-- dump date 20140620_003221 -- class Genbank::misc_feature -- table misc_feature_note -- id note 342610000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 342610000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 342610000003 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 342610000004 Walker A motif; other site 342610000005 ATP binding site [chemical binding]; other site 342610000006 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 342610000007 Walker B motif; other site 342610000008 arginine finger; other site 342610000009 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 342610000010 DnaA box-binding interface [nucleotide binding]; other site 342610000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 342610000012 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 342610000013 putative DNA binding surface [nucleotide binding]; other site 342610000014 dimer interface [polypeptide binding]; other site 342610000015 beta-clamp/clamp loader binding surface; other site 342610000016 beta-clamp/translesion DNA polymerase binding surface; other site 342610000017 recombination protein F; Reviewed; Region: recF; PRK00064 342610000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610000019 Walker A/P-loop; other site 342610000020 ATP binding site [chemical binding]; other site 342610000021 Q-loop/lid; other site 342610000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610000023 ABC transporter signature motif; other site 342610000024 Walker B; other site 342610000025 D-loop; other site 342610000026 H-loop/switch region; other site 342610000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 342610000028 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 342610000029 Mg2+ binding site [ion binding]; other site 342610000030 G-X-G motif; other site 342610000031 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 342610000032 anchoring element; other site 342610000033 dimer interface [polypeptide binding]; other site 342610000034 ATP binding site [chemical binding]; other site 342610000035 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 342610000036 active site 342610000037 putative metal-binding site [ion binding]; other site 342610000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 342610000039 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 342610000040 aspartate racemase; Region: asp_race; TIGR00035 342610000041 HAMP domain; Region: HAMP; pfam00672 342610000042 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610000043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000044 metal binding site [ion binding]; metal-binding site 342610000045 active site 342610000046 I-site; other site 342610000047 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 342610000048 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 342610000049 DALR anticodon binding domain; Region: DALR_1; pfam05746 342610000050 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 342610000051 dimer interface [polypeptide binding]; other site 342610000052 motif 1; other site 342610000053 active site 342610000054 motif 2; other site 342610000055 motif 3; other site 342610000056 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 342610000057 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 342610000058 Der GTPase activator; Provisional; Region: PRK05244 342610000059 Cytochrome c553 [Energy production and conversion]; Region: COG2863 342610000060 Cytochrome c; Region: Cytochrom_C; cl11414 342610000061 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 342610000062 G1 box; other site 342610000063 GTP/Mg2+ binding site [chemical binding]; other site 342610000064 Switch I region; other site 342610000065 G2 box; other site 342610000066 G3 box; other site 342610000067 Switch II region; other site 342610000068 G4 box; other site 342610000069 G5 box; other site 342610000070 DNA polymerase I; Provisional; Region: PRK05755 342610000071 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 342610000072 active site 342610000073 metal binding site 1 [ion binding]; metal-binding site 342610000074 putative 5' ssDNA interaction site; other site 342610000075 metal binding site 3; metal-binding site 342610000076 metal binding site 2 [ion binding]; metal-binding site 342610000077 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 342610000078 putative DNA binding site [nucleotide binding]; other site 342610000079 putative metal binding site [ion binding]; other site 342610000080 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 342610000081 active site 342610000082 catalytic site [active] 342610000083 substrate binding site [chemical binding]; other site 342610000084 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 342610000085 active site 342610000086 DNA binding site [nucleotide binding] 342610000087 catalytic site [active] 342610000088 Cation transport protein; Region: TrkH; cl17365 342610000089 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 342610000090 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 342610000091 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 342610000092 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 342610000093 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 342610000094 TrkA-N domain; Region: TrkA_N; pfam02254 342610000095 TrkA-C domain; Region: TrkA_C; pfam02080 342610000096 TrkA-N domain; Region: TrkA_N; pfam02254 342610000097 TrkA-C domain; Region: TrkA_C; pfam02080 342610000098 16S rRNA methyltransferase B; Provisional; Region: PRK10901 342610000099 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 342610000100 putative RNA binding site [nucleotide binding]; other site 342610000101 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 342610000102 S-adenosylmethionine binding site [chemical binding]; other site 342610000103 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 342610000104 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 342610000105 putative active site [active] 342610000106 substrate binding site [chemical binding]; other site 342610000107 putative cosubstrate binding site; other site 342610000108 catalytic site [active] 342610000109 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 342610000110 substrate binding site [chemical binding]; other site 342610000111 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 342610000112 active site 342610000113 catalytic residues [active] 342610000114 metal binding site [ion binding]; metal-binding site 342610000115 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 342610000116 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 342610000117 hypothetical protein; Provisional; Region: PRK10736 342610000118 DNA protecting protein DprA; Region: dprA; TIGR00732 342610000119 hypothetical protein; Validated; Region: PRK03430 342610000120 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610000121 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 342610000122 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610000123 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 342610000124 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 342610000125 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 342610000126 OmpW family; Region: OmpW; cl17427 342610000127 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 342610000128 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 342610000129 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 342610000130 shikimate binding site; other site 342610000131 NAD(P) binding site [chemical binding]; other site 342610000132 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 342610000133 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 342610000134 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 342610000135 trimer interface [polypeptide binding]; other site 342610000136 putative metal binding site [ion binding]; other site 342610000137 DNA Polymerase Y-family; Region: PolY_like; cd03468 342610000138 active site 342610000139 DNA binding site [nucleotide binding] 342610000140 Uncharacterized conserved protein [Function unknown]; Region: COG4544 342610000141 EVE domain; Region: EVE; cl00728 342610000142 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610000143 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 342610000144 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610000145 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 342610000146 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610000147 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 342610000148 Peptidase family M28; Region: Peptidase_M28; pfam04389 342610000149 metal binding site [ion binding]; metal-binding site 342610000150 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610000151 division inhibitor protein; Provisional; Region: slmA; PRK09480 342610000152 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610000153 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 342610000154 Flavoprotein; Region: Flavoprotein; pfam02441 342610000155 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 342610000156 hypothetical protein; Reviewed; Region: PRK00024 342610000157 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 342610000158 MPN+ (JAMM) motif; other site 342610000159 Zinc-binding site [ion binding]; other site 342610000160 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610000161 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 342610000162 Substrate binding site; other site 342610000163 metal-binding site 342610000164 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 342610000165 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 342610000166 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 342610000167 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 342610000168 DNA binding site [nucleotide binding] 342610000169 catalytic residue [active] 342610000170 H2TH interface [polypeptide binding]; other site 342610000171 putative catalytic residues [active] 342610000172 turnover-facilitating residue; other site 342610000173 intercalation triad [nucleotide binding]; other site 342610000174 8OG recognition residue [nucleotide binding]; other site 342610000175 putative reading head residues; other site 342610000176 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 342610000177 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 342610000178 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 342610000179 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 342610000180 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 342610000181 active site 342610000182 (T/H)XGH motif; other site 342610000183 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 342610000184 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 342610000185 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 342610000186 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610000187 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 342610000188 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 342610000189 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 342610000190 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 342610000191 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610000192 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000193 metal binding site [ion binding]; metal-binding site 342610000194 active site 342610000195 I-site; other site 342610000196 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 342610000197 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 342610000198 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 342610000199 substrate-cofactor binding pocket; other site 342610000200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610000201 catalytic residue [active] 342610000202 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 342610000203 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 342610000204 NAD(P) binding site [chemical binding]; other site 342610000205 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 342610000206 active site residue [active] 342610000207 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 342610000208 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 342610000209 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 342610000210 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 342610000211 Chorismate lyase; Region: Chor_lyase; cl01230 342610000212 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 342610000213 UbiA prenyltransferase family; Region: UbiA; pfam01040 342610000214 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 342610000215 dimerization interface [polypeptide binding]; other site 342610000216 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610000217 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610000218 dimer interface [polypeptide binding]; other site 342610000219 putative CheW interface [polypeptide binding]; other site 342610000220 Membrane fusogenic activity; Region: BMFP; pfam04380 342610000221 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 342610000222 Part of AAA domain; Region: AAA_19; pfam13245 342610000223 Family description; Region: UvrD_C_2; pfam13538 342610000224 GAF domain; Region: GAF; cl17456 342610000225 GAF domain; Region: GAF_2; pfam13185 342610000226 GAF domain; Region: GAF_3; pfam13492 342610000227 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610000228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610000229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000230 metal binding site [ion binding]; metal-binding site 342610000231 active site 342610000232 I-site; other site 342610000233 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 342610000234 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 342610000235 DNA ligase; Provisional; Region: PRK09125 342610000236 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 342610000237 DNA binding site [nucleotide binding] 342610000238 active site 342610000239 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 342610000240 DNA binding site [nucleotide binding] 342610000241 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 342610000242 TAP-like protein; Region: Abhydrolase_4; pfam08386 342610000243 oxidative damage protection protein; Provisional; Region: PRK05408 342610000244 adenine DNA glycosylase; Provisional; Region: PRK10880 342610000245 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 342610000246 minor groove reading motif; other site 342610000247 helix-hairpin-helix signature motif; other site 342610000248 substrate binding pocket [chemical binding]; other site 342610000249 active site 342610000250 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 342610000251 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 342610000252 DNA binding and oxoG recognition site [nucleotide binding] 342610000253 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610000254 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 342610000255 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610000256 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 342610000257 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 342610000258 Methyltransferase small domain; Region: MTS; pfam05175 342610000259 glycogen synthase; Provisional; Region: glgA; PRK00654 342610000260 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 342610000261 ADP-binding pocket [chemical binding]; other site 342610000262 homodimer interface [polypeptide binding]; other site 342610000263 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610000264 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 342610000265 dimerization interface [polypeptide binding]; other site 342610000266 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 342610000267 dimer interface [polypeptide binding]; other site 342610000268 phosphorylation site [posttranslational modification] 342610000269 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 342610000270 ATP binding site [chemical binding]; other site 342610000271 Mg2+ binding site [ion binding]; other site 342610000272 G-X-G motif; other site 342610000273 two-component response regulator; Provisional; Region: PRK11173 342610000274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610000275 active site 342610000276 phosphorylation site [posttranslational modification] 342610000277 intermolecular recognition site; other site 342610000278 dimerization interface [polypeptide binding]; other site 342610000279 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 342610000280 DNA binding site [nucleotide binding] 342610000281 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 342610000282 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 342610000283 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 342610000284 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 342610000285 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 342610000286 DsbD alpha interface [polypeptide binding]; other site 342610000287 catalytic residues [active] 342610000288 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610000289 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610000290 active site 342610000291 Protein of unknown function, DUF479; Region: DUF479; cl01203 342610000292 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 342610000293 Dehydroquinase class II; Region: DHquinase_II; pfam01220 342610000294 trimer interface [polypeptide binding]; other site 342610000295 active site 342610000296 dimer interface [polypeptide binding]; other site 342610000297 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 342610000298 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 342610000299 carboxyltransferase (CT) interaction site; other site 342610000300 biotinylation site [posttranslational modification]; other site 342610000301 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 342610000302 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610000303 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 342610000304 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 342610000305 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 342610000306 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 342610000307 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 342610000308 DNA methylase; Region: N6_N4_Mtase; cl17433 342610000309 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 342610000310 S-adenosylmethionine binding site [chemical binding]; other site 342610000311 Predicted transcriptional regulators [Transcription]; Region: COG1733 342610000312 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 342610000313 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 342610000314 active site 342610000315 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 342610000316 Transcriptional regulators [Transcription]; Region: MarR; COG1846 342610000317 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 342610000318 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 342610000319 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 342610000320 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 342610000321 Walker A motif; other site 342610000322 ATP binding site [chemical binding]; other site 342610000323 Walker B motif; other site 342610000324 arginine finger; other site 342610000325 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 342610000326 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 342610000327 metal ion-dependent adhesion site (MIDAS); other site 342610000328 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610000329 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610000330 conserved cys residue [active] 342610000331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000332 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000333 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 342610000334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610000335 active site 342610000336 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 342610000337 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 342610000338 active site 342610000339 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 342610000340 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 342610000341 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 342610000342 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 342610000343 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 342610000344 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 342610000345 FOG: WD40 repeat [General function prediction only]; Region: COG2319 342610000346 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 342610000347 structural tetrad; other site 342610000348 SlyX; Region: SlyX; pfam04102 342610000349 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 342610000350 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 342610000351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610000352 Walker A/P-loop; other site 342610000353 ATP binding site [chemical binding]; other site 342610000354 Q-loop/lid; other site 342610000355 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610000356 ABC transporter; Region: ABC_tran_2; pfam12848 342610000357 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610000358 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610000359 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 342610000360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610000361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610000362 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 342610000363 putative dimerization interface [polypeptide binding]; other site 342610000364 Predicted membrane protein [Function unknown]; Region: COG2855 342610000365 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000366 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 342610000367 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000368 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 342610000369 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 342610000370 dimerization interface [polypeptide binding]; other site 342610000371 putative active cleft [active] 342610000372 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610000373 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 342610000374 putative substrate translocation pore; other site 342610000375 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000376 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 342610000377 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610000378 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610000379 DNA binding site [nucleotide binding] 342610000380 domain linker motif; other site 342610000381 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 342610000382 dimerization interface [polypeptide binding]; other site 342610000383 ligand binding site [chemical binding]; other site 342610000384 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610000385 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 342610000386 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 342610000387 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 342610000388 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 342610000389 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 342610000390 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 342610000391 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 342610000392 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 342610000393 active site 342610000394 dimer interface [polypeptide binding]; other site 342610000395 catalytic nucleophile [active] 342610000396 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 342610000397 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with...; Region: GH85_ENGase; cd06547 342610000398 putative active site [active] 342610000399 CutC family; Region: CutC; cl01218 342610000400 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 342610000401 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610000402 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 342610000403 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 342610000404 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610000405 Na binding site [ion binding]; other site 342610000406 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 342610000407 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 342610000408 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 342610000409 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 342610000410 dimer interface [polypeptide binding]; other site 342610000411 active site 342610000412 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 342610000413 dimer interface [polypeptide binding]; other site 342610000414 active site 342610000415 putative hydrolase; Provisional; Region: PRK10985 342610000416 hypothetical protein; Provisional; Region: PRK04966 342610000417 YceI-like domain; Region: YceI; pfam04264 342610000418 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 342610000419 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 342610000420 active site 342610000421 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 342610000422 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 342610000423 dimer interface [polypeptide binding]; other site 342610000424 ADP-ribose binding site [chemical binding]; other site 342610000425 active site 342610000426 nudix motif; other site 342610000427 metal binding site [ion binding]; metal-binding site 342610000428 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 342610000429 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 342610000430 motif II; other site 342610000431 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 342610000432 dimer interface [polypeptide binding]; other site 342610000433 substrate binding site [chemical binding]; other site 342610000434 metal binding sites [ion binding]; metal-binding site 342610000435 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610000436 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 342610000437 putative substrate translocation pore; other site 342610000438 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 342610000439 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 342610000440 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 342610000441 dimerization interface [polypeptide binding]; other site 342610000442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610000443 dimer interface [polypeptide binding]; other site 342610000444 putative CheW interface [polypeptide binding]; other site 342610000445 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 342610000446 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 342610000447 active site 342610000448 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 342610000449 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 342610000450 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 342610000451 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 342610000452 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 342610000453 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610000454 putative substrate translocation pore; other site 342610000455 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 342610000456 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 342610000457 dimer interface [polypeptide binding]; other site 342610000458 ssDNA binding site [nucleotide binding]; other site 342610000459 tetramer (dimer of dimers) interface [polypeptide binding]; other site 342610000460 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610000461 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 342610000462 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 342610000463 DNA photolyase; Region: DNA_photolyase; pfam00875 342610000464 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 342610000465 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 342610000466 DNA photolyase; Region: DNA_photolyase; pfam00875 342610000467 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610000468 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 342610000469 NAD(P) binding site [chemical binding]; other site 342610000470 catalytic residues [active] 342610000471 AMP-binding domain protein; Validated; Region: PRK08315 342610000472 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 342610000473 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 342610000474 acyl-activating enzyme (AAE) consensus motif; other site 342610000475 putative AMP binding site [chemical binding]; other site 342610000476 putative active site [active] 342610000477 putative CoA binding site [chemical binding]; other site 342610000478 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610000479 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 342610000480 Cytochrome c; Region: Cytochrom_C; cl11414 342610000481 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 342610000482 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610000483 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610000484 Methylamine utilisation protein MauE; Region: MauE; pfam07291 342610000485 Methylamine dehydrogenase heavy chain (MADH); Region: Me-amine-dh_H; pfam06433 342610000486 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610000487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610000488 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 342610000489 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 342610000490 AsnC family; Region: AsnC_trans_reg; pfam01037 342610000491 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 342610000492 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 342610000493 inhibitor-cofactor binding pocket; inhibition site 342610000494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610000495 catalytic residue [active] 342610000496 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 342610000497 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 342610000498 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 342610000499 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 342610000500 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 342610000501 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 342610000502 Secretin and TonB N terminus short domain; Region: STN; pfam07660 342610000503 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 342610000504 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 342610000505 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610000506 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 342610000507 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 342610000508 Walker A motif; other site 342610000509 ATP binding site [chemical binding]; other site 342610000510 Walker B motif; other site 342610000511 arginine finger; other site 342610000512 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 342610000513 binding surface 342610000514 TPR motif; other site 342610000515 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 342610000516 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 342610000517 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 342610000518 Walker A motif; other site 342610000519 ATP binding site [chemical binding]; other site 342610000520 Walker B motif; other site 342610000521 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 342610000522 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610000523 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610000524 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 342610000525 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 342610000526 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 342610000527 heterodimerization interface [polypeptide binding]; other site 342610000528 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 342610000529 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 342610000530 rod shape-determining protein MreB; Provisional; Region: PRK13927 342610000531 MreB and similar proteins; Region: MreB_like; cd10225 342610000532 nucleotide binding site [chemical binding]; other site 342610000533 Mg binding site [ion binding]; other site 342610000534 putative protofilament interaction site [polypeptide binding]; other site 342610000535 RodZ interaction site [polypeptide binding]; other site 342610000536 rod shape-determining protein MreC; Provisional; Region: PRK13922 342610000537 rod shape-determining protein MreC; Region: MreC; pfam04085 342610000538 rod shape-determining protein MreD; Region: MreD; cl01087 342610000539 Maf-like protein; Region: Maf; pfam02545 342610000540 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 342610000541 active site 342610000542 dimer interface [polypeptide binding]; other site 342610000543 ribonuclease G; Provisional; Region: PRK11712 342610000544 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 342610000545 homodimer interface [polypeptide binding]; other site 342610000546 oligonucleotide binding site [chemical binding]; other site 342610000547 TIGR02099 family protein; Region: TIGR02099 342610000548 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 342610000549 nitrilase; Region: PLN02798 342610000550 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 342610000551 putative active site [active] 342610000552 catalytic triad [active] 342610000553 dimer interface [polypeptide binding]; other site 342610000554 protease TldD; Provisional; Region: tldD; PRK10735 342610000555 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 342610000556 hypothetical protein; Provisional; Region: PRK05255 342610000557 peptidase PmbA; Provisional; Region: PRK11040 342610000558 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610000559 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610000560 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610000561 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 342610000562 putative C-terminal domain interface [polypeptide binding]; other site 342610000563 putative GSH binding site (G-site) [chemical binding]; other site 342610000564 putative dimer interface [polypeptide binding]; other site 342610000565 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610000566 N-terminal domain interface [polypeptide binding]; other site 342610000567 dimer interface [polypeptide binding]; other site 342610000568 substrate binding pocket (H-site) [chemical binding]; other site 342610000569 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 342610000570 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 342610000571 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 342610000572 proline dipeptidase; Provisional; Region: PRK13607 342610000573 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 342610000574 active site 342610000575 lytic murein transglycosylase; Provisional; Region: PRK11619 342610000576 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 342610000577 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610000578 catalytic residue [active] 342610000579 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 342610000580 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 342610000581 substrate binding site [chemical binding]; other site 342610000582 oxyanion hole (OAH) forming residues; other site 342610000583 trimer interface [polypeptide binding]; other site 342610000584 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 342610000585 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610000586 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610000587 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 342610000588 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 342610000589 dimer interface [polypeptide binding]; other site 342610000590 active site 342610000591 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610000592 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 342610000593 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 342610000594 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610000595 putative substrate translocation pore; other site 342610000596 hypothetical protein; Provisional; Region: PRK09897 342610000597 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 342610000598 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 342610000599 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610000600 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610000601 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610000602 short chain dehydrogenase; Validated; Region: PRK08264 342610000603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610000604 NAD(P) binding site [chemical binding]; other site 342610000605 active site 342610000606 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 342610000607 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 342610000608 active site 342610000609 nucleophile elbow; other site 342610000610 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 342610000611 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610000612 catalytic residue [active] 342610000613 Uncharacterized conserved protein [Function unknown]; Region: COG1284 342610000614 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 342610000615 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610000616 putative metal binding site [ion binding]; other site 342610000617 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 342610000618 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 342610000619 GDP-binding site [chemical binding]; other site 342610000620 ACT binding site; other site 342610000621 IMP binding site; other site 342610000622 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 342610000623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610000624 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 342610000625 dimer interface [polypeptide binding]; other site 342610000626 phosphorylation site [posttranslational modification] 342610000627 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 342610000628 ATP binding site [chemical binding]; other site 342610000629 Mg2+ binding site [ion binding]; other site 342610000630 G-X-G motif; other site 342610000631 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610000632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610000633 active site 342610000634 phosphorylation site [posttranslational modification] 342610000635 intermolecular recognition site; other site 342610000636 dimerization interface [polypeptide binding]; other site 342610000637 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 342610000638 DNA binding site [nucleotide binding] 342610000639 Spondin_N; Region: Spond_N; pfam06468 342610000640 Spondin_N; Region: Spond_N; pfam06468 342610000641 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cd03873 342610000642 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cd03873 342610000643 metal binding site [ion binding]; metal-binding site 342610000644 phosphoribulokinase; Provisional; Region: PRK15453 342610000645 osmolarity response regulator; Provisional; Region: ompR; PRK09468 342610000646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610000647 active site 342610000648 phosphorylation site [posttranslational modification] 342610000649 intermolecular recognition site; other site 342610000650 dimerization interface [polypeptide binding]; other site 342610000651 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 342610000652 DNA binding site [nucleotide binding] 342610000653 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 342610000654 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 342610000655 dimerization interface [polypeptide binding]; other site 342610000656 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 342610000657 dimer interface [polypeptide binding]; other site 342610000658 phosphorylation site [posttranslational modification] 342610000659 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 342610000660 ATP binding site [chemical binding]; other site 342610000661 Mg2+ binding site [ion binding]; other site 342610000662 G-X-G motif; other site 342610000663 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 342610000664 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 342610000665 dimerization interface [polypeptide binding]; other site 342610000666 domain crossover interface; other site 342610000667 redox-dependent activation switch; other site 342610000668 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 342610000669 RNA binding surface [nucleotide binding]; other site 342610000670 C factor cell-cell signaling protein; Provisional; Region: PRK09009 342610000671 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 342610000672 NADP binding site [chemical binding]; other site 342610000673 homodimer interface [polypeptide binding]; other site 342610000674 active site 342610000675 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 342610000676 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 342610000677 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 342610000678 type II secretion system protein D; Region: type_II_gspD; TIGR02517 342610000679 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610000680 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610000681 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610000682 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610000683 type II secretion system protein E; Region: type_II_gspE; TIGR02533 342610000684 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 342610000685 Walker A motif; other site 342610000686 ATP binding site [chemical binding]; other site 342610000687 Walker B motif; other site 342610000688 type II secretion system protein F; Region: GspF; TIGR02120 342610000689 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610000690 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610000691 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 342610000692 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 342610000693 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 342610000694 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 342610000695 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 342610000696 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 342610000697 type II secretion system protein I; Region: gspI; TIGR01707 342610000698 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 342610000699 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 342610000700 type II secretion system protein J; Region: gspJ; TIGR01711 342610000701 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 342610000702 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 342610000703 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 342610000704 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 342610000705 GspL periplasmic domain; Region: GspL_C; pfam12693 342610000706 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 342610000707 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 342610000708 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 342610000709 AMP binding site [chemical binding]; other site 342610000710 metal binding site [ion binding]; metal-binding site 342610000711 active site 342610000712 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 342610000713 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610000714 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610000715 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 342610000716 active site 342610000717 Zn binding site [ion binding]; other site 342610000718 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 342610000719 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 342610000720 substrate binding site [chemical binding]; other site 342610000721 active site 342610000722 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 342610000723 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 342610000724 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 342610000725 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 342610000726 putative NADH binding site [chemical binding]; other site 342610000727 putative active site [active] 342610000728 nudix motif; other site 342610000729 putative metal binding site [ion binding]; other site 342610000730 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 342610000731 metal binding site 2 [ion binding]; metal-binding site 342610000732 putative DNA binding helix; other site 342610000733 metal binding site 1 [ion binding]; metal-binding site 342610000734 dimer interface [polypeptide binding]; other site 342610000735 structural Zn2+ binding site [ion binding]; other site 342610000736 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 342610000737 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 342610000738 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 342610000739 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 342610000740 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 342610000741 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610000742 ligand binding site [chemical binding]; other site 342610000743 replicative DNA helicase; Region: DnaB; TIGR00665 342610000744 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 342610000745 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 342610000746 Walker A motif; other site 342610000747 ATP binding site [chemical binding]; other site 342610000748 Walker B motif; other site 342610000749 DNA binding loops [nucleotide binding] 342610000750 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 342610000751 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 342610000752 ATP binding site [chemical binding]; other site 342610000753 putative Mg++ binding site [ion binding]; other site 342610000754 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 342610000755 nucleotide binding region [chemical binding]; other site 342610000756 ATP-binding site [chemical binding]; other site 342610000757 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 342610000758 HRDC domain; Region: HRDC; pfam00570 342610000759 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 342610000760 CoenzymeA binding site [chemical binding]; other site 342610000761 subunit interaction site [polypeptide binding]; other site 342610000762 PHB binding site; other site 342610000763 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 342610000764 apolar tunnel; other site 342610000765 heme binding site [chemical binding]; other site 342610000766 dimerization interface [polypeptide binding]; other site 342610000767 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 342610000768 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 342610000769 dimerization interface [polypeptide binding]; other site 342610000770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000771 metal binding site [ion binding]; metal-binding site 342610000772 active site 342610000773 I-site; other site 342610000774 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 342610000775 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 342610000776 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610000777 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 342610000778 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610000779 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 342610000780 Surface antigen; Region: Bac_surface_Ag; pfam01103 342610000781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 342610000782 Family of unknown function (DUF490); Region: DUF490; pfam04357 342610000783 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 342610000784 MgtE intracellular N domain; Region: MgtE_N; pfam03448 342610000785 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 342610000786 Divalent cation transporter; Region: MgtE; cl00786 342610000787 BON domain; Region: BON; pfam04972 342610000788 BON domain; Region: BON; pfam04972 342610000789 Response regulator receiver domain; Region: Response_reg; pfam00072 342610000790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610000791 active site 342610000792 phosphorylation site [posttranslational modification] 342610000793 intermolecular recognition site; other site 342610000794 dimerization interface [polypeptide binding]; other site 342610000795 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610000796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610000797 metal binding site [ion binding]; metal-binding site 342610000798 active site 342610000799 I-site; other site 342610000800 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 342610000801 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 342610000802 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 342610000803 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 342610000804 Predicted methyltransferase [General function prediction only]; Region: COG4798 342610000805 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 342610000806 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 342610000807 purine monophosphate binding site [chemical binding]; other site 342610000808 dimer interface [polypeptide binding]; other site 342610000809 putative catalytic residues [active] 342610000810 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 342610000811 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 342610000812 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 342610000813 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 342610000814 FMN binding site [chemical binding]; other site 342610000815 active site 342610000816 catalytic residues [active] 342610000817 substrate binding site [chemical binding]; other site 342610000818 Protein of unknown function (DUF962); Region: DUF962; pfam06127 342610000819 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 342610000820 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 342610000821 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 342610000822 binding surface 342610000823 TPR motif; other site 342610000824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610000825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610000826 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 342610000827 putative effector binding pocket; other site 342610000828 dimerization interface [polypeptide binding]; other site 342610000829 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 342610000830 putative catalytic residues [active] 342610000831 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 342610000832 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 342610000833 motif II; other site 342610000834 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 342610000835 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 342610000836 substrate binding pocket [chemical binding]; other site 342610000837 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 342610000838 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 342610000839 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 342610000840 Predicted deacylase [General function prediction only]; Region: COG3608 342610000841 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_4; cd06254 342610000842 putative active site [active] 342610000843 Zn binding site [ion binding]; other site 342610000844 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 342610000845 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 342610000846 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 342610000847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610000848 Q-loop/lid; other site 342610000849 ABC transporter signature motif; other site 342610000850 Walker B; other site 342610000851 D-loop; other site 342610000852 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610000853 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610000854 Outer membrane efflux protein; Region: OEP; pfam02321 342610000855 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 342610000856 glutamate dehydrogenase; Provisional; Region: PRK09414 342610000857 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 342610000858 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 342610000859 NAD(P) binding site [chemical binding]; other site 342610000860 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 342610000861 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 342610000862 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 342610000863 Na binding site [ion binding]; other site 342610000864 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610000865 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 342610000866 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 342610000867 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 342610000868 metal binding site [ion binding]; metal-binding site 342610000869 substrate binding pocket [chemical binding]; other site 342610000870 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610000871 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610000872 DNA binding site [nucleotide binding] 342610000873 domain linker motif; other site 342610000874 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 342610000875 putative dimerization interface [polypeptide binding]; other site 342610000876 putative ligand binding site [chemical binding]; other site 342610000877 BCCT family transporter; Region: BCCT; cl00569 342610000878 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 342610000879 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 342610000880 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610000881 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 342610000882 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 342610000883 metal binding site 2 [ion binding]; metal-binding site 342610000884 putative DNA binding helix; other site 342610000885 metal binding site 1 [ion binding]; metal-binding site 342610000886 dimer interface [polypeptide binding]; other site 342610000887 structural Zn2+ binding site [ion binding]; other site 342610000888 MerC mercury resistance protein; Region: MerC; pfam03203 342610000889 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 342610000890 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 342610000891 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 342610000892 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 342610000893 putative GTP cyclohydrolase; Provisional; Region: PRK13674 342610000894 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610000895 putative catalytic site [active] 342610000896 putative metal binding site [ion binding]; other site 342610000897 putative phosphate binding site [ion binding]; other site 342610000898 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 342610000899 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 342610000900 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610000901 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 342610000902 Walker A/P-loop; other site 342610000903 ATP binding site [chemical binding]; other site 342610000904 Q-loop/lid; other site 342610000905 ABC transporter signature motif; other site 342610000906 Walker B; other site 342610000907 D-loop; other site 342610000908 H-loop/switch region; other site 342610000909 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610000910 FtsX-like permease family; Region: FtsX; pfam02687 342610000911 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 342610000912 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 342610000913 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 342610000914 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 342610000915 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 342610000916 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 342610000917 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 342610000918 N-terminal plug; other site 342610000919 ligand-binding site [chemical binding]; other site 342610000920 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610000921 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 342610000922 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 342610000923 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610000924 