1300254010250 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1300254010251 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 1300254010252 putative [Fe4-S4] binding site [ion binding]; other site 1300254010253 putative molybdopterin cofactor binding site [chemical binding]; other site 1300254010254 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 1300254010255 putative molybdopterin cofactor binding site; other site 1300254010256 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1300254010257 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1300254010258 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1300254010259 Amidohydrolase; Region: Amidohydro_5; pfam13594 1300254010260 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 1300254010261 active site 1300254010262 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 1300254010263 PEGA domain; Region: PEGA; pfam08308 1300254010264 PEGA domain; Region: PEGA; pfam08308 1300254010265 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1300254010266 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1300254010267 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 1300254010268 metal ion-dependent adhesion site (MIDAS); other site 1300254010269 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 1300254010270 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1300254010271 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1300254010272 tetramerization interface [polypeptide binding]; other site 1300254010273 substrate binding pocket [chemical binding]; other site 1300254010274 catalytic residues [active] 1300254010275 inhibitor binding sites; inhibition site 1300254010276 NADP(H) binding site [chemical binding]; other site 1300254010277 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1300254010278 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254010279 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1300254010280 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 1300254010281 putative active site [active] 1300254010282 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254010283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254010284 Walker A/P-loop; other site 1300254010285 ATP binding site [chemical binding]; other site 1300254010286 Q-loop/lid; other site 1300254010287 ABC transporter signature motif; other site 1300254010288 Walker B; other site 1300254010289 D-loop; other site 1300254010290 H-loop/switch region; other site 1300254010291 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1300254010292 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 1300254010293 DNA binding residues [nucleotide binding] 1300254010294 dimerization interface [polypeptide binding]; other site 1300254010295 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1300254010296 putative regulator PrlF; Provisional; Region: PRK09974 1300254010297 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 1300254010298 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1300254010299 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 1300254010300 Walker A motif; other site 1300254010301 ATP binding site [chemical binding]; other site 1300254010302 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1300254010303 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1300254010304 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 1300254010305 active site 1300254010306 HslU subunit interaction site [polypeptide binding]; other site 1300254010307 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 1300254010308 Sporulation related domain; Region: SPOR; pfam05036 1300254010309 primosome assembly protein PriA; Validated; Region: PRK05580 1300254010310 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 1300254010311 ATP binding site [chemical binding]; other site 1300254010312 putative Mg++ binding site [ion binding]; other site 1300254010313 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1300254010314 ATP-binding site [chemical binding]; other site 1300254010315 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1300254010316 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1300254010317 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1300254010318 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1300254010319 putative NAD(P) binding site [chemical binding]; other site 1300254010320 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 1300254010321 dimerization interface [polypeptide binding]; other site 1300254010322 DNA binding site [nucleotide binding] 1300254010323 corepressor binding sites; other site 1300254010324 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 1300254010325 FAD binding site [chemical binding]; other site 1300254010326 hypothetical protein; Reviewed; Region: PRK01637 1300254010327 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1300254010328 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1300254010329 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 1300254010330 putative active site [active] 1300254010331 dimerization interface [polypeptide binding]; other site 1300254010332 putative tRNAtyr binding site [nucleotide binding]; other site 1300254010333 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1300254010334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254010335 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1300254010336 Coenzyme A binding pocket [chemical binding]; other site 1300254010337 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1300254010338 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1300254010339 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254010340 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 1300254010341 DNA binding residues [nucleotide binding] 1300254010342 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1300254010343 EAL domain; Region: EAL; pfam00563 1300254010344 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1300254010345 EAL domain; Region: EAL; pfam00563 1300254010346 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1300254010347 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1300254010348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254010349 Walker A/P-loop; other site 1300254010350 ATP binding site [chemical binding]; other site 1300254010351 Q-loop/lid; other site 1300254010352 ABC transporter signature motif; other site 1300254010353 Walker B; other site 1300254010354 D-loop; other site 1300254010355 H-loop/switch region; other site 1300254010356 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1300254010357 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1300254010358 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 1300254010359 P loop; other site 1300254010360 GTP binding site [chemical binding]; other site 1300254010361 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 1300254010362 Protein of unknown function (DUF416); Region: DUF416; pfam04222 1300254010363 MarC family integral membrane protein; Region: MarC; cl00919 1300254010364 aminopeptidase B; Provisional; Region: PRK05015 1300254010365 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 1300254010366 interface (dimer of trimers) [polypeptide binding]; other site 1300254010367 Substrate-binding/catalytic site; other site 1300254010368 Zn-binding sites [ion binding]; other site 1300254010369 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1300254010370 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1300254010371 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1300254010372 active site 1300254010373 HIGH motif; other site 1300254010374 nucleotide binding site [chemical binding]; other site 1300254010375 KMSKS motif; other site 1300254010376 poly(A) polymerase; Region: pcnB; TIGR01942 1300254010377 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1300254010378 active site 1300254010379 NTP binding site [chemical binding]; other site 1300254010380 metal binding triad [ion binding]; metal-binding site 1300254010381 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1300254010382 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1300254010383 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 1300254010384 catalytic center binding site [active] 1300254010385 ATP binding site [chemical binding]; other site 1300254010386 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 1300254010387 oligomerization interface [polypeptide binding]; other site 1300254010388 active site 1300254010389 metal binding site [ion binding]; metal-binding site 1300254010390 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1300254010391 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1300254010392 active site 1300254010393 ATP-binding site [chemical binding]; other site 1300254010394 pantoate-binding site; other site 1300254010395 HXXH motif; other site 1300254010396 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 1300254010397 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1300254010398 catalytic residue [active] 1300254010399 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 1300254010400 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 1300254010401 S-adenosylmethionine binding site [chemical binding]; other site 1300254010402 inner membrane transport permease; Provisional; Region: PRK15066 1300254010403 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1300254010404 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1300254010405 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1300254010406 Walker A/P-loop; other site 1300254010407 ATP binding site [chemical binding]; other site 1300254010408 Q-loop/lid; other site 1300254010409 ABC transporter signature motif; other site 1300254010410 Walker B; other site 1300254010411 D-loop; other site 1300254010412 H-loop/switch region; other site 1300254010413 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 1300254010414 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 1300254010415 active site 1300254010416 phosphorylation site [posttranslational modification] 1300254010417 intermolecular recognition site; other site 1300254010418 dimerization interface [polypeptide binding]; other site 1300254010419 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 1300254010420 DNA binding site [nucleotide binding] 1300254010421 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 1300254010422 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 1300254010423 putative ligand binding site [chemical binding]; other site 1300254010424 HAMP domain; Region: HAMP; pfam00672 1300254010425 