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610000925 conserved cys residue [active] 342610000926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000927 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610000928 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610000929 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610000930 active site 342610000931 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 342610000932 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 342610000933 FMN binding site [chemical binding]; other site 342610000934 substrate binding site [chemical binding]; other site 342610000935 putative catalytic residue [active] 342610000936 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 342610000937 enoyl-CoA hydratase; Provisional; Region: PRK05995 342610000938 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 342610000939 substrate binding site [chemical binding]; other site 342610000940 oxyanion hole (OAH) forming residues; other site 342610000941 trimer interface [polypeptide binding]; other site 342610000942 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 342610000943 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610000944 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 342610000945 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 342610000946 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 342610000947 carboxyltransferase (CT) interaction site; other site 342610000948 biotinylation site [posttranslational modification]; other site 342610000949 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 342610000950 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610000951 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 342610000952 NAD(P) binding site [chemical binding]; other site 342610000953 substrate binding site [chemical binding]; other site 342610000954 homotetramer interface [polypeptide binding]; other site 342610000955 active site 342610000956 homodimer interface [polypeptide binding]; other site 342610000957 acyl-CoA synthetase; Validated; Region: PRK08316 342610000958 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 342610000959 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 342610000960 acyl-activating enzyme (AAE) consensus motif; other site 342610000961 acyl-activating enzyme (AAE) consensus motif; other site 342610000962 AMP binding site [chemical binding]; other site 342610000963 active site 342610000964 CoA binding site [chemical binding]; other site 342610000965 Family description; Region: VCBS; pfam13517 342610000966 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 342610000967 trimer interface [polypeptide binding]; other site 342610000968 active site 342610000969 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 342610000970 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 342610000971 dimerization interface [polypeptide binding]; other site 342610000972 putative active cleft [active] 342610000973 alpha-glucosidase; Provisional; Region: PRK10137 342610000974 alpha-glucosidase; Provisional; Region: PRK10137 342610000975 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610000976 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 342610000977 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 342610000978 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 342610000979 Na binding site [ion binding]; other site 342610000980 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 342610000981 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 342610000982 MOFRL family; Region: MOFRL; pfam05161 342610000983 MarR family; Region: MarR_2; pfam12802 342610000984 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 342610000985 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 342610000986 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 342610000987 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 342610000988 HemY protein N-terminus; Region: HemY_N; pfam07219 342610000989 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 342610000990 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 342610000991 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 342610000992 active site 342610000993 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 342610000994 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 342610000995 domain interfaces; other site 342610000996 active site 342610000997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610000998 Coenzyme A binding pocket [chemical binding]; other site 342610000999 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 342610001000 putative hydrolase; Provisional; Region: PRK11460 342610001001 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 342610001002 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 342610001003 putative iron binding site [ion binding]; other site 342610001004 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 342610001005 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 342610001006 catalytic site [active] 342610001007 G-X2-G-X-G-K; other site 342610001008 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 342610001009 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 342610001010 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610001011 Zn2+ binding site [ion binding]; other site 342610001012 Mg2+ binding site [ion binding]; other site 342610001013 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 342610001014 synthetase active site [active] 342610001015 NTP binding site [chemical binding]; other site 342610001016 metal binding site [ion binding]; metal-binding site 342610001017 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 342610001018 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 342610001019 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 342610001020 homotrimer interaction site [polypeptide binding]; other site 342610001021 putative active site [active] 342610001022 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 342610001023 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 342610001024 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 342610001025 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 342610001026 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610001027 putative catalytic residues [active] 342610001028 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 342610001029 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 342610001030 ssDNA binding site; other site 342610001031 generic binding surface II; other site 342610001032 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 342610001033 ATP binding site [chemical binding]; other site 342610001034 putative Mg++ binding site [ion binding]; other site 342610001035 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 342610001036 nucleotide binding region [chemical binding]; other site 342610001037 ATP-binding site [chemical binding]; other site 342610001038 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 342610001039 S-adenosylmethionine binding site [chemical binding]; other site 342610001040 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 342610001041 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610001042 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 342610001043 catalytic triad [active] 342610001044 dimer interface [polypeptide binding]; other site 342610001045 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 342610001046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610001047 Walker A/P-loop; other site 342610001048 ATP binding site [chemical binding]; other site 342610001049 Q-loop/lid; other site 342610001050 ABC transporter signature motif; other site 342610001051 Walker B; other site 342610001052 D-loop; other site 342610001053 H-loop/switch region; other site 342610001054 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 342610001055 Autoinducer binding domain; Region: Autoind_bind; pfam03472 342610001056 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 342610001057 DNA binding residues [nucleotide binding] 342610001058 dimerization interface [polypeptide binding]; other site 342610001059 Autoinducer synthetase; Region: Autoind_synth; cl17404 342610001060 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 342610001061 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 342610001062 substrate binding pocket [chemical binding]; other site 342610001063 membrane-bound complex binding site; other site 342610001064 hinge residues; other site 342610001065 heat shock protein HtpX; Provisional; Region: PRK05457 342610001066 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 342610001067 Predicted flavoproteins [General function prediction only]; Region: COG2081 342610001068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610001069 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610001070 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 342610001071 N-terminal plug; other site 342610001072 ligand-binding site [chemical binding]; other site 342610001073 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 342610001074 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 342610001075 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 342610001076 FAD binding pocket [chemical binding]; other site 342610001077 FAD binding motif [chemical binding]; other site 342610001078 phosphate binding motif [ion binding]; other site 342610001079 beta-alpha-beta structure motif; other site 342610001080 NAD binding pocket [chemical binding]; other site 342610001081 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 342610001082 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610001083 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 342610001084 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 342610001085 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 342610001086 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 342610001087 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 342610001088 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610001089 Bacterial transcriptional regulator; Region: IclR; pfam01614 342610001090 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610001091 Sulfatase; Region: Sulfatase; pfam00884 342610001092 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 342610001093 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 342610001094 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 342610001095 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 342610001096 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 342610001097 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 342610001098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610001099 Walker A/P-loop; other site 342610001100 ATP binding site [chemical binding]; other site 342610001101 ABC transporter; Region: ABC_tran; pfam00005 342610001102 Q-loop/lid; other site 342610001103 ABC transporter signature motif; other site 342610001104 Walker B; other site 342610001105 D-loop; other site 342610001106 H-loop/switch region; other site 342610001107 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 342610001108 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 342610001109 dimer interface [polypeptide binding]; other site 342610001110 conserved gate region; other site 342610001111 putative PBP binding loops; other site 342610001112 ABC-ATPase subunit interface; other site 342610001113 hypothetical protein; Provisional; Region: PRK11622 342610001114 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 342610001115 Protein of unknown function, DUF547; Region: DUF547; pfam04784 342610001116 Uncharacterized conserved protein [Function unknown]; Region: COG0398 342610001117 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 342610001118 mercuric reductase; Validated; Region: PRK06370 342610001119 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610001120 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610001121 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 342610001122 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610001123 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 342610001124 sugar efflux transporter; Region: 2A0120; TIGR00899 342610001125 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 342610001126 putative substrate translocation pore; other site 342610001127 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 342610001128 PAS domain; Region: PAS_9; pfam13426 342610001129 putative active site [active] 342610001130 heme pocket [chemical binding]; other site 342610001131 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610001132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001133 metal binding site [ion binding]; metal-binding site 342610001134 active site 342610001135 I-site; other site 342610001136 Barrier to autointegration factor; Region: BAF; cl03803 342610001137 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 342610001138 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 342610001139 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610001140 catalytic residue [active] 342610001141 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610001142 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 342610001143 DNA binding site [nucleotide binding] 342610001144 AAA ATPase domain; Region: AAA_16; pfam13191 342610001145 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610001146 Protein export membrane protein; Region: SecD_SecF; cl14618 342610001147 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610001148 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610001149 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610001150 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610001151 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 342610001152 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610001153 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 342610001154 Peptidase family M28; Region: Peptidase_M28; pfam04389 342610001155 metal binding site [ion binding]; metal-binding site 342610001156 DsrE/DsrF-like family; Region: DrsE; pfam02635 342610001157 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 342610001158 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610001159 putative DNA binding site [nucleotide binding]; other site 342610001160 dimerization interface [polypeptide binding]; other site 342610001161 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 342610001162 putative Zn2+ binding site [ion binding]; other site 342610001163 AsnC family; Region: AsnC_trans_reg; pfam01037 342610001164 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 342610001165 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 342610001166 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610001167 catalytic residue [active] 342610001168 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 342610001169 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 342610001170 active site 342610001171 motif I; other site 342610001172 motif II; other site 342610001173 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610001174 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 342610001175 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 342610001176 ferredoxin-NADP reductase; Provisional; Region: PRK10926 342610001177 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 342610001178 FAD binding pocket [chemical binding]; other site 342610001179 FAD binding motif [chemical binding]; other site 342610001180 phosphate binding motif [ion binding]; other site 342610001181 beta-alpha-beta structure motif; other site 342610001182 NAD binding pocket [chemical binding]; other site 342610001183 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 342610001184 S-adenosylmethionine binding site [chemical binding]; other site 342610001185 siroheme synthase; Provisional; Region: cysG; PRK10637 342610001186 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 342610001187 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 342610001188 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 342610001189 active site 342610001190 SAM binding site [chemical binding]; other site 342610001191 homodimer interface [polypeptide binding]; other site 342610001192 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 342610001193 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 342610001194 ATP binding site [chemical binding]; other site 342610001195 Mg++ binding site [ion binding]; other site 342610001196 motif III; other site 342610001197 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 342610001198 nucleotide binding region [chemical binding]; other site 342610001199 ATP-binding site [chemical binding]; other site 342610001200 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 342610001201 putative RNA binding site [nucleotide binding]; other site 342610001202 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610001203 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 342610001204 binding surface 342610001205 TPR motif; other site 342610001206 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 342610001207 binding surface 342610001208 TPR motif; other site 342610001209 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 342610001210 TPR motif; other site 342610001211 binding surface 342610001212 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 342610001213 TPR motif; other site 342610001214 binding surface 342610001215 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 342610001216 TPR motif; other site 342610001217 binding surface 342610001218 thioredoxin 2; Provisional; Region: PRK10996 342610001219 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 342610001220 catalytic residues [active] 342610001221 Ion transport protein; Region: Ion_trans; pfam00520 342610001222 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 342610001223 heme binding pocket [chemical binding]; other site 342610001224 heme ligand [chemical binding]; other site 342610001225 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 342610001226 GAF domain; Region: GAF; pfam01590 342610001227 Phytochrome region; Region: PHY; pfam00360 342610001228 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 342610001229 dimer interface [polypeptide binding]; other site 342610001230 phosphorylation site [posttranslational modification] 342610001231 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 342610001232 ATP binding site [chemical binding]; other site 342610001233 Mg2+ binding site [ion binding]; other site 342610001234 G-X-G motif; other site 342610001235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610001236 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610001237 active site 342610001238 phosphorylation site [posttranslational modification] 342610001239 intermolecular recognition site; other site 342610001240 dimerization interface [polypeptide binding]; other site 342610001241 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 342610001242 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 342610001243 putative active site [active] 342610001244 metal binding site [ion binding]; metal-binding site 342610001245 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 342610001246 active site 342610001247 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 342610001248 tetramerization interface [polypeptide binding]; other site 342610001249 substrate binding pocket [chemical binding]; other site 342610001250 catalytic residues [active] 342610001251 inhibitor binding sites; inhibition site 342610001252 NADP(H) binding site [chemical binding]; other site 342610001253 Ferredoxin [Energy production and conversion]; Region: COG1146 342610001254 4Fe-4S binding domain; Region: Fer4; cl02805 342610001255 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 342610001256 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 342610001257 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 342610001258 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 342610001259 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 342610001260 dimer interface [polypeptide binding]; other site 342610001261 ADP-ribose binding site [chemical binding]; other site 342610001262 active site 342610001263 nudix motif; other site 342610001264 metal binding site [ion binding]; metal-binding site 342610001265 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 342610001266 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610001267 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610001268 active site 342610001269 metal binding site [ion binding]; metal-binding site 342610001270 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610001271 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 342610001272 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 342610001273 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 342610001274 ATP binding site [chemical binding]; other site 342610001275 Mg2+ binding site [ion binding]; other site 342610001276 G-X-G motif; other site 342610001277 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 342610001278 anchoring element; other site 342610001279 dimer interface [polypeptide binding]; other site 342610001280 ATP binding site [chemical binding]; other site 342610001281 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 342610001282 active site 342610001283 metal binding site [ion binding]; metal-binding site 342610001284 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 342610001285 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 342610001286 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 342610001287 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 342610001288 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 342610001289 FeS/SAM binding site; other site 342610001290 elongation factor P; Validated; Region: PRK00529 342610001291 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 342610001292 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 342610001293 RNA binding site [nucleotide binding]; other site 342610001294 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 342610001295 RNA binding site [nucleotide binding]; other site 342610001296 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 342610001297 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 342610001298 motif 1; other site 342610001299 dimer interface [polypeptide binding]; other site 342610001300 active site 342610001301 motif 2; other site 342610001302 motif 3; other site 342610001303 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610001304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001305 metal binding site [ion binding]; metal-binding site 342610001306 active site 342610001307 I-site; other site 342610001308 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610001309 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 342610001310 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 342610001311 active site 342610001312 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 342610001313 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 342610001314 S-adenosylmethionine binding site [chemical binding]; other site 342610001315 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 342610001316 BolA-like protein; Region: BolA; cl00386 342610001317 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 342610001318 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 342610001319 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 342610001320 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 342610001321 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 342610001322 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 342610001323 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 342610001324 E3 interaction surface; other site 342610001325 lipoyl attachment site [posttranslational modification]; other site 342610001326 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 342610001327 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 342610001328 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 342610001329 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 342610001330 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 342610001331 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 342610001332 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 342610001333 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 342610001334 catalytic loop [active] 342610001335 iron binding site [ion binding]; other site 342610001336 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 342610001337 FAD binding pocket [chemical binding]; other site 342610001338 FAD binding motif [chemical binding]; other site 342610001339 phosphate binding motif [ion binding]; other site 342610001340 beta-alpha-beta structure motif; other site 342610001341 NAD binding pocket [chemical binding]; other site 342610001342 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 342610001343 ApbE family; Region: ApbE; pfam02424 342610001344 Protein of unknown function (DUF539); Region: DUF539; cl01129 342610001345 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 342610001346 active site 342610001347 DNA polymerase IV; Validated; Region: PRK02406 342610001348 DNA binding site [nucleotide binding] 342610001349 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 342610001350 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 342610001351 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 342610001352 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 342610001353 active site 342610001354 elongation factor G; Reviewed; Region: PRK00007 342610001355 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 342610001356 G1 box; other site 342610001357 putative GEF interaction site [polypeptide binding]; other site 342610001358 GTP/Mg2+ binding site [chemical binding]; other site 342610001359 Switch I region; other site 342610001360 G2 box; other site 342610001361 G3 box; other site 342610001362 Switch II region; other site 342610001363 G4 box; other site 342610001364 G5 box; other site 342610001365 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 342610001366 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 342610001367 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 342610001368 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610001369 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001370 metal binding site [ion binding]; metal-binding site 342610001371 active site 342610001372 I-site; other site 342610001373 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610001374 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 342610001375 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 342610001376 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 342610001377 active site 342610001378 GAF domain; Region: GAF; pfam01590 342610001379 GAF domain; Region: GAF_2; pfam13185 342610001380 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 342610001381 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 342610001382 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 342610001383 Walker A motif; other site 342610001384 ATP binding site [chemical binding]; other site 342610001385 Walker B motif; other site 342610001386 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 342610001387 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 342610001388 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 342610001389 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 342610001390 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 342610001391 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 342610001392 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 342610001393 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 342610001394 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 342610001395 putative translocon binding site; other site 342610001396 protein-rRNA interface [nucleotide binding]; other site 342610001397 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 342610001398 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 342610001399 G-X-X-G motif; other site 342610001400 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 342610001401 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 342610001402 23S rRNA interface [nucleotide binding]; other site 342610001403 5S rRNA interface [nucleotide binding]; other site 342610001404 putative antibiotic binding site [chemical binding]; other site 342610001405 L25 interface [polypeptide binding]; other site 342610001406 L27 interface [polypeptide binding]; other site 342610001407 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 342610001408 23S rRNA interface [nucleotide binding]; other site 342610001409 putative translocon interaction site; other site 342610001410 signal recognition particle (SRP54) interaction site; other site 342610001411 L23 interface [polypeptide binding]; other site 342610001412 trigger factor interaction site; other site 342610001413 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 342610001414 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; cd00136 342610001415 protein binding site [polypeptide binding]; other site 342610001416 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 342610001417 Active site serine [active] 342610001418 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610001420 metal binding site [ion binding]; metal-binding site 342610001421 active site 342610001422 I-site; other site 342610001423 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 342610001424 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 342610001425 tetramer interface [polypeptide binding]; other site 342610001426 heme binding pocket [chemical binding]; other site 342610001427 NADPH binding site [chemical binding]; other site 342610001428 Paraquat-inducible protein A; Region: PqiA; pfam04403 342610001429 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 342610001430 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 342610001431 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 342610001432 putative active site [active] 342610001433 putative substrate binding site [chemical binding]; other site 342610001434 putative cosubstrate binding site; other site 342610001435 catalytic site [active] 342610001436 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 342610001437 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 342610001438 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 342610001439 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 342610001440 ATP binding site [chemical binding]; other site 342610001441 putative Mg++ binding site [ion binding]; other site 342610001442 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 342610001443 nucleotide binding region [chemical binding]; other site 342610001444 ATP-binding site [chemical binding]; other site 342610001445 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 342610001446 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 342610001447 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 342610001448 Transglycosylase; Region: Transgly; pfam00912 342610001449 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 342610001450 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 342610001451 Nitrogen regulatory protein P-II; Region: P-II; smart00938 342610001452 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 342610001453 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 342610001454 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 342610001455 cyclase homology domain; Region: CHD; cd07302 342610001456 nucleotidyl binding site; other site 342610001457 metal binding site [ion binding]; metal-binding site 342610001458 dimer interface [polypeptide binding]; other site 342610001459 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 342610001460 binding surface 342610001461 TPR motif; other site 342610001462 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 342610001463 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 342610001464 inhibitor-cofactor binding pocket; inhibition site 342610001465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610001466 catalytic residue [active] 342610001467 aspartate carbamoyltransferase; Provisional; Region: PRK08192 342610001468 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 342610001469 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 342610001470 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 342610001471 active site 342610001472 catalytic triad [active] 342610001473 oxyanion hole [active] 342610001474 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 342610001475 active site 342610001476 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610001477 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 342610001478 putative DNA binding site [nucleotide binding]; other site 342610001479 putative Zn2+ binding site [ion binding]; other site 342610001480 AsnC family; Region: AsnC_trans_reg; pfam01037 342610001481 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 342610001482 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 342610001483 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 342610001484 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 342610001485 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 342610001486 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 342610001487 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 342610001488 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610001489 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 342610001490 dimer interface [polypeptide binding]; other site 342610001491 phosphorylation site [posttranslational modification] 342610001492 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 342610001493 ATP binding site [chemical binding]; other site 342610001494 Mg2+ binding site [ion binding]; other site 342610001495 G-X-G motif; other site 342610001496 Response regulator receiver domain; Region: Response_reg; pfam00072 342610001497 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610001498 active site 342610001499 phosphorylation site [posttranslational modification] 342610001500 intermolecular recognition site; other site 342610001501 dimerization interface [polypeptide binding]; other site 342610001502 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 342610001503 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 342610001504 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 342610001505 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 342610001506 CAP-like domain; other site 342610001507 active site 342610001508 primary dimer interface [polypeptide binding]; other site 342610001509 Carboxylesterase family; Region: COesterase; pfam00135 342610001510 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 342610001511 substrate binding pocket [chemical binding]; other site 342610001512 catalytic triad [active] 342610001513 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 342610001514 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 342610001515 active site 342610001516 Zn binding site [ion binding]; other site 342610001517 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 342610001518 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610001519 AsnC family; Region: AsnC_trans_reg; pfam01037 342610001520 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 342610001521 putative peptidase; Provisional; Region: PRK11649 342610001522 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610001523 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 342610001524 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 342610001525 active site 342610001526 HIGH motif; other site 342610001527 dimer interface [polypeptide binding]; other site 342610001528 KMSKS motif; other site 342610001529 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 342610001530 RNA binding surface [nucleotide binding]; other site 342610001531 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 342610001532 CobD/Cbib protein; Region: CobD_Cbib; cl00561 342610001533 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 342610001534 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 342610001535 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 342610001536 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 342610001537 dimerization interface [polypeptide binding]; other site 342610001538 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610001539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610001540 dimer interface [polypeptide binding]; other site 342610001541 putative CheW interface [polypeptide binding]; other site 342610001542 acetyl-CoA synthetase; Provisional; Region: PRK00174 342610001543 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 342610001544 active site 342610001545 CoA binding site [chemical binding]; other site 342610001546 acyl-activating enzyme (AAE) consensus motif; other site 342610001547 AMP binding site [chemical binding]; other site 342610001548 acetate binding site [chemical binding]; other site 342610001549 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610001550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610001551 active site 342610001552 phosphorylation site [posttranslational modification] 342610001553 intermolecular recognition site; other site 342610001554 dimerization interface [polypeptide binding]; other site 342610001555 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 342610001556 DNA binding residues [nucleotide binding] 342610001557 dimerization interface [polypeptide binding]; other site 342610001558 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 342610001559 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610001560 Na binding site [ion binding]; other site 342610001561 PAS fold; Region: PAS_7; pfam12860 342610001562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610001563 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 342610001564 dimer interface [polypeptide binding]; other site 342610001565 phosphorylation site [posttranslational modification] 342610001566 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 342610001567 ATP binding site [chemical binding]; other site 342610001568 Mg2+ binding site [ion binding]; other site 342610001569 G-X-G motif; other site 342610001570 Response regulator receiver domain; Region: Response_reg; pfam00072 342610001571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610001572 active site 342610001573 phosphorylation site [posttranslational modification] 342610001574 intermolecular recognition site; other site 342610001575 dimerization interface [polypeptide binding]; other site 342610001576 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 342610001577 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610001578 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 342610001579 Na binding site [ion binding]; other site 342610001580 FIST N domain; Region: FIST; pfam08495 342610001581 FIST C domain; Region: FIST_C; pfam10442 342610001582 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610001583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001584 metal binding site [ion binding]; metal-binding site 342610001585 active site 342610001586 I-site; other site 342610001587 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 342610001588 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 342610001589 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 342610001590 ligand binding site [chemical binding]; other site 342610001591 flexible hinge region; other site 342610001592 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 342610001593 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610001594 metal binding triad; other site 342610001595 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 342610001596 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 342610001597 active site 342610001598 catalytic site [active] 342610001599 substrate binding site [chemical binding]; other site 342610001600 TPR repeat; Region: TPR_11; pfam13414 342610001601 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 342610001602 binding surface 342610001603 TPR motif; other site 342610001604 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 342610001605 binding surface 342610001606 TPR motif; other site 342610001607 TPR repeat; Region: TPR_11; pfam13414 342610001608 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 342610001609 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 342610001610 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 342610001611 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 342610001612 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 342610001613 Nucleoside recognition; Region: Gate; pfam07670 342610001614 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 342610001615 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 342610001616 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 342610001617 ATP-binding site [chemical binding]; other site 342610001618 Sugar specificity; other site 342610001619 Pyrimidine base specificity; other site 342610001620 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 342610001621 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 342610001622 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 342610001623 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610001624 putative metal binding site [ion binding]; other site 342610001625 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610001626 arginine repressor; Provisional; Region: PRK05066 342610001627 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 342610001628 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 342610001629 malate dehydrogenase; Provisional; Region: PRK05086 342610001630 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 342610001631 NAD binding site [chemical binding]; other site 342610001632 dimerization interface [polypeptide binding]; other site 342610001633 Substrate binding site [chemical binding]; other site 342610001634 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 342610001635 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 342610001636 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 342610001637 Ca2+ binding site [ion binding]; other site 342610001638 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 342610001639 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 342610001640 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 342610001641 Cl- selectivity filter; other site 342610001642 Cl- binding residues [ion binding]; other site 342610001643 pore gating glutamate residue; other site 342610001644 dimer interface [polypeptide binding]; other site 342610001645 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 342610001646 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 342610001647 homodecamer interface [polypeptide binding]; other site 342610001648 GTP cyclohydrolase I; Provisional; Region: PLN03044 342610001649 active site 342610001650 putative catalytic site residues [active] 342610001651 zinc binding site [ion binding]; other site 342610001652 GTP-CH-I/GFRP interaction surface; other site 342610001653 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 342610001654 hypothetical protein; Provisional; Region: PRK12378 342610001655 Predicted ATPase [General function prediction only]; Region: COG1485 342610001656 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 342610001657 Trypsin; Region: Trypsin; pfam00089 342610001658 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 342610001659 protein binding site [polypeptide binding]; other site 342610001660 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 342610001661 serine endoprotease; Provisional; Region: PRK10898 342610001662 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 342610001663 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 342610001664 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 342610001665 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 342610001666 hinge; other site 342610001667 active site 342610001668 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 342610001669 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 342610001670 anti sigma factor interaction site; other site 342610001671 regulatory phosphorylation site [posttranslational modification]; other site 342610001672 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 342610001673 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 342610001674 mce related protein; Region: MCE; pfam02470 342610001675 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 342610001676 Permease; Region: Permease; cl00510 342610001677 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 342610001678 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 342610001679 Walker A/P-loop; other site 342610001680 ATP binding site [chemical binding]; other site 342610001681 Q-loop/lid; other site 342610001682 ABC transporter signature motif; other site 342610001683 Walker B; other site 342610001684 D-loop; other site 342610001685 H-loop/switch region; other site 342610001686 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 342610001687 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 342610001688 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 342610001689 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 342610001690 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 342610001691 putative active site [active] 342610001692 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 342610001693 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 342610001694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 342610001695 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 342610001696 OstA-like protein; Region: OstA; cl00844 342610001697 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 342610001698 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 342610001699 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 342610001700 Walker A/P-loop; other site 342610001701 ATP binding site [chemical binding]; other site 342610001702 Q-loop/lid; other site 342610001703 ABC transporter signature motif; other site 342610001704 Walker B; other site 342610001705 D-loop; other site 342610001706 H-loop/switch region; other site 342610001707 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 342610001708 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 342610001709 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 342610001710 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 342610001711 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 342610001712 30S subunit binding site; other site 342610001713 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 342610001714 active site 342610001715 phosphorylation site [posttranslational modification] 342610001716 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 342610001717 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 342610001718 dimerization domain swap beta strand [polypeptide binding]; other site 342610001719 regulatory protein interface [polypeptide binding]; other site 342610001720 active site 342610001721 regulatory phosphorylation site [posttranslational modification]; other site 342610001722 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; cd00091 342610001723 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 342610001724 active site 342610001725 substrate binding site [chemical binding]; other site 342610001726 Mg2+ binding site [ion binding]; other site 342610001727 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 342610001728 ApbE family; Region: ApbE; pfam02424 342610001729 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 342610001730 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 342610001731 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 342610001732 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610001733 catalytic residues [active] 342610001734 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 342610001735 Peptidase family M28; Region: Peptidase_M28; pfam04389 342610001736 metal binding site [ion binding]; metal-binding site 342610001737 Predicted transcriptional regulators [Transcription]; Region: COG1510 342610001738 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 342610001739 putative DNA binding site [nucleotide binding]; other site 342610001740 putative Zn2+ binding site [ion binding]; other site 342610001741 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 342610001742 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 342610001743 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 342610001744 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 342610001745 PhnA protein; Region: PhnA; pfam03831 342610001746 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 342610001747 putative acyl-acceptor binding pocket; other site 342610001748 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 342610001749 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 342610001750 active site 342610001751 substrate binding pocket [chemical binding]; other site 342610001752 dimer interface [polypeptide binding]; other site 342610001753 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610001754 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 342610001755 substrate binding pocket [chemical binding]; other site 342610001756 membrane-bound complex binding site; other site 342610001757 hinge residues; other site 342610001758 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 342610001759 substrate binding pocket [chemical binding]; other site 342610001760 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610001761 membrane-bound complex binding site; other site 342610001762 hinge residues; other site 342610001763 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 342610001764 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 342610001765 substrate binding site [chemical binding]; other site 342610001766 oxyanion hole (OAH) forming residues; other site 342610001767 trimer interface [polypeptide binding]; other site 342610001768 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 342610001769 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 342610001770 ATP binding site [chemical binding]; other site 342610001771 Mg++ binding site [ion binding]; other site 342610001772 motif III; other site 342610001773 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 342610001774 nucleotide binding region [chemical binding]; other site 342610001775 ATP-binding site [chemical binding]; other site 342610001776 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 342610001777 putative RNA binding site [nucleotide binding]; other site 342610001778 PilZ domain; Region: PilZ; pfam07238 342610001779 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 342610001780 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 342610001781 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 342610001782 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 342610001783 Walker A/P-loop; other site 342610001784 ATP binding site [chemical binding]; other site 342610001785 Q-loop/lid; other site 342610001786 ABC transporter signature motif; other site 342610001787 Walker B; other site 342610001788 D-loop; other site 342610001789 H-loop/switch region; other site 342610001790 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 342610001791 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 342610001792 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 342610001793 putative homodimer interface [polypeptide binding]; other site 342610001794 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 342610001795 heterodimer interface [polypeptide binding]; other site 342610001796 homodimer interface [polypeptide binding]; other site 342610001797 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 342610001798 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 342610001799 23S rRNA interface [nucleotide binding]; other site 342610001800 L7/L12 interface [polypeptide binding]; other site 342610001801 putative thiostrepton binding site; other site 342610001802 L25 interface [polypeptide binding]; other site 342610001803 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 342610001804 mRNA/rRNA interface [nucleotide binding]; other site 342610001805 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 342610001806 23S rRNA interface [nucleotide binding]; other site 342610001807 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 342610001808 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 342610001809 core dimer interface [polypeptide binding]; other site 342610001810 peripheral dimer interface [polypeptide binding]; other site 342610001811 L10 interface [polypeptide binding]; other site 342610001812 L11 interface [polypeptide binding]; other site 342610001813 putative EF-Tu interaction site [polypeptide binding]; other site 342610001814 putative EF-G interaction site [polypeptide binding]; other site 342610001815 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 342610001816 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 342610001817 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 342610001818 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 342610001819 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 342610001820 RPB3 interaction site [polypeptide binding]; other site 342610001821 RPB1 interaction site [polypeptide binding]; other site 342610001822 RPB11 interaction site [polypeptide binding]; other site 342610001823 RPB10 interaction site [polypeptide binding]; other site 342610001824 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 342610001825 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 342610001826 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 342610001827 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 342610001828 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 342610001829 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 342610001830 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 342610001831 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 342610001832 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 342610001833 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 342610001834 DNA binding site [nucleotide binding] 342610001835 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 342610001836 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 342610001837 S17 interaction site [polypeptide binding]; other site 342610001838 S8 interaction site; other site 342610001839 16S rRNA interaction site [nucleotide binding]; other site 342610001840 streptomycin interaction site [chemical binding]; other site 342610001841 23S rRNA interaction site [nucleotide binding]; other site 342610001842 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 342610001843 30S ribosomal protein S7; Validated; Region: PRK05302 342610001844 elongation factor G; Reviewed; Region: PRK00007 342610001845 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 342610001846 G1 box; other site 342610001847 putative GEF interaction site [polypeptide binding]; other site 342610001848 GTP/Mg2+ binding site [chemical binding]; other site 342610001849 Switch I region; other site 342610001850 G2 box; other site 342610001851 G3 box; other site 342610001852 Switch II region; other site 342610001853 G4 box; other site 342610001854 G5 box; other site 342610001855 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 342610001856 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 342610001857 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 342610001858 elongation factor Tu; Reviewed; Region: PRK00049 342610001859 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 342610001860 G1 box; other site 342610001861 GEF interaction site [polypeptide binding]; other site 342610001862 GTP/Mg2+ binding site [chemical binding]; other site 342610001863 Switch I region; other site 342610001864 G2 box; other site 342610001865 G3 