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 1300254010426 dimer interface [polypeptide binding]; other site 1300254010427 phosphorylation site [posttranslational modification] 1300254010428 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 1300254010429 ATP binding site [chemical binding]; other site 1300254010430 Mg2+ binding site [ion binding]; other site 1300254010431 G-X-G motif; other site 1300254010432 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1300254010433 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 1300254010434 N-terminal plug; other site 1300254010435 ligand-binding site [chemical binding]; other site 1300254010436 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1300254010437 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1300254010438 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1300254010439 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1300254010440 Domain of unknown function DUF21; Region: DUF21; pfam01595 1300254010441 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 1300254010442 Predicted permeases [General function prediction only]; Region: COG0701 1300254010443 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1300254010444 Carbon starvation protein CstA; Region: CstA; pfam02554 1300254010445 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1300254010446 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1300254010447 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1300254010448 TraB family; Region: TraB; pfam01963 1300254010449 elongation factor Tu; Reviewed; Region: PRK00049 1300254010450 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1300254010451 G1 box; other site 1300254010452 GEF interaction site [polypeptide binding]; other site 1300254010453 GTP/Mg2+ binding site [chemical binding]; other site 1300254010454 Switch I region; other site 1300254010455 G2 box; other site 1300254010456 G3 box; other site 1300254010457 Switch II region; other site 1300254010458 G4 box; other site 1300254010459 G5 box; other site 1300254010460 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 1300254010461 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 1300254010462 Antibiotic Binding Site [chemical binding]; other site 1300254010463 elongation factor G; Reviewed; Region: PRK00007 1300254010464 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1300254010465 G1 box; other site 1300254010466 putative GEF interaction site [polypeptide binding]; other site 1300254010467 GTP/Mg2+ binding site [chemical binding]; other site 1300254010468 Switch I region; other site 1300254010469 G2 box; other site 1300254010470 G3 box; other site 1300254010471 Switch II region; other site 1300254010472 G4 box; other site 1300254010473 G5 box; other site 1300254010474 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 1300254010475 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 1300254010476 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 1300254010477 30S ribosomal protein S7; Validated; Region: PRK05302 1300254010478 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 1300254010479 S17 interaction site [polypeptide binding]; other site 1300254010480 S8 interaction site; other site 1300254010481 16S rRNA interaction site [nucleotide binding]; other site 1300254010482 streptomycin interaction site [chemical binding]; other site 1300254010483 23S rRNA interaction site [nucleotide binding]; other site 1300254010484 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1300254010485 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1300254010486 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1300254010487 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1300254010488 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1300254010489 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1300254010490 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1300254010491 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1300254010492 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1300254010493 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1300254010494 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1300254010495 DNA binding site [nucleotide binding] 1300254010496 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1300254010497 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1300254010498 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 1300254010499 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1300254010500 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 1300254010501 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1300254010502 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 1300254010503 RPB3 interaction site [polypeptide binding]; other site 1300254010504 RPB1 interaction site [polypeptide binding]; other site 1300254010505 RPB11 interaction site [polypeptide binding]; other site 1300254010506 RPB10 interaction site [polypeptide binding]; other site 1300254010507 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1300254010508 core dimer interface [polypeptide binding]; other site 1300254010509 peripheral dimer interface [polypeptide binding]; other site 1300254010510 L10 interface [polypeptide binding]; other site 1300254010511 L11 interface [polypeptide binding]; other site 1300254010512 putative EF-Tu interaction site [polypeptide binding]; other site 1300254010513 putative EF-G interaction site [polypeptide binding]; other site 1300254010514 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 1300254010515 23S rRNA interface [nucleotide binding]; other site 1300254010516 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1300254010517 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 1300254010518 mRNA/rRNA interface [nucleotide binding]; other site 1300254010519 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1300254010520 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 1300254010521 23S rRNA interface [nucleotide binding]; other site 1300254010522 L7/L12 interface [polypeptide binding]; other site 1300254010523 putative thiostrepton binding site; other site 1300254010524 L25 interface [polypeptide binding]; other site 1300254010525 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1300254010526 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1300254010527 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1300254010528 putative homodimer interface [polypeptide binding]; other site 1300254010529 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1300254010530 heterodimer interface [polypeptide binding]; other site 1300254010531 homodimer interface [polypeptide binding]; other site 1300254010532 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1300254010533 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1300254010534 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254010535 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1300254010536 Walker A/P-loop; other site 1300254010537 ATP binding site [chemical binding]; other site 1300254010538 Q-loop/lid; other site 1300254010539 ABC transporter signature motif; other site 1300254010540 Walker B; other site 1300254010541 D-loop; other site 1300254010542 H-loop/switch region; other site 1300254010543 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1300254010544 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1300254010545 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1300254010546 active site 1300254010547 Zn binding site [ion binding]; other site 1300254010548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1300254010549 ACT domain; Region: ACT_3; pfam10000 1300254010550 Family description; Region: ACT_7; pfam13840 1300254010551 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1300254010552 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 1300254010553 ATP binding site [chemical binding]; other site 1300254010554 Mg++ binding site [ion binding]; other site 1300254010555 motif III; other site 1300254010556 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 1300254010557 nucleotide binding region [chemical binding]; other site 1300254010558 ATP-binding site [chemical binding]; other site 1300254010559 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1300254010560 putative RNA binding site [nucleotide binding]; other site 1300254010561 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 1300254010562 active site 1300254010563 substrate binding pocket [chemical binding]; other site 1300254010564 dimer interface [polypeptide binding]; other site 1300254010565 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1300254010566 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1300254010567 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 1300254010568 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1300254010569 active site 1300254010570 catalytic tetrad [active] 1300254010571 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 1300254010572 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254010573 putative metal binding site [ion binding]; other site 1300254010574 Conserved TM helix; Region: TM_helix; pfam05552 1300254010575 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1300254010576 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1300254010577 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 1300254010578 putative substrate translocation pore; other site 1300254010579 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 1300254010580 trehalose synthase; Region: treS_nterm; TIGR02456 1300254010581 active site 1300254010582 catalytic site [active] 1300254010583 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1300254010584 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1300254010585 active site 1300254010586 dihydromonapterin reductase; Provisional; Region: PRK06483 1300254010587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254010588 NAD(P) binding site [chemical binding]; other site 1300254010589 active site 1300254010590 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1300254010591 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1300254010592 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1300254010593 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1300254010594 putative active site; other site 1300254010595 catalytic triad [active] 1300254010596 putative dimer interface [polypeptide binding]; other site 1300254010597 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1300254010598 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1300254010599 putative active site [active] 1300254010600 putative metal binding site [ion binding]; other site 1300254010601 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1300254010602 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 1300254010603 putative Mg++ binding site [ion binding]; other site 1300254010604 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 1300254010605 nucleotide binding region [chemical binding]; other site 1300254010606 ATP-binding site [chemical binding]; other site 1300254010607 DEAD/H associated; Region: DEAD_assoc; pfam08494 1300254010608 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1300254010609 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1300254010610 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1300254010611 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 1300254010612 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1300254010613 active site 1300254010614 DNA binding site [nucleotide binding] 1300254010615 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 1300254010616 DNA binding site [nucleotide binding] 1300254010617 elongation factor P; Provisional; Region: PRK04542 1300254010618 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1300254010619 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 1300254010620 RNA binding site [nucleotide binding]; other site 1300254010621 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 1300254010622 RNA binding site [nucleotide binding]; other site 1300254010623 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1300254010624 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 1300254010625 putative substrate binding site [chemical binding]; other site 1300254010626 putative ATP binding site [chemical binding]; other site 1300254010627 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 1300254010628 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1300254010629 non-specific DNA interactions [nucleotide binding]; other site 1300254010630 DNA binding site [nucleotide binding] 1300254010631 sequence specific DNA binding site [nucleotide binding]; other site 1300254010632 putative cAMP binding site [chemical binding]; other site 1300254010633 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1300254010634 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1300254010635 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 1300254010636 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1300254010637 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1300254010638 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 1300254010639 C-terminal domain interface [polypeptide binding]; other site 1300254010640 GSH binding site (G-site) [chemical binding]; other site 1300254010641 dimer interface [polypeptide binding]; other site 1300254010642 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1300254010643 N-terminal domain interface [polypeptide binding]; other site 1300254010644 dimer interface [polypeptide binding]; other site 1300254010645 substrate binding pocket (H-site) [chemical binding]; other site 1300254010646 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1300254010647 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 1300254010648 putative C-terminal domain interface [polypeptide binding]; other site 1300254010649 putative GSH binding site (G-site) [chemical binding]; other site 1300254010650 putative dimer interface [polypeptide binding]; other site 1300254010651 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1300254010652 N-terminal domain interface [polypeptide binding]; other site 1300254010653 dimer interface [polypeptide binding]; other site 1300254010654 substrate binding pocket (H-site) [chemical binding]; other site 1300254010655 lipase chaperone; Provisional; Region: PRK01294 1300254010656 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1300254010657 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1300254010658 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1300254010659 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1300254010660 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 1300254010661 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 1300254010662 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 1300254010663 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1300254010664 NAD(P) binding site [chemical binding]; other site 1300254010665 catalytic residues [active] 1300254010666 acetolactate synthase; Reviewed; Region: PRK08322 1300254010667 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1300254010668 PYR/PP interface [polypeptide binding]; other site 1300254010669 dimer interface [polypeptide binding]; other site 1300254010670 TPP binding site [chemical binding]; other site 1300254010671 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1300254010672 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 1300254010673 TPP-binding site [chemical binding]; other site 1300254010674 dimer interface [polypeptide binding]; other site 1300254010675 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1300254010676 ferrochelatase; Reviewed; Region: hemH; PRK00035 1300254010677 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 1300254010678 C-terminal domain interface [polypeptide binding]; other site 1300254010679 active site 1300254010680 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 1300254010681 active site 1300254010682 N-terminal domain interface [polypeptide binding]; other site 1300254010683 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1300254010684 AbgT putative transporter family; Region: ABG_transport; pfam03806 1300254010685 FtsH protease regulator HflC; Provisional; Region: PRK11029 1300254010686 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 1300254010687 FtsH protease regulator HflK; Provisional; Region: PRK10930 1300254010688 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1300254010689 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 1300254010690 GTPase HflX; Provisional; Region: PRK11058 1300254010691 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1300254010692 HflX GTPase family; Region: HflX; cd01878 1300254010693 G1 box; other site 1300254010694 GTP/Mg2+ binding site [chemical binding]; other site 1300254010695 Switch I region; other site 1300254010696 G2 box; other site 1300254010697 G3 box; other site 1300254010698 Switch II region; other site 1300254010699 G4 box; other site 1300254010700 G5 box; other site 1300254010701 bacterial Hfq-like; Region: Hfq; cd01716 1300254010702 hexamer interface [polypeptide binding]; other site 1300254010703 Sm1 motif; other site 1300254010704 RNA binding site [nucleotide binding]; other site 1300254010705 Sm2 motif; other site 1300254010706 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1300254010707 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1300254010708 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1300254010709 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 1300254010710 ATP binding site [chemical binding]; other site 1300254010711 Mg2+ binding site [ion binding]; other site 1300254010712 G-X-G motif; other site 1300254010713 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 1300254010714 ATP binding site [chemical binding]; other site 1300254010715 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1300254010716 AMIN domain; Region: AMIN; pfam11741 1300254010717 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 1300254010718 active site 1300254010719 metal binding site [ion binding]; metal-binding site 1300254010720 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1300254010721 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1300254010722 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1300254010723 putative carbohydrate kinase; Provisional; Region: PRK10565 1300254010724 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1300254010725 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 1300254010726 putative substrate binding site [chemical binding]; other site 1300254010727 putative ATP binding site [chemical binding]; other site 1300254010728 epoxyqueuosine reductase; Region: TIGR00276 1300254010729 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1300254010730 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1300254010731 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 1300254010732 substrate binding site [chemical binding]; other site 1300254010733 active site 1300254010734 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1300254010735 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1300254010736 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1300254010737 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 1300254010738 putative NADH binding site [chemical binding]; other site 1300254010739 putative active site [active] 1300254010740 nudix motif; other site 1300254010741 putative metal binding site [ion binding]; other site 1300254010742 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1300254010743 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1300254010744 metal binding site 2 [ion binding]; metal-binding site 1300254010745 putative DNA binding helix; other site 1300254010746 metal binding site 1 [ion binding]; metal-binding site 1300254010747 dimer interface [polypeptide binding]; other site 1300254010748 structural Zn2+ binding site [ion binding]; other site 1300254010749 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1300254010750 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1300254010751 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1300254010752 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1300254010753 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1300254010754 ligand binding site [chemical binding]; other site 1300254010755 replicative DNA helicase; Region: DnaB; TIGR00665 1300254010756 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1300254010757 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 1300254010758 Walker A motif; other site 1300254010759 ATP binding site [chemical binding]; other site 1300254010760 Walker B motif; other site 1300254010761 DNA binding loops [nucleotide binding] 1300254010762 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1300254010763 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1300254010764 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254010765 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 1300254010766 DNA binding residues [nucleotide binding] 1300254010767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1300254010768 MOSC domain; Region: MOSC; pfam03473 