box; other site 342610001866 Switch II region; other site 342610001867 G4 box; other site 342610001868 G5 box; other site 342610001869 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 342610001870 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 342610001871 Antibiotic Binding Site [chemical binding]; other site 342610001872 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 342610001873 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 342610001874 dimerization interface [polypeptide binding]; other site 342610001875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610001876 dimer interface [polypeptide binding]; other site 342610001877 putative CheW interface [polypeptide binding]; other site 342610001878 hypothetical protein; Provisional; Region: PRK11568 342610001879 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 342610001880 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 342610001881 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 342610001882 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 342610001883 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 342610001884 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 342610001885 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 342610001886 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 342610001887 Sulfate transporter family; Region: Sulfate_transp; pfam00916 342610001888 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 342610001889 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 342610001890 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610001891 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610001892 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 342610001893 TrkA-N domain; Region: TrkA_N; pfam02254 342610001894 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 342610001895 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610001896 MarC family integral membrane protein; Region: MarC; pfam01914 342610001897 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 342610001898 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 342610001899 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610001900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001901 metal binding site [ion binding]; metal-binding site 342610001902 active site 342610001903 I-site; other site 342610001904 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 342610001905 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 342610001906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610001907 catalytic residue [active] 342610001908 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 342610001909 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 342610001910 ATP binding site [chemical binding]; other site 342610001911 putative Mg++ binding site [ion binding]; other site 342610001912 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 342610001913 nucleotide binding region [chemical binding]; other site 342610001914 ATP-binding site [chemical binding]; other site 342610001915 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610001916 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610001917 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610001918 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610001919 Protein export membrane protein; Region: SecD_SecF; cl14618 342610001920 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610001921 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 342610001922 C-terminal domain interface [polypeptide binding]; other site 342610001923 GSH binding site (G-site) [chemical binding]; other site 342610001924 dimer interface [polypeptide binding]; other site 342610001925 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 342610001926 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 342610001927 CoenzymeA binding site [chemical binding]; other site 342610001928 subunit interaction site [polypeptide binding]; other site 342610001929 PHB binding site; other site 342610001930 hypothetical protein; Provisional; Region: PRK11027 342610001931 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 342610001932 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 342610001933 PYR/PP interface [polypeptide binding]; other site 342610001934 dimer interface [polypeptide binding]; other site 342610001935 TPP binding site [chemical binding]; other site 342610001936 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 342610001937 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 342610001938 TPP-binding site [chemical binding]; other site 342610001939 dimer interface [polypeptide binding]; other site 342610001940 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 342610001941 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 342610001942 putative valine binding site [chemical binding]; other site 342610001943 dimer interface [polypeptide binding]; other site 342610001944 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 342610001945 thymidine kinase; Provisional; Region: PRK04296 342610001946 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610001947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610001948 metal binding site [ion binding]; metal-binding site 342610001949 active site 342610001950 I-site; other site 342610001951 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 342610001952 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610001953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610001954 DNA-binding site [nucleotide binding]; DNA binding site 342610001955 FCD domain; Region: FCD; pfam07729 342610001956 Benzoate membrane transport protein; Region: BenE; pfam03594 342610001957 benzoate transporter; Region: benE; TIGR00843 342610001958 bile acid transporter; Region: bass; TIGR00841 342610001959 Sodium Bile acid symporter family; Region: SBF; cl17470 342610001960 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610001961 short chain dehydrogenase; Provisional; Region: PRK08251 342610001962 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 342610001963 putative NAD(P) binding site [chemical binding]; other site 342610001964 active site 342610001965 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 342610001966 catalytic core [active] 342610001967 Phosphotransferase enzyme family; Region: APH; pfam01636 342610001968 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 342610001969 putative active site [active] 342610001970 putative substrate binding site [chemical binding]; other site 342610001971 ATP binding site [chemical binding]; other site 342610001972 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610001973 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610001974 active site 342610001975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610001976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610001977 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 342610001978 substrate binding pocket [chemical binding]; other site 342610001979 dimerization interface [polypeptide binding]; other site 342610001980 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 342610001981 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 342610001982 calcium binding site 2 [ion binding]; other site 342610001983 active site 342610001984 catalytic triad [active] 342610001985 calcium binding site 1 [ion binding]; other site 342610001986 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 342610001987 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 342610001988 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 342610001989 HAMP domain; Region: HAMP; pfam00672 342610001990 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 342610001991 dimer interface [polypeptide binding]; other site 342610001992 phosphorylation site [posttranslational modification] 342610001993 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 342610001994 ATP binding site [chemical binding]; other site 342610001995 Mg2+ binding site [ion binding]; other site 342610001996 G-X-G motif; other site 342610001997 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 342610001998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610001999 active site 342610002000 phosphorylation site [posttranslational modification] 342610002001 intermolecular recognition site; other site 342610002002 dimerization interface [polypeptide binding]; other site 342610002003 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 342610002004 DNA binding site [nucleotide binding] 342610002005 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 342610002006 MgtE intracellular N domain; Region: MgtE_N; smart00924 342610002007 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 342610002008 Divalent cation transporter; Region: MgtE; pfam01769 342610002009 galactokinase; Provisional; Region: PRK05101 342610002010 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 342610002011 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 342610002012 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 342610002013 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 342610002014 dimer interface [polypeptide binding]; other site 342610002015 active site 342610002016 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 342610002017 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 342610002018 NAD(P) binding site [chemical binding]; other site 342610002019 catalytic residues [active] 342610002020 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 342610002021 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 342610002022 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 342610002023 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 342610002024 inhibitor-cofactor binding pocket; inhibition site 342610002025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610002026 catalytic residue [active] 342610002027 HDOD domain; Region: HDOD; pfam08668 342610002028 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 342610002029 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 342610002030 glutamine binding [chemical binding]; other site 342610002031 catalytic triad [active] 342610002032 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 342610002033 Ligand binding site [chemical binding]; other site 342610002034 Electron transfer flavoprotein domain; Region: ETF; pfam01012 342610002035 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 342610002036 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 342610002037 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 342610002038 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610002039 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610002040 active site 342610002041 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610002042 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 342610002043 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610002044 SurA N-terminal domain; Region: SurA_N; pfam09312 342610002045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002046 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 342610002047 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 342610002048 active site 342610002049 HIGH motif; other site 342610002050 dimer interface [polypeptide binding]; other site 342610002051 KMSKS motif; other site 342610002052 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 342610002053 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 342610002054 substrate binding site [chemical binding]; other site 342610002055 hexamer interface [polypeptide binding]; other site 342610002056 metal binding site [ion binding]; metal-binding site 342610002057 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 342610002058 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 342610002059 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 342610002060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 342610002061 cell division protein DamX; Validated; Region: PRK10905 342610002062 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 342610002063 active site 342610002064 dimer interface [polypeptide binding]; other site 342610002065 metal binding site [ion binding]; metal-binding site 342610002066 shikimate kinase; Reviewed; Region: aroK; PRK00131 342610002067 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 342610002068 ADP binding site [chemical binding]; other site 342610002069 magnesium binding site [ion binding]; other site 342610002070 putative shikimate binding site; other site 342610002071 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 342610002072 Secretin and TonB N terminus short domain; Region: STN; pfam07660 342610002073 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 342610002074 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610002075 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 342610002076 Pilus assembly protein, PilP; Region: PilP; pfam04351 342610002077 Pilus assembly protein, PilO; Region: PilO; pfam04350 342610002078 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 342610002079 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 342610002080 Competence protein A; Region: Competence_A; pfam11104 342610002081 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 342610002082 active site 342610002083 DNA binding site [nucleotide binding] 342610002084 Int/Topo IB signature motif; other site 342610002085 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 342610002086 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 342610002087 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 342610002088 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 342610002089 non-specific DNA binding site [nucleotide binding]; other site 342610002090 salt bridge; other site 342610002091 sequence-specific DNA binding site [nucleotide binding]; other site 342610002092 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 342610002093 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 342610002094 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 342610002095 DNA methylase; Region: N6_N4_Mtase; pfam01555 342610002096 HNH endonuclease; Region: HNH_3; pfam13392 342610002097 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 342610002098 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 342610002099 Phage-related protein [Function unknown]; Region: COG4695; cl01923 342610002100 Phage portal protein; Region: Phage_portal; pfam04860 342610002101 terminase ATPase subunit; Provisional; Region: P; PHA02535 342610002102 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 342610002103 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 342610002104 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 342610002105 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 342610002106 terminase endonuclease subunit; Provisional; Region: M; PHA02537 342610002107 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 342610002108 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 342610002109 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 342610002110 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 342610002111 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 342610002112 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 342610002113 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 342610002114 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 342610002115 Baseplate J-like protein; Region: Baseplate_J; pfam04865 342610002116 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 342610002117 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 342610002118 Transglycosylase; Region: Transgly; pfam00912 342610002119 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 342610002120 malate dehydrogenase; Provisional; Region: PRK13529 342610002121 Malic enzyme, N-terminal domain; Region: malic; pfam00390 342610002122 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 342610002123 NAD(P) binding site [chemical binding]; other site 342610002124 Protein of unknown function DUF3258; Region: DUF3258; pfam11646 342610002125 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 342610002126 active site 342610002127 Int/Topo IB signature motif; other site 342610002128 DNA binding site [nucleotide binding] 342610002129 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 342610002130 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 342610002131 cofactor binding site; other site 342610002132 DNA binding site [nucleotide binding] 342610002133 substrate interaction site [chemical binding]; other site 342610002134 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 342610002135 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 342610002136 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 342610002137 Walker A motif; other site 342610002138 ATP binding site [chemical binding]; other site 342610002139 Walker B motif; other site 342610002140 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 342610002141 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 342610002142 Walker A motif; other site 342610002143 ATP binding site [chemical binding]; other site 342610002144 Walker B motif; other site 342610002145 arginine finger; other site 342610002146 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 342610002147 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 342610002148 active site 342610002149 DNA binding site [nucleotide binding] 342610002150 Int/Topo IB signature motif; other site 342610002151 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 342610002152 Part of AAA domain; Region: AAA_19; pfam13245 342610002153 Family description; Region: UvrD_C_2; pfam13538 342610002154 AAA ATPase domain; Region: AAA_15; pfam13175 342610002155 TIGR02646 family protein; Region: TIGR02646 342610002156 PAS domain S-box; Region: sensory_box; TIGR00229 342610002157 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 342610002158 putative active site [active] 342610002159 heme pocket [chemical binding]; other site 342610002160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610002161 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 342610002162 dimer interface [polypeptide binding]; other site 342610002163 phosphorylation site [posttranslational modification] 342610002164 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 342610002165 ATP binding site [chemical binding]; other site 342610002166 Mg2+ binding site [ion binding]; other site 342610002167 G-X-G motif; other site 342610002168 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610002169 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610002170 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 342610002171 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 342610002172 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 342610002173 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 342610002174 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610002175 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610002176 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610002177 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 342610002178 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610002179 catalytic residues [active] 342610002180 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 342610002181 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610002182 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610002183 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 342610002184 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 342610002185 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610002186 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610002187 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 342610002188 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 342610002189 putative substrate translocation pore; other site 342610002190 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 342610002191 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 342610002192 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 342610002193 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 342610002194 dimer interface [polypeptide binding]; other site 342610002195 active site 342610002196 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610002197 catalytic residues [active] 342610002198 substrate binding site [chemical binding]; other site 342610002199 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 342610002200 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 342610002201 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 342610002202 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 342610002203 AAA domain; Region: AAA_28; pfam13521 342610002204 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 342610002205 Kelch motif; Region: Kelch_1; pfam01344 342610002206 Galactose oxidase, central domain; Region: Kelch_3; cl02701 342610002207 Kelch motif; Region: Kelch_1; pfam01344 342610002208 Kelch domain; Region: Kelch; smart00612 342610002209 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 342610002210 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 342610002211 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610002212 catalytic residue [active] 342610002213 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610002214 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610002215 metal binding site [ion binding]; metal-binding site 342610002216 active site 342610002217 I-site; other site 342610002218 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 342610002219 MAPEG family; Region: MAPEG; pfam01124 342610002220 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610002221 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 342610002222 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 342610002223 AAA ATPase domain; Region: AAA_16; pfam13191 342610002224 NACHT domain; Region: NACHT; pfam05729 342610002225 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610002226 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 342610002227 DNA binding residues [nucleotide binding] 342610002228 dimerization interface [polypeptide binding]; other site 342610002229 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 342610002230 Sensors of blue-light using FAD; Region: BLUF; pfam04940 342610002231 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 342610002232 ATP binding site [chemical binding]; other site 342610002233 Mg2+ binding site [ion binding]; other site 342610002234 G-X-G motif; other site 342610002235 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 342610002236 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 342610002237 heme binding pocket [chemical binding]; other site 342610002238 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 342610002239 domain interactions; other site 342610002240 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002241 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 342610002242 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 342610002243 binding surface 342610002244 TPR motif; other site 342610002245 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 342610002246 binding surface 342610002247 TPR motif; other site 342610002248 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610002249 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 342610002250 short chain dehydrogenase; Provisional; Region: PRK12937 342610002251 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 342610002252 NADP binding site [chemical binding]; other site 342610002253 homodimer interface [polypeptide binding]; other site 342610002254 active site 342610002255 substrate binding site [chemical binding]; other site 342610002256 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 342610002257 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 342610002258 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 342610002259 DctM-like transporters; Region: DctM; pfam06808 342610002260 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 342610002261 Cupin domain; Region: Cupin_2; cl17218 342610002262 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610002263 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002265 EamA-like transporter family; Region: EamA; pfam00892 342610002266 DNA topoisomerase III; Provisional; Region: PRK07726 342610002267 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 342610002268 active site 342610002269 putative interdomain interaction site [polypeptide binding]; other site 342610002270 putative metal-binding site [ion binding]; other site 342610002271 putative nucleotide binding site [chemical binding]; other site 342610002272 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 342610002273 domain I; other site 342610002274 DNA binding groove [nucleotide binding] 342610002275 phosphate binding site [ion binding]; other site 342610002276 domain II; other site 342610002277 domain III; other site 342610002278 nucleotide binding site [chemical binding]; other site 342610002279 catalytic site [active] 342610002280 domain IV; other site 342610002281 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610002282 active site 342610002283 metal binding site [ion binding]; metal-binding site 342610002284 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 342610002285 Na binding site [ion binding]; other site 342610002286 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 342610002287 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 342610002288 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 342610002289 putative chaperone; Provisional; Region: PRK11678 342610002290 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 342610002291 nucleotide binding site [chemical binding]; other site 342610002292 putative NEF/HSP70 interaction site [polypeptide binding]; other site 342610002293 SBD interface [polypeptide binding]; other site 342610002294 YHYH protein; Region: YHYH; pfam14240 342610002295 YHYH protein; Region: YHYH; pfam14240 342610002296 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610002297 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 342610002298 active site 342610002299 metal binding site [ion binding]; metal-binding site 342610002300 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610002301 active site 342610002302 metal binding site [ion binding]; metal-binding site 342610002303 Secretin and TonB N terminus short domain; Region: STN; smart00965 342610002304 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002305 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 342610002306 N-terminal plug; other site 342610002307 ligand-binding site [chemical binding]; other site 342610002308 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 342610002309 FecR protein; Region: FecR; pfam04773 342610002310 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610002311 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610002312 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 342610002313 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 342610002314 active site 342610002315 catalytic motif [active] 342610002316 Zn binding site [ion binding]; other site 342610002317 lipoprotein NlpI; Provisional; Region: PRK11189 342610002318 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 342610002319 binding surface 342610002320 TPR motif; other site 342610002321 quinolinate synthetase; Provisional; Region: PRK09375 342610002322 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 342610002323 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 342610002324 motif II; other site 342610002325 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002326 Sulfatase; Region: Sulfatase; cl17466 342610002327 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610002328 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 342610002329 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 342610002330 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 342610002331 putative NAD(P) binding site [chemical binding]; other site 342610002332 catalytic Zn binding site [ion binding]; other site 342610002333 structural Zn binding site [ion binding]; other site 342610002334 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 342610002335 Amidohydrolase; Region: Amidohydro_2; pfam04909 342610002336 active site 342610002337 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 342610002338 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610002339 active site 342610002340 catalytic tetrad [active] 342610002341 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 342610002342 galactarate dehydratase; Region: galactar-dH20; TIGR03248 342610002343 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 342610002344 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610002345 L-fucose transporter; Provisional; Region: PRK10133; cl17665 342610002346 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610002347 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610002348 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 342610002349 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610002350 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 342610002351 Beta-agarase, member of glycosyl hydrolase family 16; Region: GH16_beta_agarase; cd02178 342610002352 calcium binding site [ion binding]; other site 342610002353 active site 342610002354 catalytic residues [active] 342610002355 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610002356 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 342610002357 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610002358 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 342610002359 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 342610002360 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 342610002361 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 342610002362 substrate binding site [chemical binding]; other site 342610002363 active site 342610002364 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 342610002365 metal binding site [ion binding]; metal-binding site 342610002366 ligand binding site [chemical binding]; other site 342610002367 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 342610002368 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 342610002369 active site 342610002370 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 342610002371 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 342610002372 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 342610002373 Sulfatase; Region: Sulfatase; cl17466 342610002374 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 342610002375 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 342610002376 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 342610002377 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 342610002378 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 342610002379 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 342610002380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610002382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002383 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002384 Sulfatase; Region: Sulfatase; pfam00884 342610002385 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002386 Sulfatase; Region: Sulfatase; pfam00884 342610002387 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 342610002388 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 342610002389 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610002390 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 342610002391 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 342610002392 Domain of unknown function (DUF718); Region: DUF718; cl01281 342610002393 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 342610002394 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 342610002395 Beta-agarase, member of glycosyl hydrolase family 16; Region: GH16_beta_agarase; cd02178 342610002396 calcium binding site [ion binding]; other site 342610002397 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 342610002398 active site 342610002399 catalytic residues [active] 342610002400 Probable beta-xylosidase; Provisional; Region: PLN03080 342610002401 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 342610002402 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 342610002403 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002404 Sulfatase; Region: Sulfatase; pfam00884 342610002405 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 342610002406 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610002407 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002409 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 342610002410 active site 342610002411 catalytic triad [active] 342610002412 oxyanion hole [active] 342610002413 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002414 Sulfatase; Region: Sulfatase; pfam00884 342610002415 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610002416 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610002417 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 342610002418 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 342610002419 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 342610002420 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610002421 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 342610002422 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 342610002423 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 342610002424 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 342610002425 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 342610002426 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 342610002427 Na binding site [ion binding]; other site 342610002428 substrate binding site [chemical binding]; other site 342610002429 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610002430 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 342610002431 substrate binding site [chemical binding]; other site 342610002432 ATP binding site [chemical binding]; other site 342610002433 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610002434 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610002435 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 342610002436 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 342610002437 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610002438 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610002439 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610002440 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 342610002441 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 342610002442 inhibitor binding site; inhibition site 342610002443 active site 342610002444 Beta-agarase, member of glycosyl hydrolase family 16; Region: GH16_beta_agarase; cd02178 342610002445 calcium binding site [ion binding]; other site 342610002446 active site 342610002447 catalytic residues [active] 342610002448 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 342610002449 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 342610002450 iron-sulfur cluster [ion binding]; other site 342610002451 [2Fe-2S] cluster binding site [ion binding]; other site 342610002452 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 342610002453 alpha subunit interface [polypeptide binding]; other site 342610002454 active site 342610002455 substrate binding site [chemical binding]; other site 342610002456 Fe binding site [ion binding]; other site 342610002457 Transcriptional regulators [Transcription]; Region: GntR; COG1802 342610002458 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002459 DNA-binding site [nucleotide binding]; DNA binding site 342610002460 FCD domain; Region: FCD; pfam07729 342610002461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610002462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610002463 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 342610002464 putative substrate binding pocket [chemical binding]; other site 342610002465 putative dimerization interface [polypeptide binding]; other site 342610002466 Amidohydrolase; Region: Amidohydro_2; pfam04909 342610002467 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 342610002468 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 342610002469 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610002470 putative active site [active] 342610002471 putative metal binding site [ion binding]; other site 342610002472 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 342610002473 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 342610002474 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 342610002475 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 342610002476 NAD binding site [chemical binding]; other site 342610002477 catalytic Zn binding site [ion binding]; other site 342610002478 structural Zn binding site [ion binding]; other site 342610002479 Cupin; Region: Cupin_6; pfam12852 342610002480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610002481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610002482 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 342610002483 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 342610002484 iron-sulfur cluster [ion binding]; other site 342610002485 [2Fe-2S] cluster binding site [ion binding]; other site 342610002486 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 342610002487 hydrophobic ligand binding site; other site 342610002488 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610002489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610002490 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 342610002491 putative substrate binding pocket [chemical binding]; other site 342610002492 putative dimerization interface [polypeptide binding]; other site 342610002493 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 342610002494 Putative cyclase; Region: Cyclase; pfam04199 342610002495 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610002496 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 342610002497 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610002498 putative active site [active] 342610002499 putative metal binding site [ion binding]; other site 342610002500 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 342610002501 iron-sulfur cluster [ion binding]; other site 342610002502 [2Fe-2S] cluster binding site [ion binding]; other site 342610002503 hypothetical protein; Provisional; Region: PRK06847 342610002504 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 342610002505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610002506 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610002507 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610002508 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610002509 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002510 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 342610002511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610002512 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610002513 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 342610002514 putative substrate binding pocket [chemical binding]; other site 342610002515 putative dimerization interface [polypeptide binding]; other site 342610002516 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 342610002517 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 342610002518 iron-sulfur cluster [ion binding]; other site 342610002519 [2Fe-2S] cluster binding site [ion binding]; other site 342610002520 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 342610002521 hydrophobic ligand binding site; other site 342610002522 Predicted membrane protein [Function unknown]; Region: COG2259 342610002523 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 342610002524 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 342610002525 FMN-binding pocket [chemical binding]; other site 342610002526 flavin binding motif; other site 342610002527 phosphate binding motif [ion binding]; other site 342610002528 beta-alpha-beta structure motif; other site 342610002529 NAD binding pocket [chemical binding]; other site 342610002530 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 342610002531 catalytic loop [active] 342610002532 iron binding site [ion binding]; other site 342610002533 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002534 Sulfatase; Region: Sulfatase; pfam00884 342610002535 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 342610002536 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 342610002537 FAD binding pocket [chemical binding]; other site 342610002538 FAD binding motif [chemical binding]; other site 342610002539 phosphate binding motif [ion binding]; other site 342610002540 NAD binding pocket [chemical binding]; other site 342610002541 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610002542 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 342610002543 C-terminal domain interface [polypeptide binding]; other site 342610002544 GSH binding site (G-site) [chemical binding]; other site 342610002545 dimer interface [polypeptide binding]; other site 342610002546 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610002547 dimer interface [polypeptide binding]; other site 342610002548 N-terminal domain interface [polypeptide binding]; other site 342610002549 substrate binding pocket (H-site) [chemical binding]; other site 342610002550 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 342610002551 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 342610002552 substrate binding pocket [chemical binding]; other site 342610002553 catalytic triad [active] 342610002554 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 342610002555 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610002556 putative substrate translocation pore; other site 342610002557 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 342610002558 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 342610002559 active site 342610002560 catalytic residues [active] 342610002561 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002562 Sulfatase; Region: Sulfatase; pfam00884 342610002563 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 342610002564 YrhK-like protein; Region: YrhK; pfam14145 342610002565 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 342610002566 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 342610002567 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 342610002568 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610002569 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 342610002570 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 342610002571 Sulfatase; Region: Sulfatase; cl17466 342610002572 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002573 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002574 Sulfatase; Region: Sulfatase; pfam00884 342610002575 Family description; Region: VCBS; pfam13517 342610002576 Family description; Region: VCBS; pfam13517 342610002577 Family description; Region: VCBS; pfam13517 342610002578 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 342610002579 Sulfatase; Region: Sulfatase; cl17466 342610002580 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002581 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 342610002582 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610002583 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002584 DNA-binding site [nucleotide binding]; DNA binding site 342610002585 FCD domain; Region: FCD; pfam07729 342610002586 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610002587 Sulfatase; Region: Sulfatase; pfam00884 342610002588 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610002589 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 342610002590 tetramerization interface [polypeptide binding]; other site 342610002591 NAD(P) binding site [chemical binding]; other site 342610002592 catalytic residues [active] 342610002593 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 342610002594 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 342610002595 active site pocket [active] 342610002596 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 342610002597 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 342610002598 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 342610002599 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 342610002600 active site 342610002601 intersubunit interface [polypeptide binding]; other site 342610002602 catalytic residue [active] 342610002603 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 342610002604 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 342610002605 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 342610002606 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610002607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002608 DNA-binding site [nucleotide binding]; DNA binding site 342610002609 FCD domain; Region: FCD; pfam07729 342610002610 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 342610002611 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 342610002612 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 342610002613 DNA binding residues [nucleotide binding] 342610002614 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 342610002615 classical (c) SDRs; Region: SDR_c; cd05233 342610002616 NAD(P) binding site [chemical binding]; other site 342610002617 active site 342610002618 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 342610002619 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 342610002620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 342610002621 Family description; Region: VCBS; pfam13517 342610002622 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 342610002623 oxidoreductase; Provisional; Region: PRK06128 342610002624 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 342610002625 NAD binding site [chemical binding]; other site 342610002626 metal binding site [ion binding]; metal-binding site 342610002627 active site 342610002628 Predicted membrane protein [Function unknown]; Region: COG2323 342610002629 Domain of unknown function DUF20; Region: UPF0118; pfam01594 342610002630 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 342610002631 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 342610002632 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 342610002633 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 342610002634 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 342610002635 substrate binding site [chemical binding]; other site 342610002636 THF binding site; other site 342610002637 zinc-binding site [ion binding]; other site 342610002638 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 342610002639 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 342610002640 FMN binding site [chemical binding]; other site 342610002641 substrate binding site [chemical binding]; other site 342610002642 putative catalytic residue [active] 342610002643 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 342610002644 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 342610002645 active site 342610002646 substrate binding site [chemical binding]; other site 342610002647 Mg2+ binding site [ion binding]; other site 342610002648 Lamin Tail Domain; Region: LTD; pfam00932 342610002649 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 342610002650 septum formation inhibitor; Reviewed; Region: minC; PRK00339 342610002651 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 342610002652 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 342610002653 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 342610002654 Switch I; other site 342610002655 Switch II; other site 342610002656 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 342610002657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610002658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610002659 Coenzyme A binding pocket [chemical binding]; other site 342610002660 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 342610002661 Predicted acyl esterases [General function prediction only]; Region: COG2936 342610002662 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 342610002663 Family description; Region: VCBS; pfam13517 342610002664 Family description; Region: VCBS; pfam13517 342610002665 Family description; Region: VCBS; pfam13517 342610002666 Family description; Region: VCBS; pfam13517 342610002667 Family description; Region: VCBS; pfam13517 342610002668 Family description; Region: VCBS; pfam13517 342610002669 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002670 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 342610002671 N-terminal plug; other site 342610002672 ligand-binding site [chemical binding]; other site 342610002673 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 342610002674 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 342610002675 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 342610002676 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002677 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 342610002678 N-terminal plug; other site 342610002679 ligand-binding site [chemical binding]; other site 342610002680 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 342610002681 FecR protein; Region: FecR; pfam04773 342610002682 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610002683 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610002684 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 342610002685 SnoaL-like domain; Region: SnoaL_3; pfam13474 342610002686 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002687 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 342610002688 N-terminal plug; other site 342610002689 ligand-binding site [chemical binding]; other site 342610002690 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002691 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 342610002692 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 342610002693 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 342610002694 active site 342610002695 dimer interface [polypeptide binding]; other site 342610002696 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 342610002697 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 342610002698 active site residue [active] 342610002699 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610002700 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 342610002701 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610002702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610002703 active site 342610002704 phosphorylation site [posttranslational modification] 342610002705 intermolecular recognition site; other site 342610002706 dimerization interface [polypeptide binding]; other site 342610002707 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 342610002708 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 342610002709 tetrameric interface [polypeptide binding]; other site 342610002710 NAD binding site [chemical binding]; other site 342610002711 catalytic residues [active] 342610002712 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610002713 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 342610002714 substrate binding pocket [chemical binding]; other site 342610002715 FAD binding site [chemical binding]; other site 342610002716 catalytic base [active] 342610002717 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 342610002718 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 342610002719 substrate binding site [chemical binding]; other site 342610002720 oxyanion hole (OAH) forming residues; other site 342610002721 trimer interface [polypeptide binding]; other site 342610002722 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 342610002723 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 342610002724 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 342610002725 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 342610002726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002727 NAD(P) binding site [chemical binding]; other site 342610002728 active site 342610002729 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 342610002730 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 342610002731 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 342610002732 putative active site [active] 342610002733 putative dimer interface [polypeptide binding]; other site 342610002734 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 342610002735 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 342610002736 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 342610002737 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610002738 active site 342610002739 ATP binding site [chemical binding]; other site 342610002740 substrate binding site [chemical binding]; other site 342610002741 activation loop (A-loop); other site 342610002742 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610002743 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 342610002744 binding surface 342610002745 TPR motif; other site 342610002746 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610002747 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 342610002748 binding surface 342610002749 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610002750 TPR motif; other site 342610002751 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 342610002752 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610002753 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 342610002754 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 342610002755 active site residue [active] 342610002756 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 342610002757 EF-hand domain pair; Region: EF_hand_5; pfam13499 342610002758 Ca2+ binding site [ion binding]; other site 342610002759 Uncharacterized conserved protein [Function unknown]; Region: COG3268 342610002760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610002761 NAD(P) binding site [chemical binding]; other site 342610002762 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610002763 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 342610002764 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 342610002765 pyruvate kinase; Provisional; Region: PRK05826 342610002766 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 342610002767 domain interfaces; other site 342610002768 active site 342610002769 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 342610002770 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 342610002771 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 342610002772 putative active site [active] 342610002773 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 342610002774 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 342610002775 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 342610002776 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 342610002777 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 342610002778 putative active site [active] 342610002779 phosphogluconate dehydratase; Validated; Region: PRK09054 342610002780 6-phosphogluconate dehydratase; Region: edd; TIGR01196 342610002781 glucokinase; Provisional; Region: glk; PRK00292 342610002782 glucokinase, proteobacterial type; Region: glk; TIGR00749 342610002783 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 342610002784 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 342610002785 active site 342610002786 intersubunit interface [polypeptide binding]; other site 342610002787 catalytic residue [active] 342610002788 Flagellin N-methylase; Region: FliB; cl00497 342610002789 HopJ type III effector protein; Region: HopJ; pfam08888 342610002790 N-acetylglutamate synthase; Validated; Region: PRK05279 342610002791 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 342610002792 putative feedback inhibition sensing region; other site 342610002793 putative nucleotide binding site [chemical binding]; other site 342610002794 putative substrate binding site [chemical