1300254010769 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1300254010770 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1300254010771 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1300254010772 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1300254010773 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1300254010774 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1300254010775 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1300254010776 GAF domain; Region: GAF; pfam01590 1300254010777 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254010778 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 1300254010779 dimer interface [polypeptide binding]; other site 1300254010780 phosphorylation site [posttranslational modification] 1300254010781 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 1300254010782 ATP binding site [chemical binding]; other site 1300254010783 Mg2+ binding site [ion binding]; other site 1300254010784 G-X-G motif; other site 1300254010785 YebG protein; Region: YebG; pfam07130 1300254010786 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1300254010787 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1300254010788 Walker A/P-loop; other site 1300254010789 ATP binding site [chemical binding]; other site 1300254010790 Q-loop/lid; other site 1300254010791 ABC transporter signature motif; other site 1300254010792 Walker B; other site 1300254010793 D-loop; other site 1300254010794 H-loop/switch region; other site 1300254010795 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1300254010796 FtsX-like permease family; Region: FtsX; pfam02687 1300254010797 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 1300254010798 PAS domain; Region: PAS_9; pfam13426 1300254010799 putative active site [active] 1300254010800 heme pocket [chemical binding]; other site 1300254010801 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254010802 dimer interface [polypeptide binding]; other site 1300254010803 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1300254010804 putative CheW interface [polypeptide binding]; other site 1300254010805 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254010806 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 1300254010807 ATP binding site [chemical binding]; other site 1300254010808 Mg2+ binding site [ion binding]; other site 1300254010809 G-X-G motif; other site 1300254010810 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1300254010811 dimer interface [polypeptide binding]; other site 1300254010812 putative CheW interface [polypeptide binding]; other site 1300254010813 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1300254010814 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254010815 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1300254010816 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1300254010817 active site 1300254010818 catalytic residues [active] 1300254010819 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254010820 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 1300254010821 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 1300254010822 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1300254010823 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1300254010824 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1300254010825 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1300254010826 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1300254010827 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 1300254010828 putative substrate translocation pore; other site 1300254010829 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1300254010830 beta-galactosidase; Region: BGL; TIGR03356 1300254010831 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1300254010832 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1300254010833 DNA binding site [nucleotide binding] 1300254010834 domain linker motif; other site 1300254010835 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 1300254010836 dimerization interface (closed form) [polypeptide binding]; other site 1300254010837 ligand binding site [chemical binding]; other site 1300254010838 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1300254010839 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 1300254010840 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 1300254010841 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1300254010842 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1300254010843 Q-loop/lid; other site 1300254010844 ABC transporter signature motif; other site 1300254010845 Walker B; other site 1300254010846 D-loop; other site 1300254010847 H-loop/switch region; other site 1300254010848 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1300254010849 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 1300254010850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254010851 Walker A/P-loop; other site 1300254010852 ATP binding site [chemical binding]; other site 1300254010853 Q-loop/lid; other site 1300254010854 ABC transporter signature motif; other site 1300254010855 Walker B; other site 1300254010856 D-loop; other site 1300254010857 H-loop/switch region; other site 1300254010858 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1300254010859 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1300254010860 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1300254010861 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1300254010862 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1300254010863 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1300254010864 PAS fold; Region: PAS_4; pfam08448 1300254010865 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1300254010866 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 1300254010867 Walker A motif; other site 1300254010868 ATP binding site [chemical binding]; other site 1300254010869 Walker B motif; other site 1300254010870 arginine finger; other site 1300254010871 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1300254010872 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 1300254010873 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1300254010874 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1300254010875 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1300254010876 SnoaL-like domain; Region: SnoaL_3; pfam13474 1300254010877 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1300254010878 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254010879 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254010880 metal binding site [ion binding]; metal-binding site 1300254010881 active site 1300254010882 I-site; other site 1300254010883 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 1300254010884 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1300254010885 putative substrate translocation pore; other site 1300254010886 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1300254010887 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 1300254010888 FAD binding pocket [chemical binding]; other site 1300254010889 FAD binding motif [chemical binding]; other site 1300254010890 phosphate binding motif [ion binding]; other site 1300254010891 NAD binding pocket [chemical binding]; other site 1300254010892 CsbD-like; Region: CsbD; cl17424 1300254010893 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1300254010894 hypothetical protein; Provisional; Region: PRK09256 1300254010895 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1300254010896 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1300254010897 S-formylglutathione hydrolase; Region: PLN02442 1300254010898 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 1300254010899 FOG: CBS domain [General function prediction only]; Region: COG0517 1300254010900 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1300254010901 hypothetical protein; Provisional; Region: PRK03757 1300254010902 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1300254010903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254010904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1300254010905 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254010906 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 1300254010907 N-terminal plug; other site 1300254010908 ligand-binding site [chemical binding]; other site 1300254010909 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1300254010910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1300254010911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254010912 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 1300254010913 putative effector binding pocket; other site 1300254010914 dimerization interface [polypeptide binding]; other site 1300254010915 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1300254010916 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1300254010917 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1300254010918 NAD(P) binding site [chemical binding]; other site 1300254010919 substrate binding site [chemical binding]; other site 1300254010920 dimer interface [polypeptide binding]; other site 1300254010921 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254010922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254010923 metal binding site [ion binding]; metal-binding site 1300254010924 active site 1300254010925 I-site; other site 1300254010926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1300254010927 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 1300254010928 dimerization interface [polypeptide binding]; other site 1300254010929 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 1300254010930 dimer interface [polypeptide binding]; other site 1300254010931 phosphorylation site [posttranslational modification] 1300254010932 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 1300254010933 ATP binding site [chemical binding]; other site 1300254010934 Mg2+ binding site [ion binding]; other site 1300254010935 G-X-G motif; other site 1300254010936 Response regulator receiver domain; Region: Response_reg; pfam00072 1300254010937 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 1300254010938 active site 1300254010939 phosphorylation site [posttranslational modification] 1300254010940 intermolecular recognition site; other site 1300254010941 dimerization interface [polypeptide binding]; other site 1300254010942 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1300254010943 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1300254010944 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1300254010945 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1300254010946 Domain of unknown function (DUF305); Region: DUF305; cl17794 1300254010947 SnoaL-like domain; Region: SnoaL_3; pfam13474 1300254010948 SnoaL-like domain; Region: SnoaL_2; pfam12680 1300254010949 Copper resistance protein D; Region: CopD; cl00563 1300254010950 CopC domain; Region: CopC; pfam04234 1300254010951 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1300254010952 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1300254010953 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1300254010954 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254010955 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1300254010956 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1300254010957 Outer membrane efflux protein; Region: OEP; pfam02321 1300254010958 Outer membrane efflux protein; Region: OEP; pfam02321 1300254010959 Protein of unknown function, DUF; Region: DUF411; cl01142 1300254010960 Predicted permease; Region: DUF318; cl17795 1300254010961 Cation efflux family; Region: Cation_efflux; pfam01545 1300254010962 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1300254010963 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 1300254010964 carboxyltransferase (CT) interaction site; other site 1300254010965 biotinylation site [posttranslational modification]; other site 1300254010966 HlyD family secretion protein; Region: HlyD_3; pfam13437 1300254010967 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1300254010968 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1300254010969 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1300254010970 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1300254010971 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1300254010972 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1300254010973 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1300254010974 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1300254010975 DNA binding residues [nucleotide binding] 1300254010976 dimer interface [polypeptide binding]; other site 1300254010977 putative metal binding site [ion binding]; other site 1300254010978 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 1300254010979 metal-binding site [ion binding] 1300254010980 AAA domain; Region: AAA_22; pfam13401 1300254010981 AAA ATPase domain; Region: AAA_16; pfam13191 1300254010982 Walker A motif; other site 1300254010983 ATP binding site [chemical binding]; other site 1300254010984 Walker B motif; other site 1300254010985 arginine finger; other site 1300254010986 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 1300254010987 Integrase core domain; Region: rve; pfam00665 1300254010988 potential frameshift: common BLAST hit: gi|406598618|ref|YP_006749748.1| transposon Tn7 transposition protein TnsA 1300254010989 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1300254010990 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 1300254010991 glutaminase active site [active] 1300254010992 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 1300254010993 dimer interface [polypeptide binding]; other site 1300254010994 active site 1300254010995 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 1300254010996 dimer interface [polypeptide binding]; other site 1300254010997 active site 1300254010998 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1300254010999 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1300254011000 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1300254011001 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1300254011002 putative oxidoreductase; Provisional; Region: PRK11579 1300254011003 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1300254011004 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1300254011005 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1300254011006 Substrate binding site; other site 1300254011007 Mg++ binding site; other site 1300254011008 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 1300254011009 active site 1300254011010 substrate binding site [chemical binding]; other site 1300254011011 CoA binding site [chemical binding]; other site 1300254011012 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1300254011013 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1300254011014 metal binding site [ion binding]; metal-binding site 1300254011015 active site 1300254011016 I-site; other site 1300254011017 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1300254011018 EamA-like transporter family; Region: EamA; pfam00892 1300254011019 EamA-like transporter family; Region: EamA; pfam00892 1300254011020 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1300254011021 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1300254011022 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 1300254011023 DNA binding site [nucleotide binding] 1300254011024 active site 1300254011025 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1300254011026 Helix-turn-helix domain; Region: HTH_18; pfam12833 1300254011027 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1300254011028 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1300254011029 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1300254011030 minor groove reading motif; other site 1300254011031 helix-hairpin-helix signature motif; other site 1300254011032 substrate binding pocket [chemical binding]; other site 1300254011033 active site 1300254011034 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1300254011035 Beta-lactamase; Region: Beta-lactamase; pfam00144 1300254011036 arginine decarboxylase; Provisional; Region: PRK05354 1300254011037 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1300254011038 dimer interface [polypeptide binding]; other site 1300254011039 active site 1300254011040 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1300254011041 catalytic residues [active] 1300254011042 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1300254011043 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1300254011044 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1300254011045 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1300254011046 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1300254011047 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1300254011048 ligand binding site [chemical binding]; other site 1300254011049 homodimer interface [polypeptide binding]; other site 1300254011050 NAD(P) binding site [chemical binding]; other site 1300254011051 trimer interface B [polypeptide binding]; other site 1300254011052 trimer interface A [polypeptide binding]; other site 1300254011053 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254011054 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 1300254011055 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 1300254011056 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1300254011057 SapC; Region: SapC; pfam07277 1300254011058 Secretin and TonB N terminus short domain; Region: STN; smart00965 1300254011059 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1300254011060 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 1300254011061 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 1300254011062 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1300254011063 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254011064 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 1300254011065 DNA binding residues [nucleotide binding] 1300254011066 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1300254011067 FecR protein; Region: FecR; pfam04773 1300254011068 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1300254011069 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1300254011070 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1300254011071 UbiA prenyltransferase family; Region: UbiA; pfam01040 1300254011072 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1300254011073 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 1300254011074 Subunit I/III interface [polypeptide binding]; other site 1300254011075 Subunit III/IV interface [polypeptide binding]; other site 1300254011076 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1300254011077 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 1300254011078 D-pathway; other site 1300254011079 Putative ubiquinol binding site [chemical binding]; other site 1300254011080 Low-spin heme (heme b) binding site [chemical binding]; other site 1300254011081 Putative water exit pathway; other site 1300254011082 Binuclear center (heme o3/CuB) [ion binding]; other site 1300254011083 K-pathway; other site 1300254011084 Putative proton exit pathway; other site 1300254011085 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1300254011086 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1300254011087 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1300254011088 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1300254011089 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 1300254011090 oligomeric interface; other site 1300254011091 putative active site [active] 1300254011092 homodimer interface [polypeptide binding]; other site 1300254011093 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 1300254011094 DNA binding site [nucleotide binding] 1300254011095 active site 1300254011096 Int/Topo IB signature motif; other site 1300254011097 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 1300254011098 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1300254011099 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1300254011100 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 1300254011101 ring oligomerisation interface [polypeptide binding]; other site 1300254011102 ATP/Mg binding site [chemical binding]; other site 1300254011103 stacking interactions; other site 1300254011104 hinge regions; other site 1300254011105 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 1300254011106 oligomerisation interface [polypeptide binding]; other site 1300254011107 mobile loop; other site 1300254011108 roof hairpin; other site 1300254011109 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1300254011110 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1300254011111 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1300254011112 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1300254011113 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1300254011114 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 1300254011115 DsbD alpha interface [polypeptide