binding]; other site 342610002795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610002796 Coenzyme A binding pocket [chemical binding]; other site 342610002797 argininosuccinate lyase; Provisional; Region: PRK04833 342610002798 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 342610002799 active sites [active] 342610002800 tetramer interface [polypeptide binding]; other site 342610002801 argininosuccinate synthase; Provisional; Region: PRK13820 342610002802 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 342610002803 ANP binding site [chemical binding]; other site 342610002804 Substrate Binding Site II [chemical binding]; other site 342610002805 Substrate Binding Site I [chemical binding]; other site 342610002806 ornithine carbamoyltransferase; Provisional; Region: PRK14805 342610002807 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 342610002808 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 342610002809 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 342610002810 nucleotide binding site [chemical binding]; other site 342610002811 N-acetyl-L-glutamate binding site [chemical binding]; other site 342610002812 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 342610002813 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 342610002814 acetylornithine deacetylase; Provisional; Region: PRK05111 342610002815 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 342610002816 metal binding site [ion binding]; metal-binding site 342610002817 putative dimer interface [polypeptide binding]; other site 342610002818 kelch-like protein; Provisional; Region: PHA03098 342610002819 kelch-like protein; Provisional; Region: PHA03098 342610002820 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 342610002821 active site 342610002822 dimer interfaces [polypeptide binding]; other site 342610002823 catalytic residues [active] 342610002824 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 342610002825 dimer interface [polypeptide binding]; other site 342610002826 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 342610002827 dimer interface [polypeptide binding]; other site 342610002828 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610002829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610002830 active site 342610002831 phosphorylation site [posttranslational modification] 342610002832 intermolecular recognition site; other site 342610002833 dimerization interface [polypeptide binding]; other site 342610002834 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 342610002835 DNA binding site [nucleotide binding] 342610002836 two-component sensor protein; Provisional; Region: cpxA; PRK09470 342610002837 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 342610002838 dimerization interface [polypeptide binding]; other site 342610002839 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 342610002840 dimer interface [polypeptide binding]; other site 342610002841 phosphorylation site [posttranslational modification] 342610002842 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 342610002843 ATP binding site [chemical binding]; other site 342610002844 Mg2+ binding site [ion binding]; other site 342610002845 G-X-G motif; other site 342610002846 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 342610002847 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 342610002848 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 342610002849 FMN reductase; Validated; Region: fre; PRK08051 342610002850 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 342610002851 FAD binding pocket [chemical binding]; other site 342610002852 FAD binding motif [chemical binding]; other site 342610002853 phosphate binding motif [ion binding]; other site 342610002854 beta-alpha-beta structure motif; other site 342610002855 NAD binding pocket [chemical binding]; other site 342610002856 Phosphate-starvation-inducible E; Region: PsiE; cl01264 342610002857 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 342610002858 Sel1-like repeats; Region: SEL1; smart00671 342610002859 ribonuclease R; Region: RNase_R; TIGR02063 342610002860 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 342610002861 RNB domain; Region: RNB; pfam00773 342610002862 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 342610002863 RNA binding site [nucleotide binding]; other site 342610002864 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 342610002865 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 342610002866 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 342610002867 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 342610002868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610002869 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 342610002870 dimerization interface [polypeptide binding]; other site 342610002871 substrate binding pocket [chemical binding]; other site 342610002872 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 342610002873 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 342610002874 acyl-activating enzyme (AAE) consensus motif; other site 342610002875 putative AMP binding site [chemical binding]; other site 342610002876 putative active site [active] 342610002877 putative CoA binding site [chemical binding]; other site 342610002878 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 342610002879 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 342610002880 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 342610002881 RNA binding site [nucleotide binding]; other site 342610002882 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 342610002883 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 342610002884 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 342610002885 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 342610002886 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 342610002887 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 342610002888 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 342610002889 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 342610002890 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 342610002891 5S rRNA interface [nucleotide binding]; other site 342610002892 23S rRNA interface [nucleotide binding]; other site 342610002893 L5 interface [polypeptide binding]; other site 342610002894 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 342610002895 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 342610002896 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 342610002897 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 342610002898 23S rRNA binding site [nucleotide binding]; other site 342610002899 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 342610002900 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 342610002901 SecY translocase; Region: SecY; pfam00344 342610002902 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 342610002903 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 342610002904 30S ribosomal protein S13; Region: bact_S13; TIGR03631 342610002905 30S ribosomal protein S11; Validated; Region: PRK05309 342610002906 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 342610002907 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 342610002908 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 342610002909 RNA binding surface [nucleotide binding]; other site 342610002910 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 342610002911 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 342610002912 alphaNTD homodimer interface [polypeptide binding]; other site 342610002913 alphaNTD - beta interaction site [polypeptide binding]; other site 342610002914 alphaNTD - beta' interaction site [polypeptide binding]; other site 342610002915 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 342610002916 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 342610002917 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 342610002918 dimer interface [polypeptide binding]; other site 342610002919 FMN binding site [chemical binding]; other site 342610002920 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 342610002921 putative active site [active] 342610002922 putative metal binding site [ion binding]; other site 342610002923 imidazolonepropionase; Validated; Region: PRK09356 342610002924 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 342610002925 active site 342610002926 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 342610002927 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610002928 DNA-binding site [nucleotide binding]; DNA binding site 342610002929 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 342610002930 urocanate hydratase; Provisional; Region: PRK05414 342610002931 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 342610002932 active sites [active] 342610002933 tetramer interface [polypeptide binding]; other site 342610002934 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 342610002935 active site 342610002936 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 342610002937 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 342610002938 G1 box; other site 342610002939 putative GEF interaction site [polypeptide binding]; other site 342610002940 GTP/Mg2+ binding site [chemical binding]; other site 342610002941 Switch I region; other site 342610002942 G2 box; other site 342610002943 G3 box; other site 342610002944 Switch II region; other site 342610002945 G4 box; other site 342610002946 G5 box; other site 342610002947 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 342610002948 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 342610002949 glutamine synthetase; Provisional; Region: glnA; PRK09469 342610002950 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 342610002951 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 342610002952 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 342610002953 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 342610002954 putative active site [active] 342610002955 heme pocket [chemical binding]; other site 342610002956 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 342610002957 dimer interface [polypeptide binding]; other site 342610002958 phosphorylation site [posttranslational modification] 342610002959 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 342610002960 ATP binding site [chemical binding]; other site 342610002961 Mg2+ binding site [ion binding]; other site 342610002962 G-X-G motif; other site 342610002963 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 342610002964 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610002965 active site 342610002966 phosphorylation site [posttranslational modification] 342610002967 intermolecular recognition site; other site 342610002968 dimerization interface [polypeptide binding]; other site 342610002969 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 342610002970 Walker A motif; other site 342610002971 ATP binding site [chemical binding]; other site 342610002972 Walker B motif; other site 342610002973 arginine finger; other site 342610002974 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 342610002975 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 342610002976 putative binding surface; other site 342610002977 active site 342610002978 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610002979 Zn2+ binding site [ion binding]; other site 342610002980 Mg2+ binding site [ion binding]; other site 342610002981 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 342610002982 putative acyl-acceptor binding pocket; other site 342610002983 RNase E inhibitor protein; Provisional; Region: PRK11191 342610002984 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 342610002985 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 342610002986 Endonuclease I; Region: Endonuclease_1; pfam04231 342610002987 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 342610002988 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 342610002989 generic binding surface I; other site 342610002990 generic binding surface II; other site 342610002991 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610002992 putative catalytic site [active] 342610002993 putative metal binding site [ion binding]; other site 342610002994 putative phosphate binding site [ion binding]; other site 342610002995 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 342610002996 dockerin binding interface; other site 342610002997 PEP-CTERM motif; Region: VPEP; pfam07589 342610002998 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 342610002999 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 342610003000 active site 342610003001 catalytic triad [active] 342610003002 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 342610003003 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610003004 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 342610003005 catalytic residues [active] 342610003006 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 342610003007 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610003008 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610003009 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610003010 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610003011 Protein export membrane protein; Region: SecD_SecF; cl14618 342610003012 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 342610003013 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 342610003014 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 342610003015 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 342610003016 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610003017 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 342610003018 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 342610003019 DNA binding residues [nucleotide binding] 342610003020 DNA primase; Validated; Region: dnaG; PRK05667 342610003021 CHC2 zinc finger; Region: zf-CHC2; pfam01807 342610003022 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 342610003023 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 342610003024 active site 342610003025 metal binding site [ion binding]; metal-binding site 342610003026 interdomain interaction site; other site 342610003027 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 342610003028 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 342610003029 Yqey-like protein; Region: YqeY; pfam09424 342610003030 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 342610003031 UGMP family protein; Validated; Region: PRK09604 342610003032 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 342610003033 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 342610003034 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 342610003035 homooctamer interface [polypeptide binding]; other site 342610003036 active site 342610003037 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 342610003038 catalytic center binding site [active] 342610003039 ATP binding site [chemical binding]; other site 342610003040 Bacitracin resistance protein BacA; Region: BacA; pfam02673 342610003041 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 342610003042 nucleotide binding site/active site [active] 342610003043 HIT family signature motif; other site 342610003044 catalytic residue [active] 342610003045 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610003046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003047 metal binding site [ion binding]; metal-binding site 342610003048 active site 342610003049 I-site; other site 342610003050 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 342610003051 Nudix hydrolase homolog; Region: PLN02791 342610003052 HDOD domain; Region: HDOD; pfam08668 342610003053 Putative exonuclease, RdgC; Region: RdgC; pfam04381 342610003054 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 342610003055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 342610003056 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 342610003057 ATP binding site [chemical binding]; other site 342610003058 Mg2+ binding site [ion binding]; other site 342610003059 G-X-G motif; other site 342610003060 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 342610003061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610003062 active site 342610003063 phosphorylation site [posttranslational modification] 342610003064 intermolecular recognition site; other site 342610003065 dimerization interface [polypeptide binding]; other site 342610003066 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 342610003067 DNA binding site [nucleotide binding] 342610003068 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 342610003069 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 342610003070 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 342610003071 dimer interface [polypeptide binding]; other site 342610003072 phosphorylation site [posttranslational modification] 342610003073 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 342610003074 ATP binding site [chemical binding]; other site 342610003075 Mg2+ binding site [ion binding]; other site 342610003076 G-X-G motif; other site 342610003077 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 342610003078 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 342610003079 Lipase (class 2); Region: Lipase_2; pfam01674 342610003080 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610003081 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 342610003082 Cytochrome c; Region: Cytochrom_C; pfam00034 342610003083 Iron permease FTR1 family; Region: FTR1; cl00475 342610003084 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610003085 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 342610003086 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 342610003087 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 342610003088 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610003089 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 342610003090 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 342610003091 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 342610003092 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 342610003093 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610003094 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 342610003095 binding surface 342610003096 TPR motif; other site 342610003097 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610003098 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 342610003099 binding surface 342610003100 TPR motif; other site 342610003101 peroxiredoxin; Region: AhpC; TIGR03137 342610003102 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 342610003103 dimer interface [polypeptide binding]; other site 342610003104 decamer (pentamer of dimers) interface [polypeptide binding]; other site 342610003105 catalytic triad [active] 342610003106 peroxidatic and resolving cysteines [active] 342610003107 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 342610003108 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 342610003109 catalytic residue [active] 342610003110 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 342610003111 catalytic residues [active] 342610003112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610003113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610003114 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 342610003115 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 342610003116 Bacterial sugar transferase; Region: Bac_transf; pfam02397 342610003117 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 342610003118 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610003119 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 342610003120 SLBB domain; Region: SLBB; pfam10531 342610003121 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 342610003122 Chain length determinant protein; Region: Wzz; pfam02706 342610003123 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 342610003124 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 342610003125 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 342610003126 PHP domain; Region: PHP; pfam02811 342610003127 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 342610003128 binding surface 342610003129 TPR motif; other site 342610003130 TPR repeat; Region: TPR_11; pfam13414 342610003131 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 342610003132 O-Antigen ligase; Region: Wzy_C; pfam04932 342610003133 HAMP domain; Region: HAMP; pfam00672 342610003134 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610003135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003136 metal binding site [ion binding]; metal-binding site 342610003137 active site 342610003138 I-site; other site 342610003139 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 342610003140 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 342610003141 Right handed beta helix region; Region: Beta_helix; pfam13229 342610003142 colanic acid exporter; Provisional; Region: PRK10459 342610003143 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 342610003144 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003145 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003146 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 342610003147 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 342610003148 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 342610003149 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 342610003150 putative NAD(P) binding site [chemical binding]; other site 342610003151 active site 342610003152 putative substrate binding site [chemical binding]; other site 342610003153 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 342610003154 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 342610003155 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 342610003156 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003157 putative ADP-binding pocket [chemical binding]; other site 342610003158 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003159 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 342610003160 putative ADP-binding pocket [chemical binding]; other site 342610003161 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 342610003162 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610003163 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 342610003164 active site 342610003165 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 342610003166 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003167 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 342610003168 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 342610003169 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 342610003170 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610003171 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 342610003172 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 342610003173 active site 342610003174 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 342610003175 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 342610003176 FeS/SAM binding site; other site 342610003177 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 342610003178 Uncharacterized conserved protein [Function unknown]; Region: COG3379 342610003179 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 342610003180 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 342610003181 tetramer interface [polypeptide binding]; other site 342610003182 heme binding pocket [chemical binding]; other site 342610003183 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 342610003184 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 342610003185 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 342610003186 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 342610003187 Carbon starvation protein CstA; Region: CstA; pfam02554 342610003188 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 342610003189 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 342610003190 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 342610003191 N-terminal plug; other site 342610003192 ligand-binding site [chemical binding]; other site 342610003193 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 342610003194 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610003195 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 342610003196 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610003197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610003198 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 342610003199 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 342610003200 E3 interaction surface; other site 342610003201 lipoyl attachment site [posttranslational modification]; other site 342610003202 e3 binding domain; Region: E3_binding; pfam02817 342610003203 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 342610003204 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 342610003205 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 342610003206 dimer interface [polypeptide binding]; other site 342610003207 TPP-binding site [chemical binding]; other site 342610003208 Tannase and feruloyl esterase; Region: Tannase; pfam07519 342610003209 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 342610003210 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 342610003211 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610003212 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 342610003213 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 342610003214 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 342610003215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610003217 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 342610003218 dimerization interface [polypeptide binding]; other site 342610003219 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 342610003220 MarR family; Region: MarR_2; pfam12802 342610003221 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 342610003222 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 342610003223 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 342610003224 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 342610003225 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610003226 Zn binding site [ion binding]; other site 342610003227 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 342610003228 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 342610003229 dimer interface [polypeptide binding]; other site 342610003230 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 342610003231 active site 342610003232 Fe binding site [ion binding]; other site 342610003233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 342610003234 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610003235 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 342610003236 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 342610003237 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 342610003238 FAD binding pocket [chemical binding]; other site 342610003239 FAD binding motif [chemical binding]; other site 342610003240 phosphate binding motif [ion binding]; other site 342610003241 beta-alpha-beta structure motif; other site 342610003242 NAD binding pocket [chemical binding]; other site 342610003243 Heme binding pocket [chemical binding]; other site 342610003244 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 342610003245 catalytic loop [active] 342610003246 iron binding site [ion binding]; other site 342610003247 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610003248 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 342610003249 putative C-terminal domain interface [polypeptide binding]; other site 342610003250 putative GSH binding site (G-site) [chemical binding]; other site 342610003251 putative dimer interface [polypeptide binding]; other site 342610003252 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 342610003253 putative N-terminal domain interface [polypeptide binding]; other site 342610003254 putative dimer interface [polypeptide binding]; other site 342610003255 putative substrate binding pocket (H-site) [chemical binding]; other site 342610003256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610003258 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 342610003259 putative effector binding pocket; other site 342610003260 dimerization interface [polypeptide binding]; other site 342610003261 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 342610003262 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 342610003263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610003264 homodimer interface [polypeptide binding]; other site 342610003265 catalytic residue [active] 342610003266 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 342610003267 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 342610003268 catalytic core [active] 342610003269 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 342610003270 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 342610003271 cobalamin binding residues [chemical binding]; other site 342610003272 putative BtuC binding residues; other site 342610003273 dimer interface [polypeptide binding]; other site 342610003274 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 342610003275 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 342610003276 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 342610003277 homodimer interface [polypeptide binding]; other site 342610003278 Walker A motif; other site 342610003279 ATP binding site [chemical binding]; other site 342610003280 hydroxycobalamin binding site [chemical binding]; other site 342610003281 Walker B motif; other site 342610003282 cobyric acid synthase; Provisional; Region: PRK00784 342610003283 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 342610003284 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 342610003285 catalytic triad [active] 342610003286 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 342610003287 catalytic core [active] 342610003288 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 342610003289 homotrimer interface [polypeptide binding]; other site 342610003290 Walker A motif; other site 342610003291 GTP binding site [chemical binding]; other site 342610003292 Walker B motif; other site 342610003293 cobalamin synthase; Reviewed; Region: cobS; PRK00235 342610003294 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 342610003295 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 342610003296 putative dimer interface [polypeptide binding]; other site 342610003297 active site pocket [active] 342610003298 putative cataytic base [active] 342610003299 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 342610003300 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 342610003301 ABC-ATPase subunit interface; other site 342610003302 dimer interface [polypeptide binding]; other site 342610003303 putative PBP binding regions; other site 342610003304 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 342610003305 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 342610003306 Walker A/P-loop; other site 342610003307 ATP binding site [chemical binding]; other site 342610003308 Q-loop/lid; other site 342610003309 ABC transporter signature motif; other site 342610003310 Walker B; other site 342610003311 D-loop; other site 342610003312 H-loop/switch region; other site 342610003313 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610003314 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 342610003315 N-terminal plug; other site 342610003316 ligand-binding site [chemical binding]; other site 342610003317 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610003318 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 342610003319 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 342610003320 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610003321 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 342610003322 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610003323 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 342610003324 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 342610003325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610003326 active site 342610003327 phosphorylation site [posttranslational modification] 342610003328 intermolecular recognition site; other site 342610003329 dimerization interface [polypeptide binding]; other site 342610003330 LytTr DNA-binding domain; Region: LytTR; smart00850 342610003331 Histidine kinase; Region: His_kinase; pfam06580 342610003332 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; cl00075 342610003333 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 342610003334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610003335 active site 342610003336 phosphorylation site [posttranslational modification] 342610003337 intermolecular recognition site; other site 342610003338 dimerization interface [polypeptide binding]; other site 342610003339 LytTr DNA-binding domain; Region: LytTR; smart00850 342610003340 glutathione synthetase; Provisional; Region: PRK05246 342610003341 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 342610003342 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 342610003343 hypothetical protein; Validated; Region: PRK00228 342610003344 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 342610003345 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 342610003346 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610003347 catalytic residues [active] 342610003348 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 342610003349 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 342610003350 ligand binding site [chemical binding]; other site 342610003351 NAD binding site [chemical binding]; other site 342610003352 tetramer interface [polypeptide binding]; other site 342610003353 catalytic site [active] 342610003354 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 342610003355 L-serine binding site [chemical binding]; other site 342610003356 ACT domain interface; other site 342610003357 PAS fold; Region: PAS_4; pfam08448 342610003358 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 342610003359 putative active site [active] 342610003360 heme pocket [chemical binding]; other site 342610003361 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 342610003362 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610003363 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 342610003364 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610003365 active site 342610003366 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610003367 active site 342610003368 hypothetical protein; Provisional; Region: PRK11239 342610003369 Protein of unknown function, DUF480; Region: DUF480; pfam04337 342610003370 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 342610003371 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 342610003372 putative active site [active] 342610003373 Zn binding site [ion binding]; other site 342610003374 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 342610003375 active site 342610003376 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 342610003377 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 342610003378 TrkA-N domain; Region: TrkA_N; pfam02254 342610003379 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 342610003380 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 342610003381 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 342610003382 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 342610003383 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 342610003384 Chain length determinant protein; Region: Wzz; pfam02706 342610003385 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610003386 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 342610003387 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 342610003388 Bacterial sugar transferase; Region: Bac_transf; pfam02397 342610003389 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 342610003390 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 342610003391 putative active site [active] 342610003392 putative catalytic site [active] 342610003393 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 342610003394 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 342610003395 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 342610003396 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 342610003397 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003398 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 342610003399 serine O-acetyltransferase; Region: cysE; TIGR01172 342610003400 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 342610003401 trimer interface [polypeptide binding]; other site 342610003402 active site 342610003403 substrate binding site [chemical binding]; other site 342610003404 CoA binding site [chemical binding]; other site 342610003405 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 342610003406 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 342610003407 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610003408 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 342610003409 active site 342610003410 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 342610003411 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 342610003412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610003413 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610003414 O-Antigen ligase; Region: Wzy_C; cl04850 342610003415 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610003416 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 342610003417 active site 342610003418 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 342610003419 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003420 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 342610003421 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 342610003422 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003423 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 342610003424 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 342610003425 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 342610003426 putative ADP-binding pocket [chemical binding]; other site 342610003427 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 342610003428 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 342610003429 active site 342610003430 dimer interface [polypeptide binding]; other site 342610003431 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 342610003432 Ligand Binding Site [chemical binding]; other site 342610003433 Molecular Tunnel; other site 342610003434 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 342610003435 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 342610003436 putative active site [active] 342610003437 putative catalytic site [active] 342610003438 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610003439 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 342610003440 putative ADP-binding pocket [chemical binding]; other site 342610003441 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 342610003442 active site 342610003443 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 342610003444 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610003445 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 342610003446 binding surface 342610003447 TPR motif; other site 342610003448 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 342610003449 TPR motif; other site 342610003450 binding surface 342610003451 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 342610003452 binding surface 342610003453 TPR motif; other site 342610003454 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610003455 FAD binding domain; Region: FAD_binding_4; pfam01565 342610003456 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 342610003457 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 342610003458 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 342610003459 active site 342610003460 nucleophile elbow; other site 342610003461 Uncharacterized conserved protein [Function unknown]; Region: COG1434 342610003462 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 342610003463 putative active site [active] 342610003464 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 342610003465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003467 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 342610003468 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 342610003469 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 342610003470 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 342610003471 active site 342610003472 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610003474 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 342610003475 substrate binding pocket [chemical binding]; other site 342610003476 dimerization interface [polypeptide binding]; other site 342610003477 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 342610003478 tetramer interface [polypeptide binding]; other site 342610003479 active site 342610003480 Mg2+/Mn2+ binding site [ion binding]; other site 342610003481 isocitrate lyase; Region: PLN02892 342610003482 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; cd00016 342610003483 Alkaline phosphatase homologues; Region: alkPPc; smart00098 342610003484 active site 342610003485 dimer interface [polypeptide binding]; other site 342610003486 Rhomboid family; Region: Rhomboid; pfam01694 342610003487 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 342610003488 hypothetical protein; Provisional; Region: PRK11653 342610003489 Translocation protein Sec62; Region: Sec62; cl02170 342610003490 Predicted membrane protein [Function unknown]; Region: COG3766 342610003491 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 342610003492 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 342610003493 Ion channel; Region: Ion_trans_2; pfam07885 342610003494 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 342610003495 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 342610003496 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 342610003497 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 342610003498 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 342610003499 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 342610003500 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 342610003501 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 342610003502 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 342610003503 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 342610003504 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 342610003505 Preprotein translocase subunit SecF [Intracellular trafficking and secretion]; Region: SecF; COG0341 342610003506 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 342610003507 Protein export membrane protein; Region: SecD_SecF; pfam02355 342610003508 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 342610003509 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 342610003510 active site 342610003511 dimerization interface [polypeptide binding]; other site 342610003512 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 342610003513 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610003514 putative metal binding site [ion binding]; other site 342610003515 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 342610003516 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 342610003517 serine O-acetyltransferase; Region: cysE; TIGR01172 342610003518 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 342610003519 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 342610003520 trimer interface [polypeptide binding]; other site 342610003521 active site 342610003522 substrate binding site [chemical binding]; other site 342610003523 CoA binding site [chemical binding]; other site 342610003524 Transcriptional regulator; Region: Rrf2; cl17282 342610003525 Rrf2 family protein; Region: rrf2_super; TIGR00738 342610003526 cysteine desulfurase; Provisional; Region: PRK14012 342610003527 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 342610003528 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610003529 catalytic residue [active] 342610003530 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 342610003531 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 342610003532 trimerization site [polypeptide binding]; other site 342610003533 active site 342610003534 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 342610003535 co-chaperone HscB; Provisional; Region: hscB; PRK05014 342610003536 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 342610003537 HSP70 interaction site [polypeptide binding]; other site 342610003538 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 342610003539 chaperone protein HscA; Provisional; Region: hscA; PRK05183 342610003540 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 342610003541 nucleotide binding site [chemical binding]; other site 342610003542 putative NEF/HSP70 interaction site [polypeptide binding]; other site 342610003543 SBD interface [polypeptide binding]; other site 342610003544 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 342610003545 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 342610003546 catalytic loop [active] 342610003547 iron binding site [ion binding]; other site 342610003548 YebG protein; Region: YebG; pfam07130 342610003549 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 342610003550 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 342610003551 putative acyl-acceptor binding pocket; other site 342610003552 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 342610003553 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610003554 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 342610003555 putative active site [active] 342610003556 putative metal binding site [ion binding]; other site 342610003557 PII uridylyl-transferase; Provisional; Region: PRK05007 342610003558 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610003559 metal binding triad; other site 342610003560 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 342610003561 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610003562 Zn2+ binding site [ion binding]; other site 342610003563 Mg2+ binding site [ion binding]; other site 342610003564 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 342610003565 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 342610003566 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 342610003567 active site 342610003568 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 342610003569 rRNA interaction site [nucleotide binding]; other site 342610003570 S8 interaction site; other site 342610003571 putative laminin-1 binding site; other site 342610003572 elongation factor Ts; Provisional; Region: tsf; PRK09377 342610003573 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 342610003574 Elongation factor TS; Region: EF_TS; pfam00889 342610003575 Elongation factor TS; Region: EF_TS; pfam00889 342610003576 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 342610003577 putative nucleotide binding site [chemical binding]; other site 342610003578 uridine monophosphate binding site [chemical binding]; other site 342610003579 homohexameric interface [polypeptide binding]; other site 342610003580 ribosome recycling factor; Reviewed; Region: frr; PRK00083 342610003581 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 342610003582 hinge region; other site 342610003583 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 342610003584 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 342610003585 catalytic residue [active] 342610003586 putative FPP diphosphate binding site; other site 342610003587 putative FPP binding hydrophobic cleft; other site 342610003588 dimer interface [polypeptide binding]; other site 342610003589 putative IPP diphosphate binding site; other site 342610003590 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 342610003591 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 342610003592 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 342610003593 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 342610003594 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 342610003595 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 342610003596 zinc metallopeptidase RseP; Provisional; Region: PRK10779 342610003597 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 342610003598 active site 342610003599 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 342610003600 protein binding site [polypeptide binding]; other site 342610003601 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 342610003602 protein binding site [polypeptide binding]; other site 342610003603 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 342610003604 putative substrate binding region [chemical binding]; other site 342610003605 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 342610003606 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 342610003607 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 342610003608 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 342610003609 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 342610003610 Surface antigen; Region: Bac_surface_Ag; pfam01103 342610003611 periplasmic chaperone; Provisional; Region: PRK10780 342610003612 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 342610003613 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 342610003614 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 342610003615 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 342610003616 trimer interface [polypeptide binding]; other site 342610003617 active site 342610003618 UDP-GlcNAc binding site [chemical binding]; other site 342610003619 lipid binding site [chemical binding]; lipid-binding site 342610003620 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 342610003621 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 342610003622 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 342610003623 active site 342610003624 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 342610003625 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 342610003626 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 342610003627 RNA/DNA hybrid binding site [nucleotide binding]; other site 342610003628 active site 342610003629 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 342610003630 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 342610003631 putative active site [active] 342610003632 putative PHP Thumb interface [polypeptide binding]; other site 342610003633 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 342610003634 generic binding surface I; other site 342610003635 generic binding surface II; other site 342610003636 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 342610003637 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 342610003638 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 342610003639 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 342610003640 Ligand Binding Site [chemical binding]; other site 342610003641 TilS substrate binding domain; Region: TilS; pfam09179 342610003642 TilS substrate C-terminal domain; Region: TilS_C; smart00977 342610003643 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 342610003644 active site flap/lid [active] 342610003645 nucleophilic elbow; other site 342610003646 catalytic triad [active] 342610003647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610003648 active site 342610003649 phosphorylation site [posttranslational modification] 342610003650 intermolecular recognition site; other site 342610003651 dimerization interface [polypeptide binding]; other site 342610003652 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610003653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003654 metal binding site [ion binding]; metal-binding site 342610003655 active site 342610003656 I-site; other site 342610003657 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 342610003658 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610003659 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 342610003660 TrkA-N domain; Region: TrkA_N; pfam02254 342610003661 TrkA-C domain; Region: TrkA_C; pfam02080 342610003662 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 342610003663 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 342610003664 carboxyltransferase (CT) interaction site; other site 342610003665 biotinylation site [posttranslational modification]; other site 342610003666 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 342610003667 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 342610003668 oxyanion hole (OAH) forming residues; other site 342610003669 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 342610003670 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610003671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610003672 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 342610003673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 342610003674 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 342610003675 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 342610003676 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 342610003677 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 342610003678 nucleophile elbow; other site 342610003679 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 342610003680 prolyl-tRNA synthetase; Provisional; Region: PRK09194 342610003681 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 342610003682 dimer interface [polypeptide binding]; other site 342610003683 motif 1; other site 342610003684 active site 342610003685 motif 2; other site 342610003686 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 342610003687 putative deacylase active site [active] 342610003688 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 342610003689 active site 342610003690 motif 3; other site 342610003691 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 342610003692 anticodon binding site; other site 342610003693 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 342610003694 homodimer interaction site [polypeptide binding]; other site 342610003695 cofactor binding site; other site 342610003696 phosphoserine phosphatase SerB; Region: serB; TIGR00338 342610003697 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 342610003698 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 342610003699 motif II; other site 342610003700 PilZ domain; Region: PilZ; pfam07238 342610003701 PilZ domain; Region: PilZ; pfam07238 342610003702 DNA repair protein RadA; Provisional; Region: PRK11823 342610003703 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 342610003704 Walker A motif/ATP binding site; other site 342610003705 ATP binding site [chemical binding]; other site 342610003706 Walker B motif; other site 342610003707 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 342610003708 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 342610003709 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 342610003710 HAMP domain; Region: HAMP; pfam00672 342610003711 dimerization interface [polypeptide binding]; other site 342610003712 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610003713 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610003714 metal binding site [ion binding]; metal-binding site 342610003715 active site 342610003716 I-site; other site 342610003717 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 342610003718 aconitate hydratase; Validated; Region: PRK09277 342610003719 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 342610003720 substrate binding site [chemical binding]; other site 342610003721 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 342610003722 ligand binding site [chemical binding]; other site 342610003723 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 342610003724 