binding]; other site 1300254011116 catalytic residues [active] 1300254011117 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1300254011118 Peptidase family M23; Region: Peptidase_M23; pfam01551 1300254011119 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 1300254011120 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1300254011121 active site 1300254011122 trimer interface [polypeptide binding]; other site 1300254011123 dimer interface [polypeptide binding]; other site 1300254011124 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1300254011125 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 1300254011126 carboxyltransferase (CT) interaction site; other site 1300254011127 biotinylation site [posttranslational modification]; other site 1300254011128 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1300254011129 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1300254011130 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1300254011131 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1300254011132 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 1300254011133 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1300254011134 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1300254011135 active site 1300254011136 catalytic site [active] 1300254011137 substrate binding site [chemical binding]; other site 1300254011138 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1300254011139 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1300254011140 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1300254011141 amidase; Provisional; Region: PRK08137 1300254011142 Amidase; Region: Amidase; pfam01425 1300254011143 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1300254011144 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 1300254011145 substrate binding pocket [chemical binding]; other site 1300254011146 membrane-bound complex binding site; other site 1300254011147 hinge residues; other site 1300254011148 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1300254011149 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 1300254011150 S-adenosylmethionine binding site [chemical binding]; other site 1300254011151 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1300254011152 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 1300254011153 FMN binding site [chemical binding]; other site 1300254011154 active site 1300254011155 catalytic residues [active] 1300254011156 substrate binding site [chemical binding]; other site 1300254011157 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1300254011158 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1300254011159 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1300254011160 purine monophosphate binding site [chemical binding]; other site 1300254011161 dimer interface [polypeptide binding]; other site 1300254011162 putative catalytic residues [active] 1300254011163 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1300254011164 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1300254011165 Predicted methyltransferase [General function prediction only]; Region: COG4798 1300254011166 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1300254011167 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1300254011168 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1300254011169 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1300254011170 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1300254011171 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1300254011172 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 1300254011173 putative ligand binding site [chemical binding]; other site 1300254011174 Ion transport protein; Region: Ion_trans; pfam00520 1300254011175 Ion channel; Region: Ion_trans_2; pfam07885 1300254011176 phosphoribulokinase; Provisional; Region: PRK15453 1300254011177 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1300254011178 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1300254011179 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 1300254011180 active site 1300254011181 phosphorylation site [posttranslational modification] 1300254011182 intermolecular recognition site; other site 1300254011183 dimerization interface [polypeptide binding]; other site 1300254011184 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 1300254011185 DNA binding site [nucleotide binding] 1300254011186 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1300254011187 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 1300254011188 dimerization interface [polypeptide binding]; other site 1300254011189 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 1300254011190 dimer interface [polypeptide binding]; other site 1300254011191 phosphorylation site [posttranslational modification] 1300254011192 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 1300254011193 ATP binding site [chemical binding]; other site 1300254011194 Mg2+ binding site [ion binding]; other site 1300254011195 G-X-G motif; other site 1300254011196 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 1300254011197 putative substrate translocation pore; other site 1300254011198 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1300254011199 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1300254011200 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 1300254011201 putative active site [active] 1300254011202 putative catalytic site [active] 1300254011203 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 1300254011204 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1300254011205 active site 1300254011206 substrate-binding site [chemical binding]; other site 1300254011207 metal-binding site [ion binding] 1300254011208 ATP binding site [chemical binding]; other site 1300254011209 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1300254011210 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 1300254011211 dimerization interface [polypeptide binding]; other site 1300254011212 domain crossover interface; other site 1300254011213 redox-dependent activation switch; other site 1300254011214 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 1300254011215 RNA binding surface [nucleotide binding]; other site 1300254011216 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 1300254011217 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1300254011218 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 1300254011219 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1300254011220 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1300254011221 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1300254011222 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1300254011223 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1300254011224 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1300254011225 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 1300254011226 Walker A motif; other site 1300254011227 ATP binding site [chemical binding]; other site 1300254011228 Walker B motif; other site 1300254011229 type II secretion system protein F; Region: GspF; TIGR02120 1300254011230 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1300254011231 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1300254011232 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1300254011233 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1300254011234 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1300254011235 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1300254011236 type II secretion system protein I; Region: gspI; TIGR01707 1300254011237 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1300254011238 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1300254011239 type II secretion system protein J; Region: gspJ; TIGR01711 1300254011240 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1300254011241 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1300254011242 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1300254011243 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1300254011244 GspL periplasmic domain; Region: GspL_C; pfam12693 1300254011245 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1300254011246 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1300254011247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1300254011248 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1300254011249 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1300254011250 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1300254011251 NAD(P) binding site [chemical binding]; other site 1300254011252 catalytic residues [active] 1300254011253 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1300254011254 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1300254011255 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 1300254011256 motif II; other site 1300254011257 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1300254011258 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 1300254011259 dimer interface [polypeptide binding]; other site 1300254011260 ADP-ribose binding site [chemical binding]; other site 1300254011261 active site 1300254011262 nudix motif; other site 1300254011263 metal binding site [ion binding]; metal-binding site 1300254011264 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 1300254011265 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1300254011266 active site 1300254011267 YceI-like domain; Region: YceI; pfam04264 1300254011268 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1300254011269 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1300254011270 Ligand binding site; other site 1300254011271 DXD motif; other site 1300254011272 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1300254011273 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1300254011274 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1300254011275 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 1300254011276 putative hydrolase; Provisional; Region: PRK10985 1300254011277 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1300254011278 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1300254011279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1300254011280 Walker A/P-loop; other site 1300254011281 ATP binding site [chemical binding]; other site 1300254011282 Q-loop/lid; other site 1300254011283 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254011284 ABC transporter; Region: ABC_tran_2; pfam12848 1300254011285 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1300254011286 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1300254011287 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1300254011288 SlyX; Region: SlyX; pfam04102 1300254011289 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1300254011290 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 1300254011291 structural tetrad; other site 1300254011292 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1300254011293 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1300254011294 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1300254011295 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1300254011296 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1300254011297 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1300254011298 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1300254011299 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1300254011300 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1300254011301 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1300254011302 RNA binding site [nucleotide binding]; other site 1300254011303 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 1300254011304 active site 1300254011305 SprA-related family; Region: SprA-related; pfam12118 1300254011306 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1300254011307 PGAP1-like protein; Region: PGAP1; pfam07819 1300254011308 comF family protein; Region: comF; TIGR00201 1300254011309 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1300254011310 active site 1300254011311 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1300254011312 putative active site [active] 1300254011313 Zn binding site [ion binding]; other site 1300254011314 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1300254011315 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1300254011316 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1300254011317 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1300254011318 aspartate racemase; Region: asp_race; TIGR00035 1300254011319 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 1300254011320 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1300254011321 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1300254011322 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1300254011323 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 1300254011324 putative active site [active] 1300254011325 putative metal binding site [ion binding]; other site 1300254011326 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1300254011327 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1300254011328 Coenzyme A binding pocket [chemical binding]; other site 1300254011329 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1300254011330 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 1300254011331 Cu(I) binding site [ion binding]; other site 1300254011332 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1300254011333 UbiA prenyltransferase family; Region: UbiA; pfam01040 1300254011334 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1300254011335 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1300254011336 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 1300254011337 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1300254011338 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1300254011339 Subunit III/VIIa interface [polypeptide binding]; other site 1300254011340 Phospholipid binding site [chemical binding]; other site 1300254011341 Subunit I/III interface [polypeptide binding]; other site 1300254011342 Subunit III/VIb interface [polypeptide binding]; other site 1300254011343 Subunit III/VIa interface; other site 1300254011344 Subunit III/Vb interface [polypeptide binding]; other site 1300254011345 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1300254011346 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1300254011347 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 1300254011348 Subunit I/III interface [polypeptide binding]; other site 1300254011349 D-pathway; other site 1300254011350 Subunit I/VIIc interface [polypeptide binding]; other site 1300254011351 Subunit I/IV interface [polypeptide binding]; other site 1300254011352 Subunit I/II interface [polypeptide binding]; other site 1300254011353 Low-spin heme (heme a) binding site [chemical binding]; other site 1300254011354 Subunit I/VIIa interface [polypeptide binding]; other site 1300254011355 Subunit I/VIa interface [polypeptide binding]; other site 1300254011356 Dimer interface; other site 1300254011357 Putative water exit pathway; other site 1300254011358 Binuclear center (heme a3/CuB) [ion binding]; other site 1300254011359 K-pathway; other site 1300254011360 Subunit I/Vb interface [polypeptide binding]; other site 1300254011361 Putative proton exit pathway; other site 1300254011362 Subunit I/VIb interface; other site 1300254011363 Subunit I/VIc interface [polypeptide binding]; other site 1300254011364 Electron transfer pathway; other site 1300254011365 Subunit I/VIIIb interface [polypeptide binding]; other site 1300254011366 Subunit I/VIIb interface [polypeptide binding]; other site 1300254011367 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00139 1300254011368 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1300254011369 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1300254011370 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1300254011371 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1300254011372 LexA repressor; Validated; Region: PRK00215 1300254011373 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1300254011374 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 1300254011375 Catalytic site [active] 1300254011376 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1300254011377 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1300254011378 putative acyl-acceptor binding pocket; other site 1300254011379 threonine dehydratase; Reviewed; Region: PRK09224 1300254011380 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 1300254011381 tetramer interface [polypeptide binding]; other site 1300254011382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1300254011383 catalytic residue [active] 1300254011384 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1300254011385 putative Ile/Val binding site [chemical binding]; other site 1300254011386 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1300254011387 putative Ile/Val binding site [chemical binding]; other site 1300254011388 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1300254011389 UPF0126 domain; Region: UPF0126; pfam03458 1300254011390 Predicted membrane protein [Function unknown]; Region: COG2860 1300254011391 UPF0126 domain; Region: UPF0126; pfam03458 1300254011392 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1300254011393 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1300254011394 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 1300254011395 Walker A motif; other site 1300254011396 ATP binding site [chemical binding]; other site 1300254011397 Walker B motif; other site 1300254011398 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1300254011399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1300254011400 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1300254011401 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 1300254011402 putative dimerization interface [polypeptide binding]; other site 1300254011403 ketol-acid reductoisomerase; Validated; Region: PRK05225 1300254011404 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1300254011405 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1300254011406 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1300254011407 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 1300254011408 putative substrate translocation pore; other site 1300254011409 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1300254011410 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1300254011411 Surface antigen; Region: Bac_surface_Ag; pfam01103 1300254011412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1300254011413 Family of unknown function (DUF490); Region: DUF490; pfam04357 1300254011414 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1300254011415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1300254011416 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 1300254011417 DNA binding residues [nucleotide binding] 1300254011418 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1300254011419 EamA-like transporter family; Region: EamA; pfam00892 1300254011420 EamA-like transporter family; Region: EamA; pfam00892 1300254011421 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1300254011422 glycerate dehydrogenase; Provisional; Region: PRK06487 1300254011423 putative ligand binding site [chemical binding]; other site 1300254011424 putative NAD binding site [chemical binding]; other site 1300254011425 catalytic site [active] 1300254011426 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 1300254011427 active site 1300254011428 gamma-glutamyl kinase; Provisional; Region: PRK05429 1300254011429 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 1300254011430 nucleotide binding site [chemical binding]; other site 1300254011431 homotetrameric interface [polypeptide binding]; other site 1300254011432 putative phosphate binding site [ion binding]; other site 1300254011433 putative allosteric binding site; other site 1300254011434 PUA domain; Region: PUA; pfam01472 1300254011435 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 1300254011436 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1300254011437 Zn binding site [ion binding]; other site 1300254011438 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1300254011439 ABC1 family; Region: ABC1; cl17513 1300254011440 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 1300254011441 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1300254011442 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1300254011443 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 1300254011444 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 1300254011445 active site 1300254011446 Predicted membrane protein [Function unknown]; Region: COG1238 1300254011447 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1300254011448 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1300254011449 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 1300254011450 CPxP motif; other site 1300254011451 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1300254011452 active site 1300254011453 ribonuclease