substrate binding site [chemical binding]; other site 342610003725 PRC-barrel domain; Region: PRC; pfam05239 342610003726 Uncharacterized conserved protein [Function unknown]; Region: COG3791 342610003727 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 342610003728 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610003729 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610003730 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 342610003731 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 342610003732 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 342610003733 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 342610003734 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 342610003735 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 342610003736 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 342610003737 D-pathway; other site 342610003738 Putative ubiquinol binding site [chemical binding]; other site 342610003739 Low-spin heme (heme b) binding site [chemical binding]; other site 342610003740 Putative water exit pathway; other site 342610003741 Binuclear center (heme o3/CuB) [ion binding]; other site 342610003742 K-pathway; other site 342610003743 Putative proton exit pathway; other site 342610003744 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 342610003745 Subunit I/III interface [polypeptide binding]; other site 342610003746 Subunit III/IV interface [polypeptide binding]; other site 342610003747 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 342610003748 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 342610003749 UbiA prenyltransferase family; Region: UbiA; pfam01040 342610003750 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 342610003751 PAS domain; Region: PAS_9; pfam13426 342610003752 putative active site [active] 342610003753 heme pocket [chemical binding]; other site 342610003754 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610003755 GAF domain; Region: GAF; pfam01590 342610003756 PAS fold; Region: PAS_3; pfam08447 342610003757 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 342610003758 heme pocket [chemical binding]; other site 342610003759 putative active site [active] 342610003760 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610003761 GAF domain; Region: GAF; pfam01590 342610003762 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 342610003763 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 342610003764 putative active site [active] 342610003765 heme pocket [chemical binding]; other site 342610003766 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 342610003767 dimer interface [polypeptide binding]; other site 342610003768 phosphorylation site [posttranslational modification] 342610003769 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 342610003770 ATP binding site [chemical binding]; other site 342610003771 Mg2+ binding site [ion binding]; other site 342610003772 G-X-G motif; other site 342610003773 Response regulator receiver domain; Region: Response_reg; pfam00072 342610003774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610003775 active site 342610003776 phosphorylation site [posttranslational modification] 342610003777 intermolecular recognition site; other site 342610003778 dimerization interface [polypeptide binding]; other site 342610003779 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 342610003780 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610003781 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610003782 ABC transporter; Region: ABC_tran_2; pfam12848 342610003783 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610003784 glutamate carboxypeptidase; Reviewed; Region: PRK06133 342610003785 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 342610003786 metal binding site [ion binding]; metal-binding site 342610003787 dimer interface [polypeptide binding]; other site 342610003788 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610003789 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 342610003790 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 342610003791 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 342610003792 dimer interface [polypeptide binding]; other site 342610003793 active site 342610003794 glycine-pyridoxal phosphate binding site [chemical binding]; other site 342610003795 folate binding site [chemical binding]; other site 342610003796 Predicted integral membrane protein [Function unknown]; Region: COG5616 342610003797 Sporulation related domain; Region: SPOR; pfam05036 342610003798 Predicted integral membrane protein [Function unknown]; Region: COG5616 342610003799 Predicted integral membrane protein [Function unknown]; Region: COG5616 342610003800 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 342610003801 ATP cone domain; Region: ATP-cone; pfam03477 342610003802 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 342610003803 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 342610003804 catalytic motif [active] 342610003805 Zn binding site [ion binding]; other site 342610003806 RibD C-terminal domain; Region: RibD_C; cl17279 342610003807 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 342610003808 Lumazine binding domain; Region: Lum_binding; pfam00677 342610003809 Lumazine binding domain; Region: Lum_binding; pfam00677 342610003810 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 342610003811 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 342610003812 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 342610003813 dimerization interface [polypeptide binding]; other site 342610003814 active site 342610003815 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 342610003816 homopentamer interface [polypeptide binding]; other site 342610003817 active site 342610003818 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 342610003819 putative RNA binding site [nucleotide binding]; other site 342610003820 thiamine monophosphate kinase; Provisional; Region: PRK05731 342610003821 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 342610003822 ATP binding site [chemical binding]; other site 342610003823 dimerization interface [polypeptide binding]; other site 342610003824 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 342610003825 tetramer interfaces [polypeptide binding]; other site 342610003826 binuclear metal-binding site [ion binding]; other site 342610003827 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 342610003828 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 342610003829 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 342610003830 TPP-binding site; other site 342610003831 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 342610003832 PYR/PP interface [polypeptide binding]; other site 342610003833 dimer interface [polypeptide binding]; other site 342610003834 TPP binding site [chemical binding]; other site 342610003835 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 342610003836 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 342610003837 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 342610003838 substrate binding pocket [chemical binding]; other site 342610003839 chain length determination region; other site 342610003840 substrate-Mg2+ binding site; other site 342610003841 catalytic residues [active] 342610003842 aspartate-rich region 1; other site 342610003843 active site lid residues [active] 342610003844 aspartate-rich region 2; other site 342610003845 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 342610003846 flagellar motor protein PomA; Reviewed; Region: PRK08990 342610003847 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 342610003848 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 342610003849 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 342610003850 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610003851 ligand binding site [chemical binding]; other site 342610003852 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 342610003853 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 342610003854 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 342610003855 S-adenosylmethionine binding site [chemical binding]; other site 342610003856 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 342610003857 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 342610003858 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 342610003859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003860 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610003861 NAD(P) binding site [chemical binding]; other site 342610003862 active site 342610003863 SnoaL-like domain; Region: SnoaL_2; pfam12680 342610003864 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 342610003865 RNA polymerase sigma factor; Provisional; Region: PRK11924 342610003866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610003867 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 342610003868 DNA binding residues [nucleotide binding] 342610003869 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 342610003870 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 342610003871 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 342610003872 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 342610003873 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 342610003874 RNA binding surface [nucleotide binding]; other site 342610003875 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610003876 active site 342610003877 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 342610003878 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 342610003879 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 342610003880 Clp amino terminal domain; Region: Clp_N; pfam02861 342610003881 Clp amino terminal domain; Region: Clp_N; pfam02861 342610003882 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 342610003883 Walker A motif; other site 342610003884 ATP binding site [chemical binding]; other site 342610003885 Walker B motif; other site 342610003886 arginine finger; other site 342610003887 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 342610003888 Walker A motif; other site 342610003889 ATP binding site [chemical binding]; other site 342610003890 Walker B motif; other site 342610003891 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 342610003892 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610003893 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 342610003894 binding surface 342610003895 TPR motif; other site 342610003896 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 342610003897 binding surface 342610003898 TPR motif; other site 342610003899 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 342610003900 binding surface 342610003901 TPR motif; other site 342610003902 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 342610003903 binding surface 342610003904 TPR motif; other site 342610003905 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 342610003906 binding surface 342610003907 TPR motif; other site 342610003908 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 342610003909 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 342610003910 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 342610003911 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 342610003912 Helicase; Region: Helicase_RecD; pfam05127 342610003913 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610003914 Coenzyme A binding pocket [chemical binding]; other site 342610003915 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 342610003916 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 342610003917 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610003918 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 342610003919 N-terminal plug; other site 342610003920 ligand-binding site [chemical binding]; other site 342610003921 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 342610003922 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 342610003923 Phosphotransferase enzyme family; Region: APH; pfam01636 342610003924 active site 342610003925 substrate binding site [chemical binding]; other site 342610003926 ATP binding site [chemical binding]; other site 342610003927 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 342610003928 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 342610003929 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610003930 Coenzyme A binding pocket [chemical binding]; other site 342610003931 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 342610003932 non-specific DNA binding site [nucleotide binding]; other site 342610003933 salt bridge; other site 342610003934 sequence-specific DNA binding site [nucleotide binding]; other site 342610003935 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 342610003936 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 342610003937 non-specific DNA binding site [nucleotide binding]; other site 342610003938 salt bridge; other site 342610003939 sequence-specific DNA binding site [nucleotide binding]; other site 342610003940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610003941 NAD(P) binding site [chemical binding]; other site 342610003942 active site 342610003943 Protein of unknown function (DUF465); Region: DUF465; pfam04325 342610003944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610003945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610003946 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 342610003947 putative effector binding pocket; other site 342610003948 dimerization interface [polypeptide binding]; other site 342610003949 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 342610003950 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 342610003951 putative NAD(P) binding site [chemical binding]; other site 342610003952 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 342610003953 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 342610003954 G1 box; other site 342610003955 putative GEF interaction site [polypeptide binding]; other site 342610003956 GTP/Mg2+ binding site [chemical binding]; other site 342610003957 Switch I region; other site 342610003958 G2 box; other site 342610003959 G3 box; other site 342610003960 Switch II region; other site 342610003961 G4 box; other site 342610003962 G5 box; other site 342610003963 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 342610003964 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 342610003965 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 342610003966 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 342610003967 active site 342610003968 HIGH motif; other site 342610003969 KMSK motif region; other site 342610003970 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 342610003971 tRNA binding surface [nucleotide binding]; other site 342610003972 anticodon binding site; other site 342610003973 peptide chain release factor 2; Validated; Region: prfB; PRK00578 342610003974 This domain is found in peptide chain release factors; Region: PCRF; smart00937 342610003975 RF-1 domain; Region: RF-1; pfam00472 342610003976 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 342610003977 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 342610003978 dimer interface [polypeptide binding]; other site 342610003979 putative anticodon binding site; other site 342610003980 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 342610003981 motif 1; other site 342610003982 active site 342610003983 motif 2; other site 342610003984 motif 3; other site 342610003985 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 342610003986 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 342610003987 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 342610003988 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 342610003989 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610003990 active site 342610003991 Hpt domain; Region: Hpt; pfam01627 342610003992 putative binding surface; other site 342610003993 active site 342610003994 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 342610003995 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 342610003996 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 342610003997 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 342610003998 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 342610003999 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 342610004000 glutamate--cysteine ligase; Provisional; Region: PRK02107 342610004001 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 342610004002 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610004003 catalytic residue [active] 342610004004 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 342610004005 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 342610004006 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 342610004007 acyl-activating enzyme (AAE) consensus motif; other site 342610004008 putative AMP binding site [chemical binding]; other site 342610004009 putative active site [active] 342610004010 putative CoA binding site [chemical binding]; other site 342610004011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610004012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610004013 WHG domain; Region: WHG; pfam13305 342610004014 enoyl-CoA hydratase; Provisional; Region: PRK06142 342610004015 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 342610004016 substrate binding site [chemical binding]; other site 342610004017 oxyanion hole (OAH) forming residues; other site 342610004018 trimer interface [polypeptide binding]; other site 342610004019 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 342610004020 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 342610004021 active site 342610004022 FMN binding site [chemical binding]; other site 342610004023 2,4-decadienoyl-CoA binding site; other site 342610004024 catalytic residue [active] 342610004025 4Fe-4S cluster binding site [ion binding]; other site 342610004026 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 342610004027 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004028 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004029 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 342610004030 putative effector binding pocket; other site 342610004031 dimerization interface [polypeptide binding]; other site 342610004032 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 342610004033 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610004034 active site 342610004035 catalytic tetrad [active] 342610004036 Domain of unknown function (DUF336); Region: DUF336; cl01249 342610004037 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 342610004038 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610004039 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 342610004040 active site 342610004041 catalytic site [active] 342610004042 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 342610004043 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 342610004044 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610004045 Sensors of blue-light using FAD; Region: BLUF; pfam04940 342610004046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610004047 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610004048 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610004049 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 342610004050 non-specific DNA binding site [nucleotide binding]; other site 342610004051 salt bridge; other site 342610004052 sequence-specific DNA binding site [nucleotide binding]; other site 342610004053 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610004054 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 342610004055 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 342610004056 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 342610004057 SpoVR family protein; Provisional; Region: PRK11767 342610004058 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 342610004059 hypothetical protein; Provisional; Region: PRK05325 342610004060 PrkA family serine protein kinase; Provisional; Region: PRK15455 342610004061 AAA ATPase domain; Region: AAA_16; pfam13191 342610004062 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 342610004063 superoxide dismutase; Provisional; Region: PRK10543 342610004064 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 342610004065 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 342610004066 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 342610004067 putative GSH binding site [chemical binding]; other site 342610004068 catalytic residues [active] 342610004069 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 342610004070 peroxidase; Provisional; Region: PRK15000 342610004071 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 342610004072 dimer interface [polypeptide binding]; other site 342610004073 decamer (pentamer of dimers) interface [polypeptide binding]; other site 342610004074 catalytic triad [active] 342610004075 peroxidatic and resolving cysteines [active] 342610004076 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 342610004077 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 342610004078 dimer interface [polypeptide binding]; other site 342610004079 catalytic site [active] 342610004080 putative active site [active] 342610004081 putative substrate binding site [chemical binding]; other site 342610004082 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 342610004083 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610004084 ligand binding site [chemical binding]; other site 342610004085 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 342610004086 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 342610004087 active site 342610004088 catalytic site [active] 342610004089 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610004090 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 342610004091 dimer interface [polypeptide binding]; other site 342610004092 active site 342610004093 metal binding site [ion binding]; metal-binding site 342610004094 glutathione binding site [chemical binding]; other site 342610004095 multidrug efflux system protein; Provisional; Region: PRK11431 342610004096 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 342610004097 Cellulose-binding domain, chitinase and related proteins; Region: CBD_like; cd12204 342610004098 aromatic chitin/cellulose binding site residues [chemical binding]; other site 342610004099 ligand binding site [chemical binding]; other site 342610004100 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 342610004101 Prostaglandin dehydrogenases; Region: PGDH; cd05288 342610004102 NAD(P) binding site [chemical binding]; other site 342610004103 substrate binding site [chemical binding]; other site 342610004104 dimer interface [polypeptide binding]; other site 342610004105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610004106 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 342610004107 NAD(P) binding site [chemical binding]; other site 342610004108 active site 342610004109 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610004110 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 342610004111 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610004112 active site 342610004113 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610004114 Predicted transcriptional regulator [Transcription]; Region: COG2944 342610004115 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 342610004116 non-specific DNA binding site [nucleotide binding]; other site 342610004117 salt bridge; other site 342610004118 sequence-specific DNA binding site [nucleotide binding]; other site 342610004119 Transcriptional regulators [Transcription]; Region: GntR; COG1802 342610004120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610004121 DNA-binding site [nucleotide binding]; DNA binding site 342610004122 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 342610004123 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 342610004124 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 342610004125 tetramer interface [polypeptide binding]; other site 342610004126 active site 342610004127 Mg2+/Mn2+ binding site [ion binding]; other site 342610004128 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 342610004129 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 342610004130 dimer interface [polypeptide binding]; other site 342610004131 active site 342610004132 citrylCoA binding site [chemical binding]; other site 342610004133 oxalacetate/citrate binding site [chemical binding]; other site 342610004134 coenzyme A binding site [chemical binding]; other site 342610004135 catalytic triad [active] 342610004136 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 342610004137 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 342610004138 substrate binding site [chemical binding]; other site 342610004139 ligand binding site [chemical binding]; other site 342610004140 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 342610004141 substrate binding site [chemical binding]; other site 342610004142 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 342610004143 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 342610004144 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 342610004145 putative substrate translocation pore; other site 342610004146 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610004147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610004148 metal binding site [ion binding]; metal-binding site 342610004149 active site 342610004150 I-site; other site 342610004151 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 342610004152 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 342610004153 FMN binding site [chemical binding]; other site 342610004154 active site 342610004155 substrate binding site [chemical binding]; other site 342610004156 catalytic residue [active] 342610004157 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 342610004158 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 342610004159 putative NAD(P) binding site [chemical binding]; other site 342610004160 putative substrate binding site [chemical binding]; other site 342610004161 catalytic Zn binding site [ion binding]; other site 342610004162 structural Zn binding site [ion binding]; other site 342610004163 dimer interface [polypeptide binding]; other site 342610004164 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 342610004165 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 342610004166 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 342610004167 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 342610004168 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 342610004169 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 342610004170 classical (c) SDRs; Region: SDR_c; cd05233 342610004171 NAD(P) binding site [chemical binding]; other site 342610004172 active site 342610004173 Uncharacterized conserved protein [Function unknown]; Region: COG2966 342610004174 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 342610004175 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 342610004176 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 342610004177 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 342610004178 active site 342610004179 FMN binding site [chemical binding]; other site 342610004180 substrate binding site [chemical binding]; other site 342610004181 3Fe-4S cluster binding site [ion binding]; other site 342610004182 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 342610004183 active site 342610004184 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610004185 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004186 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004187 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 342610004188 putative effector binding pocket; other site 342610004189 putative dimerization interface [polypeptide binding]; other site 342610004190 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 342610004191 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 342610004192 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 342610004193 substrate binding site [chemical binding]; other site 342610004194 catalytic Zn binding site [ion binding]; other site 342610004195 NAD binding site [chemical binding]; other site 342610004196 structural Zn binding site [ion binding]; other site 342610004197 dimer interface [polypeptide binding]; other site 342610004198 S-formylglutathione hydrolase; Region: PLN02442 342610004199 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 342610004200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004202 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 342610004203 putative effector binding pocket; other site 342610004204 dimerization interface [polypeptide binding]; other site 342610004205 Cupin domain; Region: Cupin_2; cl17218 342610004206 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610004207 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 342610004208 N-terminal plug; other site 342610004209 ligand-binding site [chemical binding]; other site 342610004210 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 342610004211 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610004212 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 342610004213 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 342610004214 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 342610004215 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 342610004216 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 342610004217 putative ligand binding site [chemical binding]; other site 342610004218 NAD binding site [chemical binding]; other site 342610004219 dimerization interface [polypeptide binding]; other site 342610004220 catalytic site [active] 342610004221 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 342610004222 maleylacetoacetate isomerase; Region: maiA; TIGR01262 342610004223 C-terminal domain interface [polypeptide binding]; other site 342610004224 GSH binding site (G-site) [chemical binding]; other site 342610004225 putative dimer interface [polypeptide binding]; other site 342610004226 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 342610004227 dimer interface [polypeptide binding]; other site 342610004228 N-terminal domain interface [polypeptide binding]; other site 342610004229 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 342610004230 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 342610004231 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 342610004232 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 342610004233 heme-binding residues [chemical binding]; other site 342610004234 HEAT repeats; Region: HEAT_2; pfam13646 342610004235 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 342610004236 binding surface 342610004237 Tetratricopeptide repeat; Region: TPR_16; pfam13432 342610004238 TPR motif; other site 342610004239 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_17; cd08356 342610004240 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 342610004241 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 342610004242 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 342610004243 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 342610004244 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 342610004245 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 342610004246 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 342610004247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 342610004248 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610004249 Walker A/P-loop; other site 342610004250 ATP binding site [chemical binding]; other site 342610004251 Q-loop/lid; other site 342610004252 ABC transporter signature motif; other site 342610004253 Walker B; other site 342610004254 D-loop; other site 342610004255 H-loop/switch region; other site 342610004256 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 342610004257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610004258 Walker A/P-loop; other site 342610004259 ATP binding site [chemical binding]; other site 342610004260 Q-loop/lid; other site 342610004261 ABC transporter signature motif; other site 342610004262 Walker B; other site 342610004263 D-loop; other site 342610004264 H-loop/switch region; other site 342610004265 OsmC-like protein; Region: OsmC; pfam02566 342610004266 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 342610004267 active site 342610004268 HDOD domain; Region: HDOD; pfam08668 342610004269 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610004270 Zn2+ binding site [ion binding]; other site 342610004271 Mg2+ binding site [ion binding]; other site 342610004272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 342610004273 ACT domain; Region: ACT_3; pfam10000 342610004274 Family description; Region: ACT_7; pfam13840 342610004275 enoyl-CoA hydratase; Provisional; Region: PRK06688 342610004276 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 342610004277 substrate binding site [chemical binding]; other site 342610004278 oxyanion hole (OAH) forming residues; other site 342610004279 trimer interface [polypeptide binding]; other site 342610004280 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 342610004281 MarR family; Region: MarR; pfam01047 342610004282 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 342610004283 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 342610004284 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 342610004285 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 342610004286 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 342610004287 putative active site [active] 342610004288 catalytic site [active] 342610004289 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 342610004290 putative active site [active] 342610004291 catalytic site [active] 342610004292 hypothetical protein; Provisional; Region: PRK05421 342610004293 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 342610004294 Ligand Binding Site [chemical binding]; other site 342610004295 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 342610004296 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 342610004297 active site 342610004298 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 342610004299 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 342610004300 Family description; Region: VCBS; pfam13517 342610004301 Family description; Region: VCBS; pfam13517 342610004302 Family description; Region: VCBS; pfam13517 342610004303 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 342610004304 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 342610004305 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 342610004306 homotrimer interaction site [polypeptide binding]; other site 342610004307 putative active site [active] 342610004308 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 342610004309 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 342610004310 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610004311 catalytic residue [active] 342610004312 2-isopropylmalate synthase; Validated; Region: PRK03739 342610004313 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 342610004314 active site 342610004315 catalytic residues [active] 342610004316 metal binding site [ion binding]; metal-binding site 342610004317 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 342610004318 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610004319 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 342610004320 putative DNA binding site [nucleotide binding]; other site 342610004321 putative Zn2+ binding site [ion binding]; other site 342610004322 AsnC family; Region: AsnC_trans_reg; pfam01037 342610004323 putative alcohol dehydrogenase; Provisional; Region: PRK09860 342610004324 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 342610004325 dimer interface [polypeptide binding]; other site 342610004326 active site 342610004327 metal binding site [ion binding]; metal-binding site 342610004328 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 342610004329 aminotransferase; Validated; Region: PRK07337 342610004330 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 342610004331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610004332 homodimer interface [polypeptide binding]; other site 342610004333 catalytic residue [active] 342610004334 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 342610004335 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 342610004336 N-terminal plug; other site 342610004337 ligand-binding site [chemical binding]; other site 342610004338 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 342610004339 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 342610004340 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 342610004341 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 342610004342 intersubunit interface [polypeptide binding]; other site 342610004343 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 342610004344 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 342610004345 ABC-ATPase subunit interface; other site 342610004346 dimer interface [polypeptide binding]; other site 342610004347 putative PBP binding regions; other site 342610004348 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 342610004349 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 342610004350 Walker A/P-loop; other site 342610004351 ATP binding site [chemical binding]; other site 342610004352 Q-loop/lid; other site 342610004353 ABC transporter signature motif; other site 342610004354 Walker B; other site 342610004355 D-loop; other site 342610004356 H-loop/switch region; other site 342610004357 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 342610004358 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 342610004359 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 342610004360 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 342610004361 catalytic residues [active] 342610004362 Endoplasmic reticulum-based factor for assembly of V-ATPase; Region: Vma12; pfam11712 342610004363 Ion channel; Region: Ion_trans_2; pfam07885 342610004364 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 342610004365 CAAX protease self-immunity; Region: Abi; pfam02517 342610004366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004368 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 342610004369 putative effector binding pocket; other site 342610004370 dimerization interface [polypeptide binding]; other site 342610004371 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 342610004372 putative active site [active] 342610004373 REJ domain; Region: REJ; pfam02010 342610004374 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 342610004375 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 342610004376 TPR motif; other site 342610004377 binding surface 342610004378 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 342610004379 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 342610004380 TPR motif; other site 342610004381 binding surface 342610004382 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 342610004383 binding surface 342610004384 TPR motif; other site 342610004385 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 342610004386 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_4; cd07582 342610004387 Predicted amidohydrolase [General function prediction only]; Region: COG0388 342610004388 putative active site [active] 342610004389 catalytic triad [active] 342610004390 putative dimer interface [polypeptide binding]; other site 342610004391 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 342610004392 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 342610004393 NAD(P) binding site [chemical binding]; other site 342610004394 catalytic residues [active] 342610004395 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 342610004396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610004397 putative substrate translocation pore; other site 342610004398 YciI-like protein; Reviewed; Region: PRK12863 342610004399 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 342610004400 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610004401 DNA-binding site [nucleotide binding]; DNA binding site 342610004402 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 342610004403 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 342610004404 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 342610004405 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 342610004406 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 342610004407 acyl-activating enzyme (AAE) consensus motif; other site 342610004408 AMP binding site [chemical binding]; other site 342610004409 active site 342610004410 CoA binding site [chemical binding]; other site 342610004411 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 342610004412 Amidase; Region: Amidase; cl11426 342610004413 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 342610004414 SnoaL-like domain; Region: SnoaL_3; pfam13474 342610004415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004417 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 342610004418 dimerization interface [polypeptide binding]; other site 342610004419 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 342610004420 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 342610004421 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 342610004422 putative metal binding site [ion binding]; other site 342610004423 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_3; cd06237 342610004424 putative active site [active] 342610004425 Zn binding site [ion binding]; other site 342610004426 Secretin and TonB N terminus short domain; Region: STN; smart00965 342610004427 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 342610004428 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610004429 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 342610004430 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 342610004431 FecR protein; Region: FecR; pfam04773 342610004432 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610004433 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610004434 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 342610004435 DNA binding residues [nucleotide binding] 342610004436 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 342610004437 dimer interface [polypeptide binding]; other site 342610004438 ADP-ribose binding site [chemical binding]; other site 342610004439 active site 342610004440 nudix motif; other site 342610004441 metal binding site [ion binding]; metal-binding site 342610004442 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 342610004443 YHYH protein; Region: YHYH; pfam14240 342610004444 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 342610004445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004446 active site 342610004447 phosphorylation site [posttranslational modification] 342610004448 intermolecular recognition site; other site 342610004449 dimerization interface [polypeptide binding]; other site 342610004450 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 342610004451 DNA binding site [nucleotide binding] 342610004452 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 342610004453 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 342610004454 dimerization interface [polypeptide binding]; other site 342610004455 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 342610004456 dimer interface [polypeptide binding]; other site 342610004457 phosphorylation site [posttranslational modification] 342610004458 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 342610004459 ATP binding site [chemical binding]; other site 342610004460 Mg2+ binding site [ion binding]; other site 342610004461 G-X-G motif; other site 342610004462 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 342610004463 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 342610004464 Heme NO binding; Region: HNOB; pfam07700 342610004465 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 342610004466 dimer interface [polypeptide binding]; other site 342610004467 phosphorylation site [posttranslational modification] 342610004468 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 342610004469 ATP binding site [chemical binding]; other site 342610004470 Mg2+ binding site [ion binding]; other site 342610004471 G-X-G motif; other site 342610004472 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 342610004473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004474 active site 342610004475 phosphorylation site [posttranslational modification] 342610004476 intermolecular recognition site; other site 342610004477 dimerization interface [polypeptide binding]; other site 342610004478 HD domain; Region: HD_5; pfam13487 342610004479 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 342610004480 dimerization interface [polypeptide binding]; other site 342610004481 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 342610004482 dimer interface [polypeptide binding]; other site 342610004483 phosphorylation site [posttranslational modification] 342610004484 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 342610004485 ATP binding site [chemical binding]; other site 342610004486 Mg2+ binding site [ion binding]; other site 342610004487 G-X-G motif; other site 342610004488 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 342610004489 Helix-turn-helix domain; Region: HTH_17; pfam12728 342610004490 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610004491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004492 active site 342610004493 phosphorylation site [posttranslational modification] 342610004494 intermolecular recognition site; other site 342610004495 dimerization interface [polypeptide binding]; other site 342610004496 Response regulator receiver domain; Region: Response_reg; pfam00072 342610004497 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004498 active site 342610004499 phosphorylation site [posttranslational modification] 342610004500 intermolecular recognition site; other site 342610004501 dimerization interface [polypeptide binding]; other site 342610004502 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 342610004503 hypothetical protein; Provisional; Region: PRK04946 342610004504 Smr domain; Region: Smr; pfam01713 342610004505 HemK family putative methylases; Region: hemK_fam; TIGR00536 342610004506 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 342610004507 S-adenosylmethionine binding site [chemical binding]; other site 342610004508 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 342610004509 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 342610004510 Tetramer interface [polypeptide binding]; other site 342610004511 active site 342610004512 FMN-binding site [chemical binding]; other site 342610004513 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 342610004514 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610004515 putative substrate translocation pore; other site 342610004516 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 342610004517 DNA-binding site [nucleotide binding]; DNA binding site 342610004518 RNA-binding motif; other site 342610004519 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 342610004520 active site 342610004521 homodimer interface [polypeptide binding]; other site 342610004522 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 342610004523 Zn binding site [ion binding]; other site 342610004524 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 342610004525 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 342610004526 Uncharacterized conserved protein [Function unknown]; Region: COG3542 342610004527 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 342610004528 active site 342610004529 lipoyl synthase; Provisional; Region: PRK05481 342610004530 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 342610004531 FeS/SAM binding site; other site 342610004532 lipoate-protein ligase B; Provisional; Region: PRK14342 342610004533 hypothetical protein; Provisional; Region: PRK04998 342610004534 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 342610004535 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 342610004536 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 342610004537 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 342610004538 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 342610004539 Sporulation related domain; Region: SPOR; pfam05036 342610004540 Transglycosylase SLT domain; Region: SLT_2; pfam13406 342610004541 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 342610004542 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610004543 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 342610004544 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 342610004545 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 342610004546 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 342610004547 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 342610004548 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 342610004549 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 342610004550 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 342610004551 active site 342610004552 (T/H)XGH motif; other site 342610004553 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 342610004554 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 342610004555 Lipopolysaccharide-assembly; Region: LptE; cl01125 342610004556 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 342610004557 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 342610004558 HIGH motif; other site 342610004559 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 342610004560 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610004561 active site 342610004562 KMSKS motif; other site 342610004563 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 342610004564 tRNA binding surface [nucleotide binding]; other site 342610004565 AAA domain; Region: AAA_32; pfam13654 342610004566 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 342610004567 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 342610004568 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 342610004569 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 342610004570 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 342610004571 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 342610004572 S-adenosylmethionine binding site [chemical binding]; other site 342610004573 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 342610004574 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 342610004575 Walker A motif; other site 342610004576 ATP binding site [chemical binding]; other site 342610004577 Walker B motif; other site 342610004578 arginine finger; other site 342610004579 Peptidase family M41; Region: Peptidase_M41; pfam01434 342610004580 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 342610004581 dihydropteroate synthase; Region: DHPS; TIGR01496 342610004582 substrate binding pocket [chemical binding]; other site 342610004583 dimer interface [polypeptide binding]; other site 342610004584 inhibitor binding site; inhibition site 342610004585 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 342610004586 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 342610004587 active site 342610004588 substrate binding site [chemical binding]; other site 342610004589 metal binding site [ion binding]; metal-binding site 342610004590 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 342610004591 triosephosphate isomerase; Provisional; Region: PRK14567 342610004592 substrate binding site [chemical binding]; other site 342610004593 dimer interface [polypeptide binding]; other site 342610004594 catalytic triad [active] 342610004595 Preprotein translocase SecG subunit; Region: SecG; pfam03840 342610004596 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 342610004597 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 342610004598 Walker A/P-loop; other site 342610004599 ATP binding site [chemical binding]; other site 342610004600 Q-loop/lid; other site 342610004601 ABC transporter signature motif; other site 342610004602 Walker B; other site 342610004603 D-loop; other site 342610004604 H-loop/switch region; other site 342610004605 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 342610004606 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 342610004607 RimM N-terminal domain; Region: RimM; pfam01782 342610004608 PRC-barrel domain; Region: PRC; pfam05239 342610004609 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 342610004610 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 342610004611 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 342610004612 active site 342610004613 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 342610004614 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 342610004615 DNA binding residues [nucleotide binding] 342610004616 dimer interface [polypeptide binding]; other site 342610004617 [2Fe-2S] cluster binding site [ion binding]; other site 342610004618 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 342610004619 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 342610004620 maltose O-acetyltransferase; Provisional; Region: PRK10092 342610004621 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 342610004622 active site 342610004623 substrate binding site [chemical binding]; other site 342610004624 trimer interface [polypeptide binding]; other site 342610004625 CoA binding site [chemical binding]; other site 342610004626 DNA-J related protein; Region: DNAJ_related; pfam12339 342610004627 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 342610004628 HSP70 interaction site [polypeptide binding]; other site 342610004629 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 342610004630 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 342610004631 active site 342610004632 Zn binding site [ion binding]; other site 342610004633 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 342610004634 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 342610004635 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 342610004636 Chorismate mutase type II; Region: CM_2; cl00693 342610004637 prephenate dehydrogenase; Validated; Region: PRK08507 342610004638 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 342610004639 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 342610004640 Chorismate mutase type II; Region: CM_2; smart00830 342610004641 Prephenate dehydratase; Region: PDT; pfam00800 342610004642 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 342610004643 putative L-Phe binding site [chemical binding]; other site 342610004644 Response regulator receiver domain; Region: Response_reg; pfam00072 342610004645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004646 active site 342610004647 phosphorylation site [posttranslational modification] 342610004648 intermolecular recognition site; other site 342610004649 dimerization interface [polypeptide binding]; other site 342610004650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004651 active site 342610004652 phosphorylation site [posttranslational modification] 342610004653 intermolecular recognition site; other site 342610004654 dimerization interface [polypeptide binding]; other site 342610004655 translation initiation factor Sui1; Validated; Region: PRK06824 342610004656 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 342610004657 putative rRNA binding site [nucleotide binding]; other site 342610004658 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 342610004659 anti sigma factor interaction site; other site 342610004660 regulatory phosphorylation site [posttranslational modification]; other site 342610004661 