PH; Reviewed; Region: rph; PRK00173 1300254011454 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1300254011455 hexamer interface [polypeptide binding]; other site 1300254011456 active site 1300254011457 hypothetical protein; Provisional; Region: PRK11820 1300254011458 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1300254011459 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1300254011460 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 1300254011461 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1300254011462 active site 1300254011463 Int/Topo IB signature motif; other site 1300254011464 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1300254011465 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1300254011466 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1300254011467 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1300254011468 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 1300254011469 non-specific DNA binding site [nucleotide binding]; other site 1300254011470 salt bridge; other site 1300254011471 sequence-specific DNA binding site [nucleotide binding]; other site 1300254011472 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1300254011473 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 1300254011474 non-specific DNA binding site [nucleotide binding]; other site 1300254011475 salt bridge; other site 1300254011476 sequence-specific DNA binding site [nucleotide binding]; other site 1300254011477 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 1300254011478 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1300254011479 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 1300254011480 ATP binding site [chemical binding]; other site 1300254011481 putative Mg++ binding site [ion binding]; other site 1300254011482 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 1300254011483 nucleotide binding region [chemical binding]; other site 1300254011484 ATP-binding site [chemical binding]; other site 1300254011485 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1300254011486 active site 1300254011487 HIGH motif; other site 1300254011488 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1300254011489 HEAT repeats; Region: HEAT_2; pfam13646 1300254011490 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1300254011491 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 1300254011492 binding surface 1300254011493 TPR motif; other site 1300254011494 TPR repeat; Region: TPR_11; pfam13414 1300254011495 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 1300254011496 binding surface 1300254011497 TPR motif; other site 1300254011498 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1300254011499 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1300254011500 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 1300254011501 N-terminal plug; other site 1300254011502 ligand-binding site [chemical binding]; other site 1300254011503 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1300254011504 AAA domain; Region: AAA_30; pfam13604 1300254011505 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 1300254011506 DNA binding residues [nucleotide binding] 1300254011507 dimerization interface [polypeptide binding]; other site 1300254011508 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1300254011509 Sulfatase; Region: Sulfatase; pfam00884 1300254011510 MoxR-like ATPases [General function prediction only]; Region: COG0714 1300254011511 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 1300254011512 Walker A motif; other site 1300254011513 ATP binding site [chemical binding]; other site 1300254011514 Walker B motif; other site 1300254011515 arginine finger; other site 1300254011516 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1300254011517 Protein of unknown function DUF58; Region: DUF58; pfam01882 1300254011518 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1300254011519 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 1300254011520 metal ion-dependent adhesion site (MIDAS); other site 1300254011521 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1300254011522 metal ion-dependent adhesion site (MIDAS); other site 1300254011523 Oxygen tolerance; Region: BatD; pfam13584 1300254011524 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1300254011525 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1300254011526 choline dehydrogenase; Validated; Region: PRK02106 1300254011527 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1300254011528 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1300254011529 NAD(P) binding site [chemical binding]; other site 1300254011530 catalytic residues [active] 1300254011531 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1300254011532 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1300254011533 acyl-activating enzyme (AAE) consensus motif; other site 1300254011534 putative AMP binding site [chemical binding]; other site 1300254011535 putative active site [active] 1300254011536 putative CoA binding site [chemical binding]; other site 1300254011537 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1300254011538 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1300254011539 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1300254011540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1300254011541 NAD(P) binding site [chemical binding]; other site 1300254011542 active site 1300254011543 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1300254011544 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1300254011545 active site 1300254011546 lipid-transfer protein; Provisional; Region: PRK08256 1300254011547 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1300254011548 active site 1300254011549 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1300254011550 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 1300254011551 substrate binding site [chemical binding]; other site 1300254011552 oxyanion hole (OAH) forming residues; other site 1300254011553 trimer interface [polypeptide binding]; other site 1300254011554 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1300254011555 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1300254011556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1300254011557 putative transposase OrfB; Reviewed; Region: PHA02517 1300254011558 HTH-like domain; Region: HTH_21; pfam13276 1300254011559 Integrase core domain; Region: rve; pfam00665 1300254011560 Integrase core domain; Region: rve_2; pfam13333 1300254011561 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1300254011562 Transposase; Region: HTH_Tnp_1; pfam01527 1300254011563 quinolinate synthetase; Provisional; Region: PRK09375 1300254011564 glucokinase; Provisional; Region: glk; PRK00292 1300254011565 phosphogluconate dehydratase; Validated; Region: PRK09054 1300254011566 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1300254011567 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1300254011568 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 1300254011569 putative active site [active] 1300254011570 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1300254011571 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1300254011572 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1300254011573 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1300254011574 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1300254011575 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 1300254011576 putative active site [active] 1300254011577 pyruvate kinase; Provisional; Region: PRK05826 1300254011578 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 1300254011579 domain interfaces; other site 1300254011580 active site 1300254011581 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1300254011582 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 1300254011583 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1300254011584 Walker A motif; other site 1300254011585 ATP binding site [chemical binding]; other site 1300254011586 Walker B motif; other site 1300254011587 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1300254011588 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1300254011589 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1300254011590 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1300254011591 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 1300254011592 non-specific DNA binding site [nucleotide binding]; other site 1300254011593 salt bridge; other site 1300254011594 sequence-specific DNA binding site [nucleotide binding]; other site 1300254011595 Fic family protein [Function unknown]; Region: COG3177 1300254011596 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1300254011597 Fic/DOC family; Region: Fic; pfam02661 1300254011598 DNA replication protein DnaC; Validated; Region: PRK07952 1300254011599 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 1300254011600 Walker A motif; other site 1300254011601 ATP binding site [chemical binding]; other site 1300254011602 primosomal protein DnaI; Provisional; Region: PRK02854 1300254011603 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1300254011604 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1300254011605 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1300254011606 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1300254011607 G4 box; other site 1300254011608 GTP/Mg2+ binding site [chemical binding]; other site 1300254011609 G5 box; other site 1300254011610 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1300254011611 G1 box; other site 1300254011612 G1 box; other site 1300254011613 GTP/Mg2+ binding site [chemical binding]; other site 1300254011614 Switch I region; other site 1300254011615 Switch I region; other site 1300254011616 G2 box; other site 1300254011617 G2 box; other site 1300254011618 Switch II region; other site 1300254011619 G3 box; other site 1300254011620 G3 box; other site 1300254011621 Switch II region; other site 1300254011622 G4 box; other site 1300254011623 G5 box; other site 1300254011624 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1300254011625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1300254011626 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1300254011627 membrane protein insertase; Provisional; Region: PRK01318 1300254011628 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1300254011629 Haemolytic domain; Region: Haemolytic; pfam01809 1300254011630 Ribonuclease P; Region: Ribonuclease_P; cl00457 1300254011631 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399