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610004662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004663 active site 342610004664 phosphorylation site [posttranslational modification] 342610004665 intermolecular recognition site; other site 342610004666 dimerization interface [polypeptide binding]; other site 342610004667 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 342610004668 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 342610004669 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; cl00075 342610004670 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610004671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610004672 Coenzyme A binding pocket [chemical binding]; other site 342610004673 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 342610004674 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 342610004675 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 342610004676 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 342610004677 dimer interface [polypeptide binding]; other site 342610004678 conserved gate region; other site 342610004679 putative PBP binding loops; other site 342610004680 ABC-ATPase subunit interface; other site 342610004681 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 342610004682 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 342610004683 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 342610004684 Walker A/P-loop; other site 342610004685 ATP binding site [chemical binding]; other site 342610004686 Q-loop/lid; other site 342610004687 ABC transporter signature motif; other site 342610004688 Walker B; other site 342610004689 D-loop; other site 342610004690 H-loop/switch region; other site 342610004691 TOBE domain; Region: TOBE_2; pfam08402 342610004692 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 342610004693 putative metal binding site [ion binding]; other site 342610004694 Ca2+ binding site [ion binding]; other site 342610004695 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 342610004696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610004697 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 342610004698 ATP binding site [chemical binding]; other site 342610004699 Mg2+ binding site [ion binding]; other site 342610004700 G-X-G motif; other site 342610004701 response regulator GlrR; Provisional; Region: PRK15115 342610004702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610004703 active site 342610004704 phosphorylation site [posttranslational modification] 342610004705 intermolecular recognition site; other site 342610004706 dimerization interface [polypeptide binding]; other site 342610004707 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 342610004708 Walker A motif; other site 342610004709 ATP binding site [chemical binding]; other site 342610004710 Walker B motif; other site 342610004711 arginine finger; other site 342610004712 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 342610004713 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 342610004714 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 342610004715 dimerization interface 3.5A [polypeptide binding]; other site 342610004716 active site 342610004717 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 342610004718 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 342610004719 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 342610004720 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610004721 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610004722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 342610004723 Sporulation related domain; Region: SPOR; pfam05036 342610004724 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 342610004725 Colicin V production protein; Region: Colicin_V; cl00567 342610004726 amidophosphoribosyltransferase; Provisional; Region: PRK09246 342610004727 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 342610004728 active site 342610004729 tetramer interface [polypeptide binding]; other site 342610004730 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610004731 active site 342610004732 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 342610004733 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610004734 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610004735 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610004736 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 342610004737 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 342610004738 Walker A/P-loop; other site 342610004739 ATP binding site [chemical binding]; other site 342610004740 Q-loop/lid; other site 342610004741 ABC transporter signature motif; other site 342610004742 Walker B; other site 342610004743 D-loop; other site 342610004744 H-loop/switch region; other site 342610004745 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 342610004746 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 342610004747 Walker A/P-loop; other site 342610004748 ATP binding site [chemical binding]; other site 342610004749 Q-loop/lid; other site 342610004750 ABC transporter signature motif; other site 342610004751 Walker B; other site 342610004752 D-loop; other site 342610004753 H-loop/switch region; other site 342610004754 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 342610004755 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 342610004756 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 342610004757 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 342610004758 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 342610004759 active site 342610004760 dinuclear metal binding site [ion binding]; other site 342610004761 dimerization interface [polypeptide binding]; other site 342610004762 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 342610004763 active site 342610004764 motif I; other site 342610004765 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 342610004766 motif II; other site 342610004767 DoxX; Region: DoxX; pfam07681 342610004768 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 342610004769 putative FMN binding site [chemical binding]; other site 342610004770 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 342610004771 DEAD-like helicases superfamily; Region: DEXDc; smart00487 342610004772 ATP binding site [chemical binding]; other site 342610004773 Mg++ binding site [ion binding]; other site 342610004774 motif III; other site 342610004775 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 342610004776 nucleotide binding region [chemical binding]; other site 342610004777 ATP-binding site [chemical binding]; other site 342610004778 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 342610004779 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 342610004780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004782 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 342610004783 putative dimerization interface [polypeptide binding]; other site 342610004784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610004785 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 342610004786 ATP binding site [chemical binding]; other site 342610004787 Mg2+ binding site [ion binding]; other site 342610004788 G-X-G motif; other site 342610004789 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 342610004790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004791 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 342610004792 substrate binding site [chemical binding]; other site 342610004793 dimerization interface [polypeptide binding]; other site 342610004794 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 342610004795 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 342610004796 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 342610004797 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 342610004798 putative active site [active] 342610004799 putative CoA binding site [chemical binding]; other site 342610004800 nudix motif; other site 342610004801 metal binding site [ion binding]; metal-binding site 342610004802 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 342610004803 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 342610004804 chorismate binding enzyme; Region: Chorismate_bind; cl10555 342610004805 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 342610004806 Fumarase C-terminus; Region: Fumerase_C; pfam05683 342610004807 RmuC family; Region: RmuC; pfam02646 342610004808 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 342610004809 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610004810 active site 342610004811 Pectinacetylesterase; Region: PAE; pfam03283 342610004812 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 342610004813 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 342610004814 RNase E interface [polypeptide binding]; other site 342610004815 trimer interface [polypeptide binding]; other site 342610004816 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 342610004817 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 342610004818 RNase E interface [polypeptide binding]; other site 342610004819 trimer interface [polypeptide binding]; other site 342610004820 active site 342610004821 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 342610004822 putative nucleic acid binding region [nucleotide binding]; other site 342610004823 G-X-X-G motif; other site 342610004824 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 342610004825 RNA binding site [nucleotide binding]; other site 342610004826 domain interface; other site 342610004827 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 342610004828 active site 342610004829 phosphate binding residues; other site 342610004830 catalytic residues [active] 342610004831 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 342610004832 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 342610004833 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 342610004834 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 342610004835 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 342610004836 glycogen branching enzyme; Provisional; Region: PRK05402 342610004837 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 342610004838 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 342610004839 active site 342610004840 catalytic site [active] 342610004841 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 342610004842 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 342610004843 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 342610004844 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 342610004845 active site 342610004846 catalytic site [active] 342610004847 methionine sulfoxide reductase B; Provisional; Region: PRK00222 342610004848 SelR domain; Region: SelR; pfam01641 342610004849 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 342610004850 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 342610004851 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 342610004852 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 342610004853 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 342610004854 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 342610004855 active site 342610004856 Zn binding site [ion binding]; other site 342610004857 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 342610004858 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 342610004859 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 342610004860 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 342610004861 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 342610004862 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 342610004863 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 342610004864 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 342610004865 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 342610004866 RNA binding surface [nucleotide binding]; other site 342610004867 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 342610004868 probable active site [active] 342610004869 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 342610004870 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 342610004871 TrkA-C domain; Region: TrkA_C; pfam02080 342610004872 TrkA-C domain; Region: TrkA_C; pfam02080 342610004873 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 342610004874 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 342610004875 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 342610004876 CysD dimerization site [polypeptide binding]; other site 342610004877 G1 box; other site 342610004878 putative GEF interaction site [polypeptide binding]; other site 342610004879 GTP/Mg2+ binding site [chemical binding]; other site 342610004880 Switch I region; other site 342610004881 G2 box; other site 342610004882 G3 box; other site 342610004883 Switch II region; other site 342610004884 G4 box; other site 342610004885 G5 box; other site 342610004886 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 342610004887 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 342610004888 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 342610004889 active site 342610004890 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 342610004891 ligand-binding site [chemical binding]; other site 342610004892 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 342610004893 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 342610004894 Active Sites [active] 342610004895 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 342610004896 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 342610004897 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 342610004898 Na binding site [ion binding]; other site 342610004899 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 342610004900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610004901 Coenzyme A binding pocket [chemical binding]; other site 342610004902 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 342610004903 RNA polymerase sigma factor; Provisional; Region: PRK12517 342610004904 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610004905 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 342610004906 DNA binding residues [nucleotide binding] 342610004907 Oxygen tolerance; Region: BatD; pfam13584 342610004908 von Willebrand factor type A domain; Region: VWA_2; pfam13519 342610004909 metal ion-dependent adhesion site (MIDAS); other site 342610004910 Tetratricopeptide repeat; Region: TPR_16; pfam13432 342610004911 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 342610004912 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 342610004913 metal ion-dependent adhesion site (MIDAS); other site 342610004914 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 342610004915 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 342610004916 Protein of unknown function DUF58; Region: DUF58; pfam01882 342610004917 MoxR-like ATPases [General function prediction only]; Region: COG0714 342610004918 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 342610004919 Walker A motif; other site 342610004920 ATP binding site [chemical binding]; other site 342610004921 Walker B motif; other site 342610004922 arginine finger; other site 342610004923 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 342610004924 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 342610004925 dimer interface [polypeptide binding]; other site 342610004926 active site 342610004927 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 342610004928 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 342610004929 substrate binding site [chemical binding]; other site 342610004930 oxyanion hole (OAH) forming residues; other site 342610004931 trimer interface [polypeptide binding]; other site 342610004932 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 342610004933 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610004934 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 342610004935 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 342610004936 PAS fold; Region: PAS_3; pfam08447 342610004937 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 342610004938 PAS domain; Region: PAS_9; pfam13426 342610004939 putative active site [active] 342610004940 heme pocket [chemical binding]; other site 342610004941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610004942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610004943 metal binding site [ion binding]; metal-binding site 342610004944 active site 342610004945 I-site; other site 342610004946 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 342610004947 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 342610004948 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 342610004949 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 342610004950 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 342610004951 catalytic core [active] 342610004952 hypothetical protein; Provisional; Region: PRK11573 342610004953 Domain of unknown function DUF21; Region: DUF21; pfam01595 342610004954 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 342610004955 Transporter associated domain; Region: CorC_HlyC; smart01091 342610004956 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 342610004957 signal recognition particle protein; Provisional; Region: PRK10867 342610004958 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 342610004959 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 342610004960 P loop; other site 342610004961 GTP binding site [chemical binding]; other site 342610004962 Signal peptide binding domain; Region: SRP_SPB; pfam02978 342610004963 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 342610004964 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 342610004965 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 342610004966 phosphate binding site [ion binding]; other site 342610004967 putative substrate binding pocket [chemical binding]; other site 342610004968 dimer interface [polypeptide binding]; other site 342610004969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610004970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004971 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 342610004972 putative effector binding pocket; other site 342610004973 dimerization interface [polypeptide binding]; other site 342610004974 Prostaglandin dehydrogenases; Region: PGDH; cd05288 342610004975 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 342610004976 NAD(P) binding site [chemical binding]; other site 342610004977 substrate binding site [chemical binding]; other site 342610004978 dimer interface [polypeptide binding]; other site 342610004979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610004980 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 342610004981 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 342610004982 dimerization interface [polypeptide binding]; other site 342610004983 Pirin-related protein [General function prediction only]; Region: COG1741 342610004984 Pirin; Region: Pirin; pfam02678 342610004985 Predicted membrane protein [Function unknown]; Region: COG2259 342610004986 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 342610004987 Peptidase family M28; Region: Peptidase_M28; pfam04389 342610004988 putative metal binding site [ion binding]; other site 342610004989 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 342610004990 Interdomain contacts; other site 342610004991 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 342610004992 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 342610004993 PAS fold; Region: PAS_3; pfam08447 342610004994 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610004995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610004996 metal binding site [ion binding]; metal-binding site 342610004997 active site 342610004998 I-site; other site 342610004999 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 342610005000 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610005001 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610005002 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005003 metal binding site [ion binding]; metal-binding site 342610005004 active site 342610005005 I-site; other site 342610005006 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 342610005007 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 342610005008 aldolase II superfamily protein; Provisional; Region: PRK07044 342610005009 active site 342610005010 intersubunit interface [polypeptide binding]; other site 342610005011 Zn2+ binding site [ion binding]; other site 342610005012 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 342610005013 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 342610005014 active site pocket [active] 342610005015 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 342610005016 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 342610005017 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610005018 catalytic residue [active] 342610005019 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 342610005020 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610005021 active site 342610005022 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 342610005023 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 342610005024 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610005025 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 342610005026 active site 2 [active] 342610005027 active site 1 [active] 342610005028 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 342610005029 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005030 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 342610005031 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 342610005032 aromatic arch; other site 342610005033 DCoH dimer interaction site [polypeptide binding]; other site 342610005034 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 342610005035 DCoH tetramer interaction site [polypeptide binding]; other site 342610005036 substrate binding site [chemical binding]; other site 342610005037 ribosome maturation protein RimP; Reviewed; Region: PRK00092 342610005038 Sm and related proteins; Region: Sm_like; cl00259 342610005039 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 342610005040 putative oligomer interface [polypeptide binding]; other site 342610005041 putative RNA binding site [nucleotide binding]; other site 342610005042 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 342610005043 NusA N-terminal domain; Region: NusA_N; pfam08529 342610005044 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 342610005045 RNA binding site [nucleotide binding]; other site 342610005046 homodimer interface [polypeptide binding]; other site 342610005047 NusA-like KH domain; Region: KH_5; pfam13184 342610005048 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 342610005049 G-X-X-G motif; other site 342610005050 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 342610005051 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 342610005052 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 342610005053 translation initiation factor IF-2; Region: IF-2; TIGR00487 342610005054 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 342610005055 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 342610005056 G1 box; other site 342610005057 putative GEF interaction site [polypeptide binding]; other site 342610005058 GTP/Mg2+ binding site [chemical binding]; other site 342610005059 Switch I region; other site 342610005060 G2 box; other site 342610005061 G3 box; other site 342610005062 Switch II region; other site 342610005063 G4 box; other site 342610005064 G5 box; other site 342610005065 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 342610005066 Translation-initiation factor 2; Region: IF-2; pfam11987 342610005067 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 342610005068 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 342610005069 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 342610005070 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 342610005071 RNA binding site [nucleotide binding]; other site 342610005072 active site 342610005073 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 342610005074 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 342610005075 16S/18S rRNA binding site [nucleotide binding]; other site 342610005076 S13e-L30e interaction site [polypeptide binding]; other site 342610005077 25S rRNA binding site [nucleotide binding]; other site 342610005078 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 342610005079 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 342610005080 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 342610005081 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610005082 Walker A/P-loop; other site 342610005083 ATP binding site [chemical binding]; other site 342610005084 Q-loop/lid; other site 342610005085 ABC transporter signature motif; other site 342610005086 Walker B; other site 342610005087 D-loop; other site 342610005088 H-loop/switch region; other site 342610005089 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610005090 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005091 metal binding site [ion binding]; metal-binding site 342610005092 active site 342610005093 I-site; other site 342610005094 Protein of unknown function (DUF330); Region: DUF330; pfam03886 342610005095 paraquat-inducible protein B; Provisional; Region: PRK10807 342610005096 mce related protein; Region: MCE; pfam02470 342610005097 mce related protein; Region: MCE; pfam02470 342610005098 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 342610005099 Paraquat-inducible protein A; Region: PqiA; pfam04403 342610005100 Paraquat-inducible protein A; Region: PqiA; pfam04403 342610005101 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 342610005102 Low molecular weight phosphatase family; Region: LMWPc; cd00115 342610005103 active site 342610005104 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 342610005105 FeoA domain; Region: FeoA; pfam04023 342610005106 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 342610005107 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 342610005108 G1 box; other site 342610005109 GTP/Mg2+ binding site [chemical binding]; other site 342610005110 G2 box; other site 342610005111 Switch I region; other site 342610005112 G3 box; other site 342610005113 Switch II region; other site 342610005114 G4 box; other site 342610005115 G5 box; other site 342610005116 Nucleoside recognition; Region: Gate; pfam07670 342610005117 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 342610005118 Nucleoside recognition; Region: Gate; pfam07670 342610005119 Uncharacterized conserved protein [Function unknown]; Region: COG1432 342610005120 LabA_like proteins; Region: LabA_like/DUF88; cl10034 342610005121 putative metal binding site [ion binding]; other site 342610005122 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 342610005123 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610005124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610005125 Walker A/P-loop; other site 342610005126 ATP binding site [chemical binding]; other site 342610005127 Q-loop/lid; other site 342610005128 ABC transporter signature motif; other site 342610005129 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610005130 Walker B; other site 342610005131 D-loop; other site 342610005132 ABC transporter; Region: ABC_tran_2; pfam12848 342610005133 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610005134 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 342610005135 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 342610005136 recombination and repair protein; Provisional; Region: PRK10869 342610005137 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 342610005138 Walker A/P-loop; other site 342610005139 ATP binding site [chemical binding]; other site 342610005140 Q-loop/lid; other site 342610005141 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 342610005142 ABC transporter signature motif; other site 342610005143 Walker B; other site 342610005144 D-loop; other site 342610005145 H-loop/switch region; other site 342610005146 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 342610005147 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 342610005148 beta-hexosaminidase; Provisional; Region: PRK05337 342610005149 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 342610005150 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 342610005151 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 342610005152 transmembrane helices; other site 342610005153 Domain of unknown function (DUF1805); Region: DUF1805; pfam08827 342610005154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610005155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610005156 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 342610005157 dimerization interface [polypeptide binding]; other site 342610005158 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 342610005159 Cytochrome c; Region: Cytochrom_C; cl11414 342610005160 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 342610005161 Cytochrome c; Region: Cytochrom_C; cl11414 342610005162 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_3; cd06151 342610005163 homotrimer interaction site [polypeptide binding]; other site 342610005164 putative active site [active] 342610005165 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005166 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 342610005167 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 342610005168 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 342610005169 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 342610005170 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 342610005171 transcription-repair coupling factor; Provisional; Region: PRK10689 342610005172 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 342610005173 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 342610005174 ATP binding site [chemical binding]; other site 342610005175 putative Mg++ binding site [ion binding]; other site 342610005176 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 342610005177 nucleotide binding region [chemical binding]; other site 342610005178 ATP-binding site [chemical binding]; other site 342610005179 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 342610005180 PilZ domain; Region: PilZ; pfam07238 342610005181 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 342610005182 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610005183 FtsX-like permease family; Region: FtsX; pfam02687 342610005184 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 342610005185 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610005186 active site 342610005187 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 342610005188 Protein of unknown function (DUF419); Region: DUF419; pfam04237 342610005189 CsbD-like; Region: CsbD; cl17424 342610005190 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 342610005191 putative active site [active] 342610005192 putative NTP binding site [chemical binding]; other site 342610005193 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 342610005194 putative nucleic acid binding site [nucleotide binding]; other site 342610005195 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 342610005196 SmpB-tmRNA interface; other site 342610005197 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 342610005198 putative coenzyme Q binding site [chemical binding]; other site 342610005199 hypothetical protein; Validated; Region: PRK01777 342610005200 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 342610005201 PEP synthetase regulatory protein; Provisional; Region: PRK05339 342610005202 phosphoenolpyruvate synthase; Validated; Region: PRK06464 342610005203 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 342610005204 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 342610005205 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 342610005206 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610005207 FAD binding domain; Region: FAD_binding_4; pfam01565 342610005208 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 342610005209 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 342610005210 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 342610005211 Beta-Casp domain; Region: Beta-Casp; smart01027 342610005212 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 342610005213 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 342610005214 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 342610005215 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 342610005216 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610005217 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 342610005218 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 342610005219 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 342610005220 putative active site [active] 342610005221 Zn binding site [ion binding]; other site 342610005222 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 342610005223 PAS domain; Region: PAS; smart00091 342610005224 PAS fold; Region: PAS_4; pfam08448 342610005225 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610005226 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 342610005227 dimer interface [polypeptide binding]; other site 342610005228 phosphorylation site [posttranslational modification] 342610005229 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 342610005230 ATP binding site [chemical binding]; other site 342610005231 Mg2+ binding site [ion binding]; other site 342610005232 G-X-G motif; other site 342610005233 Response regulator receiver domain; Region: Response_reg; pfam00072 342610005234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610005235 active site 342610005236 phosphorylation site [posttranslational modification] 342610005237 intermolecular recognition site; other site 342610005238 dimerization interface [polypeptide binding]; other site 342610005239 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 342610005240 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 342610005241 putative NAD(P) binding site [chemical binding]; other site 342610005242 dimer interface [polypeptide binding]; other site 342610005243 Major royal jelly protein; Region: MRJP; pfam03022 342610005244 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 342610005245 putative catalytic residues [active] 342610005246 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 342610005247 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 342610005248 Part of AAA domain; Region: AAA_19; pfam13245 342610005249 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 342610005250 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 342610005251 AAA domain; Region: AAA_30; pfam13604 342610005252 Family description; Region: UvrD_C_2; pfam13538 342610005253 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 342610005254 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 342610005255 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 342610005256 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610005257 catalytic residue [active] 342610005258 Fe-S metabolism associated domain; Region: SufE; cl00951 342610005259 Isochorismatase family; Region: Isochorismatase; pfam00857 342610005260 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 342610005261 catalytic triad [active] 342610005262 dimer interface [polypeptide binding]; other site 342610005263 conserved cis-peptide bond; other site 342610005264 Purine nucleoside permease (NUP); Region: NUP; pfam06516 342610005265 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 342610005266 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 342610005267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610005268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005269 metal binding site [ion binding]; metal-binding site 342610005270 active site 342610005271 I-site; other site 342610005272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610005273 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 342610005274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005275 metal binding site [ion binding]; metal-binding site 342610005276 active site 342610005277 I-site; other site 342610005278 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 342610005279 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 342610005280 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 342610005281 putative sulfate transport protein CysZ; Validated; Region: PRK04949 342610005282 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 342610005283 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 342610005284 Walker A/P-loop; other site 342610005285 ATP binding site [chemical binding]; other site 342610005286 Q-loop/lid; other site 342610005287 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 342610005288 ABC transporter signature motif; other site 342610005289 Walker B; other site 342610005290 D-loop; other site 342610005291 H-loop/switch region; other site 342610005292 cell division protein ZipA; Provisional; Region: PRK03427 342610005293 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 342610005294 FtsZ protein binding site [polypeptide binding]; other site 342610005295 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 342610005296 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 342610005297 nucleotide binding pocket [chemical binding]; other site 342610005298 K-X-D-G motif; other site 342610005299 catalytic site [active] 342610005300 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 342610005301 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 342610005302 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 342610005303 Dimer interface [polypeptide binding]; other site 342610005304 BRCT sequence motif; other site 342610005305 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 342610005306 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 342610005307 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 342610005308 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 342610005309 Competence protein; Region: Competence; pfam03772 342610005310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 342610005311 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 342610005312 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 342610005313 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 342610005314 Walker A/P-loop; other site 342610005315 ATP binding site [chemical binding]; other site 342610005316 Q-loop/lid; other site 342610005317 ABC transporter signature motif; other site 342610005318 Walker B; other site 342610005319 D-loop; other site 342610005320 H-loop/switch region; other site 342610005321 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 342610005322 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 342610005323 Uncharacterized conserved protein [Function unknown]; Region: COG2835 342610005324 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 342610005325 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 342610005326 Ligand binding site; other site 342610005327 oligomer interface; other site 342610005328 D-cysteine desulfhydrase; Validated; Region: PRK03910 342610005329 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 342610005330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610005331 catalytic residue [active] 342610005332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610005333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005334 metal binding site [ion binding]; metal-binding site 342610005335 active site 342610005336 I-site; other site 342610005337 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610005338 Coenzyme A binding pocket [chemical binding]; other site 342610005339 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 342610005340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610005341 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610005342 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 342610005343 dimerization interface [polypeptide binding]; other site 342610005344 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 342610005345 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 342610005346 putative ATP binding site [chemical binding]; other site 342610005347 putative substrate interface [chemical binding]; other site 342610005348 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 342610005349 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 342610005350 Substrate binding site; other site 342610005351 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 342610005352 phosphomannomutase CpsG; Provisional; Region: PRK15414 342610005353 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 342610005354 active site 342610005355 substrate binding site [chemical binding]; other site 342610005356 metal binding site [ion binding]; metal-binding site 342610005357 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 342610005358 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 342610005359 dimer interface [polypeptide binding]; other site 342610005360 active site 342610005361 citrylCoA binding site [chemical binding]; other site 342610005362 NADH binding [chemical binding]; other site 342610005363 cationic pore residues; other site 342610005364 oxalacetate/citrate binding site [chemical binding]; other site 342610005365 coenzyme A binding site [chemical binding]; other site 342610005366 catalytic triad [active] 342610005367 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 342610005368 Iron-sulfur protein interface; other site 342610005369 proximal quinone binding site [chemical binding]; other site 342610005370 SdhD (CybS) interface [polypeptide binding]; other site 342610005371 proximal heme binding site [chemical binding]; other site 342610005372 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 342610005373 SdhC subunit interface [polypeptide binding]; other site 342610005374 proximal heme binding site [chemical binding]; other site 342610005375 cardiolipin binding site; other site 342610005376 Iron-sulfur protein interface; other site 342610005377 proximal quinone binding site [chemical binding]; other site 342610005378 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 342610005379 L-aspartate oxidase; Provisional; Region: PRK06175 342610005380 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 342610005381 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 342610005382 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 342610005383 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 342610005384 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 342610005385 TPP-binding site [chemical binding]; other site 342610005386 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 342610005387 PYR/PP interface [polypeptide binding]; other site 342610005388 dimer interface [polypeptide binding]; other site 342610005389 TPP binding site [chemical binding]; other site 342610005390 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 342610005391 E3 interaction surface; other site 342610005392 lipoyl attachment site [posttranslational modification]; other site 342610005393 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 342610005394 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 342610005395 E3 interaction surface; other site 342610005396 lipoyl attachment site [posttranslational modification]; other site 342610005397 e3 binding domain; Region: E3_binding; pfam02817 342610005398 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 342610005399 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 342610005400 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 342610005401 CoA-ligase; Region: Ligase_CoA; pfam00549 342610005402 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 342610005403 CoA binding domain; Region: CoA_binding; pfam02629 342610005404 CoA-ligase; Region: Ligase_CoA; pfam00549 342610005405 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610005406 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610005407 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610005408 FAD binding domain; Region: FAD_binding_4; pfam01565 342610005409 Berberine and berberine like; Region: BBE; pfam08031 342610005410 Predicted transcriptional regulators [Transcription]; Region: COG1733 342610005411 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 342610005412 dimerization interface [polypeptide binding]; other site 342610005413 putative DNA binding site [nucleotide binding]; other site 342610005414 putative Zn2+ binding site [ion binding]; other site 342610005415 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 342610005416 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610005417 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 342610005418 substrate binding pocket [chemical binding]; other site 342610005419 membrane-bound complex binding site; other site 342610005420 hinge residues; other site 342610005421 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 342610005422 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 342610005423 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 342610005424 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 342610005425 active site pocket [active] 342610005426 oxyanion hole [active] 342610005427 catalytic triad [active] 342610005428 active site nucleophile [active] 342610005429 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005430 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 342610005431 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 342610005432 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 342610005433 catalytic core [active] 342610005434 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610005435 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610005436 active site 342610005437 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 342610005438 Phosphotransferase enzyme family; Region: APH; pfam01636 342610005439 putative active site [active] 342610005440 putative substrate binding site [chemical binding]; other site 342610005441 ATP binding site [chemical binding]; other site 342610005442 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 342610005443 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 342610005444 NAD(P) binding site [chemical binding]; other site 342610005445 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610005446 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 342610005447 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 342610005448 TPR motif; other site 342610005449 binding surface 342610005450 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 342610005451 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 342610005452 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610005453 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610005454 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610005455 Flagellin N-methylase; Region: FliB; pfam03692 342610005456 YHYH protein; Region: YHYH; pfam14240 342610005457 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005458 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 342610005459 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 342610005460 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610005461 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610005462 DNA binding site [nucleotide binding] 342610005463 domain linker motif; other site 342610005464 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 342610005465 putative dimerization interface [polypeptide binding]; other site 342610005466 putative ligand binding site [chemical binding]; other site 342610005467 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 342610005468 putative substrate translocation pore; other site 342610005469 Trehalase; Region: Trehalase; cl17346 342610005470 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005471 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 342610005472 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 342610005473 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 342610005474 putative active site [active] 342610005475 Zn binding site [ion binding]; other site 342610005476 S-formylglutathione hydrolase; Region: PLN02442 342610005477 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 342610005478 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 342610005479 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 342610005480 substrate binding site [chemical binding]; other site 342610005481 catalytic Zn binding site [ion binding]; other site 342610005482 NAD binding site [chemical binding]; other site 342610005483 structural Zn binding site [ion binding]; other site 342610005484 dimer interface [polypeptide binding]; other site 342610005485 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 342610005486 Amidohydrolase; Region: Amidohydro_2; pfam04909 342610005487 aldose dehydrogenase; Validated; Region: PRK06398 342610005488 classical (c) SDRs; Region: SDR_c; cd05233 342610005489 NAD(P) binding site [chemical binding]; other site 342610005490 active site 342610005491 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 342610005492 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 342610005493 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 342610005494 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 342610005495 FeS/SAM binding site; other site 342610005496 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610005497 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 342610005498 dimer interface [polypeptide binding]; other site 342610005499 phosphorylation site [posttranslational modification] 342610005500 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 342610005501 ATP binding site [chemical binding]; other site 342610005502 Mg2+ binding site [ion binding]; other site 342610005503 G-X-G motif; other site 342610005504 Response regulator receiver domain; Region: Response_reg; pfam00072 342610005505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610005506 active site 342610005507 phosphorylation site [posttranslational modification] 342610005508 intermolecular recognition site; other site 342610005509 dimerization interface [polypeptide binding]; other site 342610005510 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610005511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005512 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 342610005513 L-lactate permease; Region: Lactate_perm; cl00701 342610005514 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 342610005515 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 342610005516 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610005517 ABC transporter signature motif; other site 342610005518 Walker B; other site 342610005519 D-loop; other site 342610005520 H-loop/switch region; other site 342610005521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610005522 Walker A/P-loop; other site 342610005523 ATP binding site [chemical binding]; other site 342610005524 Q-loop/lid; other site 342610005525 ABC transporter signature motif; other site 342610005526 Walker B; other site 342610005527 D-loop; other site 342610005528 H-loop/switch region; other site 342610005529 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005530 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 342610005531 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 342610005532 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610005533 Sulfatase; Region: Sulfatase; pfam00884 342610005534 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610005535 Sulfatase; Region: Sulfatase; pfam00884 342610005536 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 342610005537 active site 342610005538 Int/Topo IB signature motif; other site 342610005539 DNA binding site [nucleotide binding] 342610005540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610005541 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610005542 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610005543 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005544 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 342610005545 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610005546 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 342610005547 Domain of unknown function (DUF303); Region: DUF303; pfam03629 342610005548 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 342610005549 YciI-like protein; Reviewed; Region: PRK12866 342610005550 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 342610005551 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 342610005552 dimer interface [polypeptide binding]; other site 342610005553 Trp docking motif [polypeptide binding]; other site 342610005554 active site 342610005555 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 342610005556 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 342610005557 substrate binding pocket [chemical binding]; other site 342610005558 membrane-bound complex binding site; other site 342610005559 hinge residues; other site 342610005560 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 342610005561 Cytochrome c; Region: Cytochrom_C; pfam00034 342610005562 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 342610005563 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 342610005564 ligand binding site [chemical binding]; other site 342610005565 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 342610005566 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 342610005567 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 342610005568 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 342610005569 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 342610005570 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610005571 Walker A/P-loop; other site 342610005572 ATP binding site [chemical binding]; other site 342610005573 Q-loop/lid; other site 342610005574 ABC transporter signature motif; other site 342610005575 Walker B; other site 342610005576 D-loop; other site 342610005577 H-loop/switch region; other site 342610005578 ABC-2 type transporter; Region: ABC2_membrane; cl17235 342610005579 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 342610005580 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005581 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 342610005582 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 342610005583 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005584 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 342610005585 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 342610005586 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 342610005587 substrate binding pocket [chemical binding]; other site 342610005588 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 342610005589 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 342610005590 dimer interface [polypeptide binding]; other site 342610005591 conserved gate region; other site 342610005592 putative PBP binding loops; other site 342610005593 ABC-ATPase subunit interface; other site 342610005594 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 342610005595 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 342610005596 Walker A/P-loop; other site 342610005597 ATP binding site [chemical binding]; other site 342610005598 Q-loop/lid; other site 342610005599 ABC transporter signature motif; other site 342610005600 Walker B; other site 342610005601 D-loop; other site 342610005602 H-loop/switch region; other site 342610005603 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 342610005604 Gram-negative porin; Region: Porin_4; pfam13609 342610005605 EthD domain; Region: EthD; cl17553 342610005606 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610005607 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610005608 active site 342610005609 phosphorylation site [posttranslational modification] 342610005610 intermolecular recognition site; other site 342610005611 dimerization interface [polypeptide binding]; other site 342610005612 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 342610005613 DNA binding residues [nucleotide binding] 342610005614 dimerization interface [polypeptide binding]; other site 342610005615 PAS fold; Region: PAS_7; pfam12860 342610005616 PAS fold; Region: PAS_7; pfam12860 342610005617 PAS fold; Region: PAS_4; pfam08448 342610005618 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 342610005619 putative active site [active] 342610005620 heme pocket [chemical binding]; other site 342610005621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610005622 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 342610005623 dimer interface [polypeptide binding]; other site 342610005624 phosphorylation site [posttranslational modification] 342610005625 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 342610005626 ATP binding site [chemical binding]; other site 342610005627 Mg2+ binding site [ion binding]; other site 342610005628 G-X-G motif; other site 342610005629 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610005630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610005631 active site 342610005632 phosphorylation site [posttranslational modification] 342610005633 intermolecular recognition site; other site 342610005634 dimerization interface [polypeptide binding]; other site 342610005635 Uncharacterized conserved protein [Function unknown]; Region: COG3287 342610005636 FIST N domain; Region: FIST; pfam08495 342610005637 FIST C domain; Region: FIST_C; pfam10442 342610005638 FMN-binding domain; Region: FMN_bind; cl01081 342610005639 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 342610005640 4Fe-4S binding domain; Region: Fer4_5; pfam12801 342610005641 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 342610005642 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610005643 NAD(P) binding site [chemical binding]; other site 342610005644 catalytic residues [active] 342610005645 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 342610005646 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610005647 NAD(P) binding site [chemical binding]; other site 342610005648 putative active site [active] 342610005649 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 342610005650 30S subunit binding site; other site 342610005651 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 342610005652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610005653 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 342610005654 substrate binding pocket [chemical binding]; other site 342610005655 dimerization interface [polypeptide binding]; other site 342610005656 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 342610005657 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 342610005658 putative dimer interface [polypeptide binding]; other site 342610005659 putative anticodon binding site; other site 342610005660 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 342610005661 homodimer interface [polypeptide binding]; other site 342610005662 motif 1; other site 342610005663 motif 2; other site 342610005664 active site 342610005665 motif 3; other site 342610005666 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 342610005667 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 342610005668 dimer interface [polypeptide binding]; other site 342610005669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610005670 catalytic residue [active] 342610005671 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610005672 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 342610005673 putative DNA binding site [nucleotide binding]; other site 342610005674 putative Zn2+ binding site [ion binding]; other site 342610005675 AsnC family; Region: AsnC_trans_reg; pfam01037 342610005676 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 342610005677 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 342610005678 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 342610005679 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 342610005680 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 342610005681 putative active site [active] 342610005682 putative metal binding site [ion binding]; other site 342610005683 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 342610005684 substrate binding site [chemical binding]; other site 342610005685 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 342610005686 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 342610005687 active site 342610005688 HIGH motif; other site 342610005689 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 342610005690 KMSKS motif; other site 342610005691 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 342610005692 tRNA binding surface [nucleotide binding]; other site 342610005693 anticodon binding site; other site 342610005694 Fic family protein [Function unknown]; Region: COG3177 342610005695 Fic/DOC family; Region: Fic; pfam02661 342610005696 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_6; cd07242 342610005697 putative dimer interface [polypeptide binding]; other site 342610005698 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610005699 ligand binding site [chemical binding]; other site 342610005700 Zn binding site [ion binding]; other site 342610005701 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 342610005702 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610005703 catalytic residue [active] 342610005704 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 342610005705 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 342610005706 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 342610005707 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 342610005708 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 342610005709 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 342610005710 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 342610005711 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 342610005712 active site 342610005713 HIGH motif; other site 342610005714 KMSKS motif; other site 342610005715 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 342610005716 tRNA binding surface [nucleotide binding]; other site 342610005717 anticodon binding site; other site 342610005718 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 342610005719 dimer interface [polypeptide binding]; other site 342610005720 putative tRNA-binding site [nucleotide binding]; other site 342610005721 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 342610005722 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 342610005723 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 342610005724 trimer interface [polypeptide binding]; other site 342610005725 active site 342610005726 Cupin; Region: Cupin_6; pfam12852 342610005727 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610005728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005730 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 342610005731 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610005732 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610005733 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 342610005734 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610005735 catalytic residues [active] 342610005736 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 342610005737 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 342610005738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610005739 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 342610005740 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 342610005741 putative substrate translocation pore; other site 342610005742 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610005743 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 342610005744 NAD(P) binding site [chemical binding]; other site 342610005745 catalytic residues [active] 342610005746 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 342610005747 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 342610005748 Zn binding site [ion binding]; other site 342610005749 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 342610005750 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 342610005751 dimer interface [polypeptide binding]; other site 342610005752 acyl-activating enzyme (AAE) consensus motif; other site 342610005753 putative active site [active] 342610005754 AMP binding site [chemical binding]; other site 342610005755 putative CoA binding site [chemical binding]; other site 342610005756 short chain dehydrogenase; Provisional; Region: PRK06172 342610005757 classical (c) SDRs; Region: SDR_c; cd05233 342610005758 NAD(P) binding site [chemical binding]; other site 342610005759 active site 342610005760 haloalkane dehalogenase; Provisional; Region: PRK00870 342610005761 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 342610005762 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 342610005763 substrate binding site [chemical binding]; other site 342610005764 oxyanion hole (OAH) forming residues; other site 342610005765 trimer interface [polypeptide binding]; other site 342610005766 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 342610005767 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610005768 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610005769 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 342610005770 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 342610005771 dimer interface [polypeptide binding]; other site 342610005772 active site 342610005773 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610005774 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 342610005775 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610005776 active site 342610005777 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610005778 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 342610005779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610005780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610005781 metal binding site [ion binding]; metal-binding site 342610005782 active site 342610005783 I-site; other site 342610005784 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610005785 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 342610005786 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 342610005787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610005788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610005789 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610005790 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 342610005791 substrate binding pocket [chemical binding]; other site 342610005792 membrane-bound complex binding site; other site 342610005793 hinge residues; other site 342610005794 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 342610005795 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610005796 putative substrate translocation pore; other site 342610005797 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 342610005798 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 342610005799 putative active site [active] 342610005800 putative FMN binding site [chemical binding]; other site 342610005801 putative substrate binding site [chemical binding]; other site 342610005802 putative catalytic residue [active] 342610005803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610005804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610005805 WHG domain; Region: WHG; pfam13305 342610005806 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 342610005807 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 342610005808 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 342610005809 ThiC-associated domain; Region: ThiC-associated; pfam13667 342610005810 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 342610005811 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610005812 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 342610005813 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 342610005814 thiS-thiF/thiG interaction site; other site 342610005815 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 342610005816 ThiS interaction site; other site 342610005817 putative active site [active] 342610005818 tetramer interface [polypeptide binding]; other site 342610005819 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 342610005820 substrate binding site [chemical binding]; other site 342610005821 dimer interface [polypeptide binding]; other site 342610005822 ATP binding site [chemical binding]; other site 342610005823 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 342610005824 thiamine phosphate binding site [chemical binding]; other site 342610005825 active site 342610005826 pyrophosphate binding site [ion binding]; other site 342610005827 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 342610005828 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 342610005829 ATP binding site [chemical binding]; other site 342610005830 substrate interface [chemical binding]; other site 342610005831 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 342610005832 active site residue [active] 342610005833 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 342610005834 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610005835 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005836 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 342610005837 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 342610005838 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610005839 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610005840 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 342610005841 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 342610005842 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 342610005843 carbohydrate binding site [chemical binding]; other site 342610005844 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 342610005845 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 342610005846 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 342610005847 Ca binding site [ion binding]; other site 342610005848 active site 342610005849 catalytic site [active] 342610005850 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 342610005851 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 342610005852 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 342610005853 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 342610005854 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005855 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005856 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610005857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610005858 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610005859 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610005860 Protein with unknown function (DUF469); Region: DUF469; pfam04320 342610005861 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 342610005862 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 342610005863 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 342610005864 Cytochrome oxidase complex assembly protein 1; Region: Coa1; pfam08695 342610005865 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 342610005866 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 342610005867 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610005868 Bacterial transcriptional regulator; Region: IclR; pfam01614 342610005869 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 342610005870 SapC; Region: SapC; pfam07277 342610005871 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610005872 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 342610005873 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 342610005874 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 342610005875 Helix-turn-helix; Region: HTH_3; pfam01381 342610005876 sequence-specific DNA binding site [nucleotide binding]; other site 342610005877 salt bridge; other site 342610005878 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 342610005879 active site 342610005880 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 342610005881 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610005882 substrate binding site [chemical binding]; other site 342610005883 ATP binding site [chemical binding]; other site 342610005884 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 342610005885 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 342610005886 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 342610005887 Leucine rich repeat; Region: LRR_8; pfam13855 342610005888 Leucine rich repeat; Region: LRR_8; pfam13855 342610005889 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610005890 active site 342610005891 ATP binding site [chemical binding]; other site 342610005892 substrate binding site [chemical binding]; other site 342610005893 activation loop (A-loop); other site 342610005894 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 342610005895 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 342610005896 dimer interface [polypeptide binding]; other site 342610005897 active site 342610005898 heme binding site [chemical binding]; other site 342610005899 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 342610005900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610005901 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 342610005902 NAD(P) binding site [chemical binding]; other site 342610005903 active site 342610005904 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 342610005905 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 342610005906 homoserine O-acetyltransferase; Provisional; Region: PRK06765 342610005907 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 342610005908 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 342610005909 fructuronate transporter; Provisional; Region: PRK10034; cl15264 342610005910 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610005911 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 342610005912 N-terminal plug; other site 342610005913 ligand-binding site [chemical binding]; other site 342610005914 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610005915 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610005916 active site 342610005917 phosphorylation site [posttranslational modification] 342610005918 intermolecular recognition site; other site 342610005919 dimerization interface [polypeptide binding]; other site 342610005920 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 342610005921 DNA binding residues [nucleotide binding] 342610005922 dimerization interface [polypeptide binding]; other site 342610005923 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 342610005924 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 342610005925 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610005926 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 342610005927 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610005928 Na binding site [ion binding]; other site 342610005929 PAS domain; Region: PAS; smart00091 342610005930 PAS fold; Region: PAS_7; pfam12860 342610005931 putative active site [active] 342610005932 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 342610005933 dimer interface [polypeptide binding]; other site 342610005934 phosphorylation site [posttranslational modification] 342610005935 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 342610005936 ATP binding site [chemical binding]; other site 342610005937 Mg2+ binding site [ion binding]; other site 342610005938 G-X-G motif; other site 342610005939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610005940 active site 342610005941 phosphorylation site [posttranslational modification] 342610005942 intermolecular recognition site; other site 342610005943 GrpE; Region: GrpE; pfam01025 342610005944 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 342610005945 dimer interface [polypeptide binding]; other site 342610005946 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 342610005947 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 342610005948 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 342610005949 nucleotide binding site [chemical binding]; other site 342610005950 chaperone protein DnaJ; Provisional; Region: PRK10767 342610005951 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 342610005952 HSP70 interaction site [polypeptide binding]; other site 342610005953 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 342610005954 substrate binding site [polypeptide binding]; other site 342610005955 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 342610005956 Zn binding sites [ion binding]; other site 342610005957 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 342610005958 dimer interface [polypeptide binding]; other site 342610005959 Cytochrome C' Region: Cytochrom_C_2; pfam01322 342610005960 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 342610005961 GAF domain; Region: GAF_2; pfam13185 342610005962 ProP expression regulator; Provisional; Region: PRK04950 342610005963 ProQ/FINO family; Region: ProQ; smart00945 342610005964 carboxy-terminal protease; Provisional; Region: PRK11186 342610005965 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 342610005966 protein binding site [polypeptide binding]; other site 342610005967 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 342610005968 Catalytic dyad [active] 342610005969 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 342610005970 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 342610005971 Na2 binding site [ion binding]; other site 342610005972 putative substrate binding site 1 [chemical binding]; other site 342610005973 Na binding site 1 [ion binding]; other site 342610005974 putative substrate binding site 2 [chemical binding]; other site 342610005975 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 342610005976 aminopeptidase N; Provisional; Region: pepN; PRK14015 342610005977 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 342610005978 active site 342610005979 Zn binding site [ion binding]; other site 342610005980 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 342610005981 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 342610005982 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 342610005983 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 342610005984 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 342610005985 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 342610005986 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 342610005987 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 342610005988 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 342610005989 quinone interaction residues [chemical binding]; other site 342610005990 active site 342610005991 catalytic residues [active] 342610005992 FMN binding site [chemical binding]; other site 342610005993 substrate binding site [chemical binding]; other site 342610005994 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 342610005995 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 342610005996 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 342610005997 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 342610005998 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 342610005999 putative RNA binding site [nucleotide binding]; other site 342610006000 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 342610006001 S-adenosylmethionine binding site [chemical binding]; other site 342610006002 ABC transporter ATPase component; Reviewed; Region: PRK11147 342610006003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610006004 Walker A/P-loop; other site 342610006005 ATP binding site [chemical binding]; other site 342610006006 Q-loop/lid; other site 342610006007 ABC transporter signature motif; other site 342610006008 Walker B; other site 342610006009 D-loop; other site 342610006010 H-loop/switch region; other site 342610006011 ABC transporter; Region: ABC_tran_2; pfam12848 342610006012 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610006013 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 342610006014 Ribosome modulation factor; Region: RMF; pfam04957 342610006015 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 342610006016 active site 1 [active] 342610006017 dimer interface [polypeptide binding]; other site 342610006018 active site 2 [active] 342610006019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 342610006020 SEC-C motif; Region: SEC-C; pfam02810 342610006021 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 342610006022 TMAO/DMSO reductase; Reviewed; Region: PRK05363 342610006023 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 342610006024 Moco binding site; other site 342610006025 metal coordination site [ion binding]; other site 342610006026 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 342610006027 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610006028 Zn2+ binding site [ion binding]; other site 342610006029 Mg2+ binding site [ion binding]; other site 342610006030 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 342610006031 Trehalose utilisation; Region: ThuA; pfam06283 342610006032 HD domain; Region: HD_3; cl17350 342610006033 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 342610006034 non-specific DNA binding site [nucleotide binding]; other site 342610006035 salt bridge; other site 342610006036 sequence-specific DNA binding site [nucleotide binding]; other site 342610006037 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 342610006038 HD domain; Region: HD_4; pfam13328 342610006039 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 342610006040 active site 342610006041 catalytic residues [active] 342610006042 DNA binding site [nucleotide binding] 342610006043 Int/Topo IB signature motif; other site 342610006044 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610006045 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 342610006046 active site 342610006047 catalytic residues [active] 342610006048 DNA binding site [nucleotide binding] 342610006049 Int/Topo IB signature motif; other site 342610006050 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 342610006051 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 342610006052 DNA binding residues [nucleotide binding] 342610006053 dimer interface [polypeptide binding]; other site 342610006054 putative metal binding site [ion binding]; other site 342610006055 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 342610006056 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 342610006057 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 342610006058 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 342610006059 Outer membrane efflux protein; Region: OEP; pfam02321 342610006060 Outer membrane efflux protein; Region: OEP; pfam02321 342610006061 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 342610006062 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 342610006063 carboxyltransferase (CT) interaction site; other site 342610006064 biotinylation site [posttranslational modification]; other site 342610006065 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 342610006066 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 342610006067 5'-nucleotidase; Provisional; Region: PRK03826 342610006068 HD domain; Region: HD_3; cl17350 342610006069 aminotransferase AlaT; Validated; Region: PRK09265 342610006070 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 342610006071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610006072 homodimer interface [polypeptide binding]; other site 342610006073 catalytic residue [active] 342610006074 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 342610006075 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 342610006076 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 342610006077 tetramer interface [polypeptide binding]; other site 342610006078 TPP-binding site [chemical binding]; other site 342610006079 heterodimer interface [polypeptide binding]; other site 342610006080 phosphorylation loop region [posttranslational modification] 342610006081 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 342610006082 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 342610006083 alpha subunit interface [polypeptide binding]; other site 342610006084 TPP binding site [chemical binding]; other site 342610006085 heterodimer interface [polypeptide binding]; other site 342610006086 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 342610006087 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 342610006088 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 342610006089 E3 interaction surface; other site 342610006090 lipoyl attachment site [posttranslational modification]; other site 342610006091 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 342610006092 E3 interaction surface; other site 342610006093 lipoyl attachment site [posttranslational modification]; other site 342610006094 e3 binding domain; Region: E3_binding; pfam02817 342610006095 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 342610006096 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 342610006097 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 342610006098 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610006099 active site 342610006100 ATP binding site [chemical binding]; other site 342610006101 substrate binding site [chemical binding]; other site 342610006102 activation loop (A-loop); other site 342610006103 acyl-CoA thioesterase II; Provisional; Region: PRK10526 342610006104 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 342610006105 active site 342610006106 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 342610006107 catalytic triad [active] 342610006108 dimer interface [polypeptide binding]; other site 342610006109 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 342610006110 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 342610006111 trimer interface [polypeptide binding]; other site 342610006112 putative metal binding site [ion binding]; other site 342610006113 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 342610006114 homodimer interface [polypeptide binding]; other site 342610006115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610006116 catalytic residue [active] 342610006117 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 342610006118 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 342610006119 MarR family; Region: MarR_2; pfam12802 342610006120 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; cl17774 342610006121 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 342610006122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610006123 ABC transporter signature motif; other site 342610006124 Walker B; other site 342610006125 D-loop; other site 342610006126 H-loop/switch region; other site 342610006127 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610006128 Walker A/P-loop; other site 342610006129 ATP binding site [chemical binding]; other site 342610006130 Q-loop/lid; other site 342610006131 ABC transporter signature motif; other site 342610006132 Walker B; other site 342610006133 D-loop; other site 342610006134 H-loop/switch region; other site 342610006135 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610006136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610006137 Coenzyme A binding pocket [chemical binding]; other site 342610006138 glutaminase; Provisional; Region: PRK00971 342610006139 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 342610006140 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 342610006141 Cupin domain; Region: Cupin_2; cl17218 342610006142 allantoate amidohydrolase; Reviewed; Region: PRK09290 342610006143 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 342610006144 active site 342610006145 metal binding site [ion binding]; metal-binding site 342610006146 dimer interface [polypeptide binding]; other site 342610006147 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 342610006148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610006149 catalytic residue [active] 342610006150 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610006151 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 342610006152 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 342610006153 indole-3-acetamide amidohydrolase; Region: PLN02722 342610006154 Amidase; Region: Amidase; cl11426 342610006155 Class II fumarases; Region: Fumarase_classII; cd01362 342610006156 fumarate hydratase; Reviewed; Region: fumC; PRK00485 342610006157 active site 342610006158 tetramer interface [polypeptide binding]; other site 342610006159 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 342610006160 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 342610006161 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 342610006162 NAD-dependent deacetylase; Provisional; Region: PRK00481 342610006163 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 342610006164 NAD+ binding site [chemical binding]; other site 342610006165 substrate binding site [chemical binding]; other site 342610006166 Zn binding site [ion binding]; other site 342610006167 LysE type translocator; Region: LysE; cl00565 342610006168 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 342610006169 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 342610006170 hypothetical protein; Provisional; Region: PRK10279 342610006171 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 342610006172 active site 342610006173 nucleophile elbow; other site 342610006174 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 342610006175 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 342610006176 Ligand Binding Site [chemical binding]; other site 342610006177 universal stress protein UspE; Provisional; Region: PRK11175 342610006178 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 342610006179 Ligand Binding Site [chemical binding]; other site 342610006180 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 342610006181 Ligand Binding Site [chemical binding]; other site 342610006182 Family description; Region: DsbD_2; pfam13386 342610006183 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 342610006184 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 342610006185 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 342610006186 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 342610006187 metal-binding site [ion binding] 342610006188 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 342610006189 Soluble P-type ATPase [General function prediction only]; Region: COG4087 342610006190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 342610006191 FixH; Region: FixH; pfam05751 342610006192 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 342610006193 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 342610006194 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 342610006195 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 342610006196 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 342610006197 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 342610006198 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 342610006199 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 342610006200 Low-spin heme binding site [chemical binding]; other site 342610006201 Putative water exit pathway; other site 342610006202 Binuclear center (active site) [active] 342610006203 Putative proton exit pathway; other site 342610006204 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 342610006205 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 342610006206 heme binding site [chemical binding]; other site 342610006207 ferroxidase pore; other site 342610006208 ferroxidase diiron center [ion binding]; other site 342610006209 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 342610006210 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 342610006211 heme binding site [chemical binding]; other site 342610006212 ferroxidase pore; other site 342610006213 ferroxidase diiron center [ion binding]; other site 342610006214 Conserved TM helix; Region: TM_helix; pfam05552 342610006215 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610006216 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610006217 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 342610006218 DNA binding residues [nucleotide binding] 342610006219 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 342610006220 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 342610006221 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610006222 ligand binding site [chemical binding]; other site 342610006223 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 342610006224 dimerization interface [polypeptide binding]; other site 342610006225 substrate binding site [chemical binding]; other site 342610006226 active site 342610006227 calcium binding site [ion binding]; other site 342610006228 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610006229 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 342610006230 dimer interface [polypeptide binding]; other site 342610006231 phosphorylation site [posttranslational modification] 342610006232 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 342610006233 ATP binding site [chemical binding]; other site 342610006234 Mg2+ binding site [ion binding]; other site 342610006235 G-X-G motif; other site 342610006236 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006237 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006238 active site 342610006239 phosphorylation site [posttranslational modification] 342610006240 intermolecular recognition site; other site 342610006241 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610006242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006243 active site 342610006244 phosphorylation site [posttranslational modification] 342610006245 intermolecular recognition site; other site 342610006246 dimerization interface [polypeptide binding]; other site 342610006247 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 342610006248 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 342610006249 ligand binding site; other site 342610006250 oligomer interface; other site 342610006251 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 342610006252 dimer interface [polypeptide binding]; other site 342610006253 N-terminal domain interface [polypeptide binding]; other site 342610006254 sulfate 1 binding site; other site 342610006255 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 342610006256 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 342610006257 ligand binding site [chemical binding]; other site 342610006258 flexible hinge region; other site 342610006259 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 342610006260 putative switch regulator; other site 342610006261 non-specific DNA interactions [nucleotide binding]; other site 342610006262 DNA binding site [nucleotide binding] 342610006263 sequence specific DNA binding site [nucleotide binding]; other site 342610006264 putative cAMP binding site [chemical binding]; other site 342610006265 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 342610006266 active site residue [active] 342610006267 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 342610006268 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 342610006269 active site 342610006270 ADP/pyrophosphate binding site [chemical binding]; other site 342610006271 dimerization interface [polypeptide binding]; other site 342610006272 allosteric effector site; other site 342610006273 fructose-1,6-bisphosphate binding site; other site 342610006274 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 342610006275 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 342610006276 putative ligand binding site [chemical binding]; other site 342610006277 putative NAD binding site [chemical binding]; other site 342610006278 catalytic site [active] 342610006279 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006281 active site 342610006282 phosphorylation site [posttranslational modification] 342610006283 intermolecular recognition site; other site 342610006284 dimerization interface [polypeptide binding]; other site 342610006285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610006286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006287 metal binding site [ion binding]; metal-binding site 342610006288 active site 342610006289 I-site; other site 342610006290 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 342610006291 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 342610006292 DNA binding residues [nucleotide binding] 342610006293 dimer interface [polypeptide binding]; other site 342610006294 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 342610006295 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 342610006296 metal-binding site [ion binding] 342610006297 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 342610006298 Soluble P-type ATPase [General function prediction only]; Region: COG4087 342610006299 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 342610006300 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 342610006301 Ligand Binding Site [chemical binding]; other site 342610006302 Response regulator receiver domain; Region: Response_reg; pfam00072 342610006303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006304 active site 342610006305 phosphorylation site [posttranslational modification] 342610006306 intermolecular recognition site; other site 342610006307 dimerization interface [polypeptide binding]; other site 342610006308 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 342610006309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006310 active site 342610006311 phosphorylation site [posttranslational modification] 342610006312 intermolecular recognition site; other site 342610006313 dimerization interface [polypeptide binding]; other site 342610006314 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 342610006315 DNA binding residues [nucleotide binding] 342610006316 dimerization interface [polypeptide binding]; other site 342610006317 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 342610006318 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 342610006319 putative active site [active] 342610006320 heme pocket [chemical binding]; other site 342610006321 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 342610006322 dimer interface [polypeptide binding]; other site 342610006323 phosphorylation site [posttranslational modification] 342610006324 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 342610006325 ATP binding site [chemical binding]; other site 342610006326 Mg2+ binding site [ion binding]; other site 342610006327 G-X-G motif; other site 342610006328 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 342610006329 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 342610006330 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 342610006331 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 342610006332 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 342610006333 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 342610006334 HSP70 interaction site [polypeptide binding]; other site 342610006335 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 342610006336 substrate binding site [polypeptide binding]; other site 342610006337 dimer interface [polypeptide binding]; other site 342610006338 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 342610006339 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610006340 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 342610006341 Coenzyme A binding pocket [chemical binding]; other site 342610006342 universal stress protein UspE; Provisional; Region: PRK11175 342610006343 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 342610006344 Ligand Binding Site [chemical binding]; other site 342610006345 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 342610006346 Ligand Binding Site [chemical binding]; other site 342610006347 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 342610006348 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 342610006349 putative active site [active] 342610006350 heme pocket [chemical binding]; other site 342610006351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610006352 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 342610006353 dimer interface [polypeptide binding]; other site 342610006354 phosphorylation site [posttranslational modification] 342610006355 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 342610006356 ATP binding site [chemical binding]; other site 342610006357 Mg2+ binding site [ion binding]; other site 342610006358 G-X-G motif; other site 342610006359 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610006360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006361 active site 342610006362 phosphorylation site [posttranslational modification] 342610006363 intermolecular recognition site; other site 342610006364 dimerization interface [polypeptide binding]; other site 342610006365 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 342610006366 putative DNA binding site [nucleotide binding]; other site 342610006367 putative Zn2+ binding site [ion binding]; other site 342610006368 Predicted transporter component [General function prediction only]; Region: COG2391 342610006369 Sulphur transport; Region: Sulf_transp; pfam04143 342610006370 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 342610006371 Predicted transporter component [General function prediction only]; Region: COG2391 342610006372 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 342610006373 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 342610006374 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610006375 catalytic residues [active] 342610006376 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 342610006377 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 342610006378 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 342610006379 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 342610006380 Int/Topo IB signature motif; other site 342610006381 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 342610006382 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 342610006383 Trp docking motif [polypeptide binding]; other site 342610006384 putative active site [active] 342610006385 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 342610006386 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 342610006387 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 342610006388 catalytic site [active] 342610006389 active site 342610006390 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 342610006391 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 342610006392 active site 342610006393 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 342610006394 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 342610006395 Walker A motif; other site 342610006396 ATP binding site [chemical binding]; other site 342610006397 Walker B motif; other site 342610006398 thymidylate kinase; Validated; Region: tmk; PRK00698 342610006399 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 342610006400 TMP-binding site; other site 342610006401 ATP-binding site [chemical binding]; other site 342610006402 YceG-like family; Region: YceG; pfam02618 342610006403 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 342610006404 dimerization interface [polypeptide binding]; other site 342610006405 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 342610006406 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 342610006407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610006408 catalytic residue [active] 342610006409 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 342610006410 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 342610006411 dimer interface [polypeptide binding]; other site 342610006412 active site 342610006413 acyl carrier protein; Provisional; Region: acpP; PRK00982 342610006414 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610006415 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 342610006416 NAD(P) binding site [chemical binding]; other site 342610006417 homotetramer interface [polypeptide binding]; other site 342610006418 homodimer interface [polypeptide binding]; other site 342610006419 active site 342610006420 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 342610006421 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 342610006422 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 342610006423 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 342610006424 dimer interface [polypeptide binding]; other site 342610006425 active site 342610006426 CoA binding pocket [chemical binding]; other site 342610006427 putative phosphate acyltransferase; Provisional; Region: PRK05331 342610006428 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 342610006429 hypothetical protein; Provisional; Region: PRK11193 342610006430 Maf-like protein; Region: Maf; pfam02545 342610006431 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 342610006432 active site 342610006433 dimer interface [polypeptide binding]; other site 342610006434 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 342610006435 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 342610006436 NADP binding site [chemical binding]; other site 342610006437 active site 342610006438 putative substrate binding site [chemical binding]; other site 342610006439 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 342610006440 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 342610006441 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 342610006442 substrate binding site; other site 342610006443 tetramer interface; other site 342610006444 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 342610006445 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 342610006446 NAD binding site [chemical binding]; other site 342610006447 substrate binding site [chemical binding]; other site 342610006448 homodimer interface [polypeptide binding]; other site 342610006449 active site 342610006450 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 342610006451 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 342610006452 RNA binding surface [nucleotide binding]; other site 342610006453 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610006454 active site 342610006455 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 342610006456 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 342610006457 homodimer interface [polypeptide binding]; other site 342610006458 oligonucleotide binding site [chemical binding]; other site 342610006459 helicase 45; Provisional; Region: PTZ00424 342610006460 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 342610006461 ATP binding site [chemical binding]; other site 342610006462 Mg++ binding site [ion binding]; other site 342610006463 motif III; other site 342610006464 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 342610006465 nucleotide binding region [chemical binding]; other site 342610006466 ATP-binding site [chemical binding]; other site 342610006467 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 342610006468 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 342610006469 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 342610006470 short chain dehydrogenase; Provisional; Region: PRK07035 342610006471 classical (c) SDRs; Region: SDR_c; cd05233 342610006472 NAD(P) binding site [chemical binding]; other site 342610006473 active site 342610006474 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610006475 classical (c) SDRs; Region: SDR_c; cd05233 342610006476 NAD(P) binding site [chemical binding]; other site 342610006477 active site 342610006478 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 342610006479 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 342610006480 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610006481 active site 342610006482 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 342610006483 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610006484 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610006485 conserved cys residue [active] 342610006486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610006487 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610006488 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 342610006489 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 342610006490 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 342610006491 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 342610006492 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 342610006493 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 342610006494 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 342610006495 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 342610006496 Ligand binding site [chemical binding]; other site 342610006497 Electron transfer flavoprotein domain; Region: ETF; pfam01012 342610006498 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 342610006499 hydroxyglutarate oxidase; Provisional; Region: PRK11728 342610006500 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 342610006501 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 342610006502 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 342610006503 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610006504 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 342610006505 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 342610006506 flavodoxin FldA; Validated; Region: PRK09267 342610006507 ferric uptake regulator; Provisional; Region: fur; PRK09462 342610006508 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 342610006509 metal binding site 2 [ion binding]; metal-binding site 342610006510 putative DNA binding helix; other site 342610006511 metal binding site 1 [ion binding]; metal-binding site 342610006512 dimer interface [polypeptide binding]; other site 342610006513 structural Zn2+ binding site [ion binding]; other site 342610006514 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 342610006515 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 342610006516 dimer interface [polypeptide binding]; other site 342610006517 conserved gate region; other site 342610006518 putative PBP binding loops; other site 342610006519 ABC-ATPase subunit interface; other site 342610006520 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 342610006521 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 342610006522 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 342610006523 MoaE homodimer interface [polypeptide binding]; other site 342610006524 MoaD interaction [polypeptide binding]; other site 342610006525 active site residues [active] 342610006526 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 342610006527 MoaE interaction surface [polypeptide binding]; other site 342610006528 MoeB interaction surface [polypeptide binding]; other site 342610006529 thiocarboxylated glycine; other site 342610006530 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 342610006531 trimer interface [polypeptide binding]; other site 342610006532 dimer interface [polypeptide binding]; other site 342610006533 putative active site [active] 342610006534 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 342610006535 MPT binding site; other site 342610006536 trimer interface [polypeptide binding]; other site 342610006537 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 342610006538 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 342610006539 GTP binding site; other site 342610006540 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 342610006541 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 342610006542 FeS/SAM binding site; other site 342610006543 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 342610006544 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 342610006545 active site 342610006546 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 342610006547 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 342610006548 active site 342610006549 motif I; other site 342610006550 motif II; other site 342610006551 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 342610006552 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 342610006553 active site 342610006554 homodimer interface [polypeptide binding]; other site 342610006555 catalytic site [active] 342610006556 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 342610006557 EF-hand domain pair; Region: EF_hand_5; pfam13499 342610006558 pseudo EF-hand loop; other site 342610006559 peptide binding pocket; other site 342610006560 Ca2+ binding site [ion binding]; other site 342610006561 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 342610006562 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 342610006563 NAD(P) binding site [chemical binding]; other site 342610006564 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 342610006565 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 342610006566 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 342610006567 putative RNA binding site [nucleotide binding]; other site 342610006568 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 342610006569 S-adenosylmethionine binding site [chemical binding]; other site 342610006570 PilZ domain; Region: PilZ; pfam07238 342610006571 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 342610006572 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 342610006573 ATP binding site [chemical binding]; other site 342610006574 putative Mg++ binding site [ion binding]; other site 342610006575 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 342610006576 nucleotide binding region [chemical binding]; other site 342610006577 ATP-binding site [chemical binding]; other site 342610006578 Helicase associated domain (HA2); Region: HA2; pfam04408 342610006579 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 342610006580 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 342610006581 FOG: CBS domain [General function prediction only]; Region: COG0517 342610006582 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 342610006583 exonuclease I; Provisional; Region: sbcB; PRK11779 342610006584 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 342610006585 active site 342610006586 catalytic site [active] 342610006587 substrate binding site [chemical binding]; other site 342610006588 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 342610006589 Protein of unknown function (DUF342); Region: DUF342; pfam03961 342610006590 Protein kinase C-related kinase homology region 1 (HR1) domain that binds Rho family small GTPases; Region: HR1; cl00087 342610006591 Rho binding site 1 [polypeptide binding]; other site 342610006592 putative Rho binding site 2 [polypeptide binding]; other site 342610006593 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 342610006594 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 342610006595 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 342610006596 catalytic residues [active] 342610006597 dimer interface [polypeptide binding]; other site 342610006598 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 342610006599 S-adenosylmethionine binding site [chemical binding]; other site 342610006600 Uncharacterized conserved protein [Function unknown]; Region: COG0327 342610006601 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 342610006602 DNA photolyase; Region: DNA_photolyase; pfam00875 342610006603 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 342610006604 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 342610006605 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610006606 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 342610006607 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 342610006608 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 342610006609 putative inner membrane peptidase; Provisional; Region: PRK11778 342610006610 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 342610006611 tandem repeat interface [polypeptide binding]; other site 342610006612 oligomer interface [polypeptide binding]; other site 342610006613 active site residues [active] 342610006614 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 342610006615 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 342610006616 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 342610006617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610006618 NAD(P) binding site [chemical binding]; other site 342610006619 active site 342610006620 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 342610006621 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610006622 active site 342610006623 HIGH motif; other site 342610006624 nucleotide binding site [chemical binding]; other site 342610006625 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 342610006626 KMSKS motif; other site 342610006627 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 342610006628 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610006629 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610006630 DNA binding site [nucleotide binding] 342610006631 domain linker motif; other site 342610006632 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 342610006633 putative dimerization interface [polypeptide binding]; other site 342610006634 putative ligand binding site [chemical binding]; other site 342610006635 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 342610006636 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610006637 active site 342610006638 catalytic site [active] 342610006639 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 342610006640 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 342610006641 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610006642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006643 metal binding site [ion binding]; metal-binding site 342610006644 active site 342610006645 I-site; other site 342610006646 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 342610006647 active site 342610006648 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 342610006649 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 342610006650 ArsC family; Region: ArsC; pfam03960 342610006651 putative catalytic residues [active] 342610006652 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 342610006653 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 342610006654 metal binding site [ion binding]; metal-binding site 342610006655 dimer interface [polypeptide binding]; other site 342610006656 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 342610006657 hypothetical protein; Provisional; Region: PRK02877 342610006658 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 342610006659 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 342610006660 putative active site [active] 342610006661 Zn binding site [ion binding]; other site 342610006662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006663 metal binding site [ion binding]; metal-binding site 342610006664 active site 342610006665 I-site; other site 342610006666 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 342610006667 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 342610006668 homodimer interface [polypeptide binding]; other site 342610006669 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 342610006670 active site pocket [active] 342610006671 phosphoglucomutase; Validated; Region: PRK07564 342610006672 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 342610006673 active site 342610006674 substrate binding site [chemical binding]; other site 342610006675 metal binding site [ion binding]; metal-binding site 342610006676 SeqA protein; Region: SeqA; pfam03925 342610006677 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 342610006678 FtsJ-like methyltransferase; Region: FtsJ; cl17430 342610006679 Protein of unknown function (DUF423); Region: DUF423; pfam04241 342610006680 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610006681 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 342610006682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610006683 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 342610006684 dimerization interface [polypeptide binding]; other site 342610006685 substrate binding pocket [chemical binding]; other site 342610006686 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 342610006687 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 342610006688 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 342610006689 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 342610006690 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 342610006691 FeS/SAM binding site; other site 342610006692 TRAM domain; Region: TRAM; pfam01938 342610006693 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 342610006694 PhoH-like protein; Region: PhoH; pfam02562 342610006695 metal-binding heat shock protein; Provisional; Region: PRK00016 342610006696 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 342610006697 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 342610006698 Transporter associated domain; Region: CorC_HlyC; smart01091 342610006699 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 342610006700 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 342610006701 putative active site [active] 342610006702 catalytic triad [active] 342610006703 putative dimer interface [polypeptide binding]; other site 342610006704 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 342610006705 EamA-like transporter family; Region: EamA; pfam00892 342610006706 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 342610006707 intracellular protease, PfpI family; Region: PfpI; TIGR01382 342610006708 proposed catalytic triad [active] 342610006709 conserved cys residue [active] 342610006710 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 342610006711 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 342610006712 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 342610006713 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 342610006714 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610006715 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 342610006716 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 342610006717 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610006718 ATP-grasp domain; Region: ATP-grasp_4; cl17255 342610006719 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 342610006720 IMP binding site; other site 342610006721 dimer interface [polypeptide binding]; other site 342610006722 interdomain contacts; other site 342610006723 partial ornithine binding site; other site 342610006724 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 342610006725 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 342610006726 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 342610006727 catalytic site [active] 342610006728 subunit interface [polypeptide binding]; other site 342610006729 dihydrodipicolinate reductase; Provisional; Region: PRK00048 342610006730 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 342610006731 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 342610006732 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 342610006733 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 342610006734 putative DNA binding site [nucleotide binding]; other site 342610006735 putative Zn2+ binding site [ion binding]; other site 342610006736 AsnC family; Region: AsnC_trans_reg; pfam01037 342610006737 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 342610006738 Proline dehydrogenase; Region: Pro_dh; pfam01619 342610006739 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 342610006740 Glutamate binding site [chemical binding]; other site 342610006741 NAD binding site [chemical binding]; other site 342610006742 catalytic residues [active] 342610006743 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 342610006744 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 342610006745 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 342610006746 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 342610006747 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 342610006748 active site residue [active] 342610006749 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 342610006750 active site residue [active] 342610006751 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 342610006752 active site 342610006753 xanthine permease; Region: pbuX; TIGR03173 342610006754 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 342610006755 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 342610006756 active site 342610006757 putative substrate binding pocket [chemical binding]; other site 342610006758 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610006759 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 342610006760 Purine nucleoside permease (NUP); Region: NUP; pfam06516 342610006761 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 342610006762 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 342610006763 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 342610006764 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610006765 carboxyltransferase (CT) interaction site; other site 342610006766 biotinylation site [posttranslational modification]; other site 342610006767 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610006768 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006769 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006770 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006771 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 342610006772 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610006773 active site 342610006774 catalytic tetrad [active] 342610006775 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 342610006776 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610006777 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610006778 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610006779 Protein export membrane protein; Region: SecD_SecF; cl14618 342610006780 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 342610006781 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 342610006782 putative [Fe4-S4] binding site [ion binding]; other site 342610006783 putative molybdopterin cofactor binding site [chemical binding]; other site 342610006784 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 342610006785 putative molybdopterin cofactor binding site; other site 342610006786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 342610006787 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 342610006788 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610006789 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610006790 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610006791 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610006792 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 342610006793 Walker A/P-loop; other site 342610006794 ATP binding site [chemical binding]; other site 342610006795 Q-loop/lid; other site 342610006796 ABC transporter signature motif; other site 342610006797 Walker B; other site 342610006798 D-loop; other site 342610006799 H-loop/switch region; other site 342610006800 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610006801 FtsX-like permease family; Region: FtsX; pfam02687 342610006802 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610006803 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 342610006804 FtsX-like permease family; Region: FtsX; pfam02687 342610006805 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 342610006806 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 342610006807 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 342610006808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006809 metal binding site [ion binding]; metal-binding site 342610006810 active site 342610006811 I-site; other site 342610006812 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 342610006813 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 342610006814 PAS domain; Region: PAS_9; pfam13426 342610006815 putative active site [active] 342610006816 heme pocket [chemical binding]; other site 342610006817 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 342610006818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610006819 dimer interface [polypeptide binding]; other site 342610006820 putative CheW interface [polypeptide binding]; other site 342610006821 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 342610006822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006823 active site 342610006824 phosphorylation site [posttranslational modification] 342610006825 intermolecular recognition site; other site 342610006826 dimerization interface [polypeptide binding]; other site 342610006827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610006828 Zn2+ binding site [ion binding]; other site 342610006829 Mg2+ binding site [ion binding]; other site 342610006830 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 342610006831 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 342610006832 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 342610006833 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 342610006834 PAS domain S-box; Region: sensory_box; TIGR00229 342610006835 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 342610006836 putative active site [active] 342610006837 heme pocket [chemical binding]; other site 342610006838 PAS domain; Region: PAS_9; pfam13426 342610006839 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 342610006840 putative active site [active] 342610006841 heme pocket [chemical binding]; other site 342610006842 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 342610006843 dimer interface [polypeptide binding]; other site 342610006844 phosphorylation site [posttranslational modification] 342610006845 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 342610006846 ATP binding site [chemical binding]; other site 342610006847 Mg2+ binding site [ion binding]; other site 342610006848 G-X-G motif; other site 342610006849 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610006850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006851 active site 342610006852 phosphorylation site [posttranslational modification] 342610006853 intermolecular recognition site; other site 342610006854 dimerization interface [polypeptide binding]; other site 342610006855 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610006856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006857 active site 342610006858 phosphorylation site [posttranslational modification] 342610006859 intermolecular recognition site; other site 342610006860 dimerization interface [polypeptide binding]; other site 342610006861 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 342610006862 DNA binding site [nucleotide binding] 342610006863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610006864 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 342610006865 dimer interface [polypeptide binding]; other site 342610006866 phosphorylation site [posttranslational modification] 342610006867 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 342610006868 ATP binding site [chemical binding]; other site 342610006869 Mg2+ binding site [ion binding]; other site 342610006870 G-X-G motif; other site 342610006871 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610006872 GAF domain; Region: GAF; pfam01590 342610006873 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610006874 GAF domain; Region: GAF; pfam01590 342610006875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610006876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610006877 metal binding site [ion binding]; metal-binding site 342610006878 active site 342610006879 I-site; other site 342610006880 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 342610006881 Transcriptional regulators [Transcription]; Region: MarR; COG1846 342610006882 MarR family; Region: MarR_2; pfam12802 342610006883 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 342610006884 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610006885 active site 342610006886 catalytic tetrad [active] 342610006887 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 342610006888 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610006889 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610006890 hypothetical protein; Provisional; Region: PRK11281 342610006891 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 342610006892 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610006893 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610006894 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 342610006895 N-terminal plug; other site 342610006896 ligand-binding site [chemical binding]; other site 342610006897 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 342610006898 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 342610006899 FAD binding pocket [chemical binding]; other site 342610006900 FAD binding motif [chemical binding]; other site 342610006901 phosphate binding motif [ion binding]; other site 342610006902 NAD binding pocket [chemical binding]; other site 342610006903 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 342610006904 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 342610006905 non-specific DNA binding site [nucleotide binding]; other site 342610006906 salt bridge; other site 342610006907 sequence-specific DNA binding site [nucleotide binding]; other site 342610006908 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 342610006909 putative cation:proton antiport protein; Provisional; Region: PRK10669 342610006910 TrkA-N domain; Region: TrkA_N; pfam02254 342610006911 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 342610006912 metal binding site [ion binding]; metal-binding site 342610006913 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 342610006914 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 342610006915 fructuronate transporter; Provisional; Region: PRK10034; cl15264 342610006916 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 342610006917 homotrimer interaction site [polypeptide binding]; other site 342610006918 putative active site [active] 342610006919 Part of AAA domain; Region: AAA_19; pfam13245 342610006920 Family description; Region: UvrD_C_2; pfam13538 342610006921 Predicted membrane protein [Function unknown]; Region: COG2323 342610006922 UPF0126 domain; Region: UPF0126; pfam03458 342610006923 Predicted membrane protein [Function unknown]; Region: COG2860 342610006924 UPF0126 domain; Region: UPF0126; pfam03458 342610006925 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 342610006926 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 342610006927 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 342610006928 active site 342610006929 substrate binding site [chemical binding]; other site 342610006930 FMN binding site [chemical binding]; other site 342610006931 putative catalytic residues [active] 342610006932 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 342610006933 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 342610006934 N-terminal plug; other site 342610006935 ligand-binding site [chemical binding]; other site 342610006936 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 342610006937 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 342610006938 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 342610006939 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 342610006940 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 342610006941 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610006942 FAD binding domain; Region: FAD_binding_4; pfam01565 342610006943 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 342610006944 4Fe-4S binding domain; Region: Fer4_6; pfam12837 342610006945 Cysteine-rich domain; Region: CCG; pfam02754 342610006946 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 342610006947 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 342610006948 active site 342610006949 substrate-binding site [chemical binding]; other site 342610006950 metal-binding site [ion binding] 342610006951 ATP binding site [chemical binding]; other site 342610006952 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 342610006953 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 342610006954 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610006955 TrkA-N domain; Region: TrkA_N; pfam02254 342610006956 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 342610006957 Ligand Binding Site [chemical binding]; other site 342610006958 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 342610006959 Ligand Binding Site [chemical binding]; other site 342610006960 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 342610006961 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 342610006962 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 342610006963 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 342610006964 Soluble P-type ATPase [General function prediction only]; Region: COG4087 342610006965 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 342610006966 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 342610006967 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 342610006968 FAD binding pocket [chemical binding]; other site 342610006969 FAD binding motif [chemical binding]; other site 342610006970 phosphate binding motif [ion binding]; other site 342610006971 beta-alpha-beta structure motif; other site 342610006972 NAD binding pocket [chemical binding]; other site 342610006973 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 342610006974 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 342610006975 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 342610006976 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610006977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610006978 active site 342610006979 phosphorylation site [posttranslational modification] 342610006980 intermolecular recognition site; other site 342610006981 dimerization interface [polypeptide binding]; other site 342610006982 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 342610006983 DNA binding residues [nucleotide binding] 342610006984 dimerization interface [polypeptide binding]; other site 342610006985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 342610006986 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 342610006987 Histidine kinase; Region: HisKA_3; pfam07730 342610006988 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 342610006989 ATP binding site [chemical binding]; other site 342610006990 Mg2+ binding site [ion binding]; other site 342610006991 G-X-G motif; other site 342610006992 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 342610006993 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 342610006994 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 342610006995 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 342610006996 DctM-like transporters; Region: DctM; pfam06808 342610006997 Gram-negative porin; Region: Porin_4; pfam13609 342610006998 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 342610006999 E-class dimer interface [polypeptide binding]; other site 342610007000 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 342610007001 P-class dimer interface [polypeptide binding]; other site 342610007002 active site 342610007003 Cu2+ binding site [ion binding]; other site 342610007004 Zn2+ binding site [ion binding]; other site 342610007005 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 342610007006 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 342610007007 dimer interface [polypeptide binding]; other site 342610007008 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610007009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610007010 active site 342610007011 phosphorylation site [posttranslational modification] 342610007012 intermolecular recognition site; other site 342610007013 dimerization interface [polypeptide binding]; other site 342610007014 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 342610007015 DNA binding site [nucleotide binding] 342610007016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610007017 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 342610007018 dimer interface [polypeptide binding]; other site 342610007019 phosphorylation site [posttranslational modification] 342610007020 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 342610007021 ATP binding site [chemical binding]; other site 342610007022 Mg2+ binding site [ion binding]; other site 342610007023 G-X-G motif; other site 342610007024 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 342610007025 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610007026 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610007027 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 342610007028 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 342610007029 catalytic loop [active] 342610007030 iron binding site [ion binding]; other site 342610007031 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 342610007032 Cytochrome P450; Region: p450; cl12078 342610007033 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610007034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610007035 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 342610007036 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 342610007037 NAD binding site [chemical binding]; other site 342610007038 catalytic Zn binding site [ion binding]; other site 342610007039 substrate binding site [chemical binding]; other site 342610007040 structural Zn binding site [ion binding]; other site 342610007041 Predicted esterase [General function prediction only]; Region: COG0400 342610007042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 342610007043 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 342610007044 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 342610007045 Catalytic site [active] 342610007046 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 342610007047 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610007048 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610007049 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 342610007050 binding surface 342610007051 TPR motif; other site 342610007052 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610007053 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610007054 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610007055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610007056 metal binding site [ion binding]; metal-binding site 342610007057 active site 342610007058 I-site; other site 342610007059 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 342610007060 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 342610007061 NADP binding site [chemical binding]; other site 342610007062 dimer interface [polypeptide binding]; other site 342610007063 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610007064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610007065 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 342610007066 putative effector binding pocket; other site 342610007067 dimerization interface [polypeptide binding]; other site 342610007068 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610007069 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 342610007070 DNA binding site [nucleotide binding] 342610007071 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_C39G; cd02423 342610007072 putative active site [active] 342610007073 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 342610007074 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610007075 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 342610007076 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 342610007077 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 342610007078 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 342610007079 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 342610007080 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 342610007081 Cupin domain; Region: Cupin_2; pfam07883 342610007082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007083 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 342610007084 NAD(P) binding site [chemical binding]; other site 342610007085 active site 342610007086 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 342610007087 Na binding site [ion binding]; other site 342610007088 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 342610007089 Transcriptional regulator [Transcription]; Region: IclR; COG1414 342610007090 Bacterial transcriptional regulator; Region: IclR; pfam01614 342610007091 Predicted membrane protein [Function unknown]; Region: COG2259 342610007092 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 342610007093 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610007094 active site 342610007095 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 342610007096 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610007097 putative substrate translocation pore; other site 342610007098 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 342610007099 DEAD-like helicases superfamily; Region: DEXDc; smart00487 342610007100 ATP binding site [chemical binding]; other site 342610007101 Mg++ binding site [ion binding]; other site 342610007102 motif III; other site 342610007103 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 342610007104 nucleotide binding region [chemical binding]; other site 342610007105 ATP-binding site [chemical binding]; other site 342610007106 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610007107 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610007108 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 342610007109 dimerization interface [polypeptide binding]; other site 342610007110 substrate binding pocket [chemical binding]; other site 342610007111 hypothetical protein; Provisional; Region: PRK06208 342610007112 intersubunit interface [polypeptide binding]; other site 342610007113 active site 342610007114 Zn2+ binding site [ion binding]; other site 342610007115 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 342610007116 putative active site [active] 342610007117 Zn binding site [ion binding]; other site 342610007118 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 342610007119 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 342610007120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 342610007121 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 342610007122 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 342610007123 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610007124 substrate binding pocket [chemical binding]; other site 342610007125 membrane-bound complex binding site; other site 342610007126 hinge residues; other site 342610007127 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 342610007128 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 342610007129 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 342610007130 putative active site [active] 342610007131 putative catalytic site [active] 342610007132 Putative esterase; Region: Esterase; pfam00756 342610007133 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 342610007134 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 342610007135 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610007136 active site 342610007137 catalytic site [active] 342610007138 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 342610007139 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 342610007140 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 342610007141 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610007142 GAF domain; Region: GAF; pfam01590 342610007143 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 342610007144 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 342610007145 active site 342610007146 DNA binding site [nucleotide binding] 342610007147 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 342610007148 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 342610007149 Catalytic site [active] 342610007150 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 342610007151 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 342610007152 active site 342610007153 catalytic site [active] 342610007154 substrate binding site [chemical binding]; other site 342610007155 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 342610007156 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 342610007157 HPP family; Region: HPP; pfam04982 342610007158 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 342610007159 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 342610007160 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 342610007161 active site 342610007162 interdomain interaction site; other site 342610007163 putative metal-binding site [ion binding]; other site 342610007164 nucleotide binding site [chemical binding]; other site 342610007165 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 342610007166 domain I; other site 342610007167 DNA binding groove [nucleotide binding] 342610007168 phosphate binding site [ion binding]; other site 342610007169 domain II; other site 342610007170 domain III; other site 342610007171 nucleotide binding site [chemical binding]; other site 342610007172 catalytic site [active] 342610007173 domain IV; other site 342610007174 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610007175 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 342610007176 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 342610007177 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 342610007178 succinylarginine dihydrolase; Provisional; Region: PRK13281 342610007179 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 342610007180 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 342610007181 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 342610007182 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 342610007183 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610007184 FtsX-like permease family; Region: FtsX; pfam02687 342610007185 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 342610007186 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 342610007187 Walker A/P-loop; other site 342610007188 ATP binding site [chemical binding]; other site 342610007189 Q-loop/lid; other site 342610007190 ABC transporter signature motif; other site 342610007191 Walker B; other site 342610007192 D-loop; other site 342610007193 H-loop/switch region; other site 342610007194 Domain of unknown function DUF21; Region: DUF21; pfam01595 342610007195 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 342610007196 TIGR03503 family protein; Region: TIGR03503 342610007197 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 342610007198 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 342610007199 active site 342610007200 catalytic site [active] 342610007201 substrate binding site [chemical binding]; other site 342610007202 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 342610007203 RNA/DNA hybrid binding site [nucleotide binding]; other site 342610007204 active site 342610007205 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007206 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 342610007207 protease 4; Provisional; Region: PRK10949 342610007208 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 342610007209 tandem repeat interface [polypeptide binding]; other site 342610007210 oligomer interface [polypeptide binding]; other site 342610007211 active site residues [active] 342610007212 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 342610007213 tandem repeat interface [polypeptide binding]; other site 342610007214 oligomer interface [polypeptide binding]; other site 342610007215 active site residues [active] 342610007216 hypothetical protein; Provisional; Region: PRK04860 342610007217 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 342610007218 Protein of unknown function, DUF412; Region: DUF412; pfam04217 342610007219 thioredoxin reductase; Provisional; Region: PRK10262 342610007220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610007221 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610007222 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 342610007223 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 342610007224 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 342610007225 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 342610007226 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 342610007227 rRNA binding site [nucleotide binding]; other site 342610007228 predicted 30S ribosome binding site; other site 342610007229 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 342610007230 Clp amino terminal domain; Region: Clp_N; pfam02861 342610007231 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 342610007232 Walker A motif; other site 342610007233 ATP binding site [chemical binding]; other site 342610007234 Walker B motif; other site 342610007235 arginine finger; other site 342610007236 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 342610007237 Walker A motif; other site 342610007238 ATP binding site [chemical binding]; other site 342610007239 Walker B motif; other site 342610007240 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 342610007241 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 342610007242 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 342610007243 DNA-binding site [nucleotide binding]; DNA binding site 342610007244 RNA-binding motif; other site 342610007245 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 342610007246 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 342610007247 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 342610007248 pseudouridine synthase; Region: TIGR00093 342610007249 active site 342610007250 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 342610007251 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 342610007252 putative lysogenization regulator; Reviewed; Region: PRK00218 342610007253 adenylosuccinate lyase; Provisional; Region: PRK09285 342610007254 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 342610007255 tetramer interface [polypeptide binding]; other site 342610007256 active site 342610007257 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 342610007258 cyclase homology domain; Region: CHD; cd07302 342610007259 nucleotidyl binding site; other site 342610007260 metal binding site [ion binding]; metal-binding site 342610007261 dimer interface [polypeptide binding]; other site 342610007262 Uncharacterized conserved protein [Function unknown]; Region: COG2850 342610007263 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 342610007264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610007265 active site 342610007266 phosphorylation site [posttranslational modification] 342610007267 intermolecular recognition site; other site 342610007268 dimerization interface [polypeptide binding]; other site 342610007269 LytTr DNA-binding domain; Region: LytTR; smart00850 342610007270 Histidine kinase; Region: His_kinase; pfam06580 342610007271 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 342610007272 ATP binding site [chemical binding]; other site 342610007273 Mg2+ binding site [ion binding]; other site 342610007274 G-X-G motif; other site 342610007275 Protein of unknown function (DUF962); Region: DUF962; cl01879 342610007276 Flagellar protein YcgR; Region: YcgR_2; pfam12945 342610007277 PilZ domain; Region: PilZ; pfam07238 342610007278 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 342610007279 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 342610007280 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 342610007281 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 342610007282 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 342610007283 active site 342610007284 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 342610007285 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 342610007286 putative NAD(P) binding site [chemical binding]; other site 342610007287 putative substrate binding site [chemical binding]; other site 342610007288 catalytic Zn binding site [ion binding]; other site 342610007289 structural Zn binding site [ion binding]; other site 342610007290 dimer interface [polypeptide binding]; other site 342610007291 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 342610007292 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 342610007293 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610007294 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 342610007295 Outer membrane efflux protein; Region: OEP; pfam02321 342610007296 Outer membrane efflux protein; Region: OEP; pfam02321 342610007297 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 342610007298 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 342610007299 hypothetical protein; Provisional; Region: PRK11019 342610007300 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 342610007301 Bacterial SH3 domain; Region: SH3_3; cl17532 342610007302 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 342610007303 Predicted amidohydrolase [General function prediction only]; Region: COG0388 342610007304 putative active site [active] 342610007305 catalytic triad [active] 342610007306 putative dimer interface [polypeptide binding]; other site 342610007307 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 342610007308 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 342610007309 active site 342610007310 FMN binding site [chemical binding]; other site 342610007311 2,4-decadienoyl-CoA binding site; other site 342610007312 catalytic residue [active] 342610007313 4Fe-4S cluster binding site [ion binding]; other site 342610007314 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 342610007315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610007316 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 342610007317 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610007318 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 342610007319 N-terminal plug; other site 342610007320 ligand-binding site [chemical binding]; other site 342610007321 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 342610007322 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610007323 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 342610007324 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 342610007325 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610007326 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610007327 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610007328 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 342610007329 Walker A/P-loop; other site 342610007330 ATP binding site [chemical binding]; other site 342610007331 Q-loop/lid; other site 342610007332 ABC transporter signature motif; other site 342610007333 Walker B; other site 342610007334 D-loop; other site 342610007335 H-loop/switch region; other site 342610007336 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610007337 FtsX-like permease family; Region: FtsX; pfam02687 342610007338 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610007339 FtsX-like permease family; Region: FtsX; pfam02687 342610007340 Predicted membrane protein [Function unknown]; Region: COG2119 342610007341 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 342610007342 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 342610007343 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610007344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 342610007345 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 342610007346 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 342610007347 Walker A/P-loop; other site 342610007348 ATP binding site [chemical binding]; other site 342610007349 Q-loop/lid; other site 342610007350 ABC transporter signature motif; other site 342610007351 Walker B; other site 342610007352 D-loop; other site 342610007353 H-loop/switch region; other site 342610007354 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 342610007355 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 342610007356 dimer interface [polypeptide binding]; other site 342610007357 conserved gate region; other site 342610007358 putative PBP binding loops; other site 342610007359 ABC-ATPase subunit interface; other site 342610007360 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 342610007361 NMT1-like family; Region: NMT1_2; pfam13379 342610007362 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 342610007363 active site 342610007364 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 342610007365 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610007366 active site 342610007367 ATP binding site [chemical binding]; other site 342610007368 substrate binding site [chemical binding]; other site 342610007369 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 342610007370 substrate binding site [chemical binding]; other site 342610007371 activation loop (A-loop); other site 342610007372 activation loop (A-loop); other site 342610007373 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 342610007374 putative substrate translocation pore; other site 342610007375 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 342610007376 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 342610007377 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 342610007378 active site 342610007379 purine riboside binding site [chemical binding]; other site 342610007380 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 342610007381 Sulfate transporter family; Region: Sulfate_transp; pfam00916 342610007382 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 342610007383 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 342610007384 active site 342610007385 catalytic site [active] 342610007386 tetramer interface [polypeptide binding]; other site 342610007387 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 342610007388 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610007389 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 342610007390 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 342610007391 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 342610007392 catalytic loop [active] 342610007393 iron binding site [ion binding]; other site 342610007394 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610007395 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 342610007396 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 342610007397 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 342610007398 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007399 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 342610007400 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 342610007401 XdhC Rossmann domain; Region: XdhC_C; pfam13478 342610007402 putative OHCU decarboxylase; Provisional; Region: PRK13798 342610007403 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 342610007404 active site 342610007405 homotetramer interface [polypeptide binding]; other site 342610007406 guanine deaminase; Provisional; Region: PRK09228 342610007407 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 342610007408 active site 342610007409 Protein of unknown function (DUF989); Region: DUF989; pfam06181 342610007410 Predicted membrane protein [Function unknown]; Region: COG3748 342610007411 Cytochrome c; Region: Cytochrom_C; pfam00034 342610007412 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 342610007413 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 342610007414 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610007415 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 342610007416 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 342610007417 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 342610007418 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 342610007419 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 342610007420 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 342610007421 NADP binding site [chemical binding]; other site 342610007422 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 342610007423 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 342610007424 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 342610007425 ATP binding site [chemical binding]; other site 342610007426 Mg++ binding site [ion binding]; other site 342610007427 motif III; other site 342610007428 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 342610007429 nucleotide binding region [chemical binding]; other site 342610007430 ATP-binding site [chemical binding]; other site 342610007431 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 342610007432 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 342610007433 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 342610007434 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 342610007435 Uncharacterized conserved protein [Function unknown]; Region: COG0397 342610007436 hypothetical protein; Validated; Region: PRK00029 342610007437 hypothetical protein; Validated; Region: PRK00029 342610007438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 342610007439 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 342610007440 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 342610007441 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 342610007442 GIY-YIG motif/motif A; other site 342610007443 active site 342610007444 catalytic site [active] 342610007445 putative DNA binding site [nucleotide binding]; other site 342610007446 metal binding site [ion binding]; metal-binding site 342610007447 UvrB/uvrC motif; Region: UVR; pfam02151 342610007448 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 342610007449 response regulator; Provisional; Region: PRK09483 342610007450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610007451 active site 342610007452 phosphorylation site [posttranslational modification] 342610007453 intermolecular recognition site; other site 342610007454 dimerization interface [polypeptide binding]; other site 342610007455 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 342610007456 DNA binding residues [nucleotide binding] 342610007457 dimerization interface [polypeptide binding]; other site 342610007458 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 342610007459 YccA-like proteins; Region: YccA_like; cd10433 342610007460 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 342610007461 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 342610007462 DsrH like protein; Region: DsrH; cl17347 342610007463 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 342610007464 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 342610007465 seryl-tRNA synthetase; Provisional; Region: PRK05431 342610007466 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 342610007467 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 342610007468 dimer interface [polypeptide binding]; other site 342610007469 active site 342610007470 motif 1; other site 342610007471 motif 2; other site 342610007472 motif 3; other site 342610007473 CrcB-like protein; Region: CRCB; cl09114 342610007474 recombination factor protein RarA; Reviewed; Region: PRK13342 342610007475 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 342610007476 Walker A motif; other site 342610007477 ATP binding site [chemical binding]; other site 342610007478 Walker B motif; other site 342610007479 arginine finger; other site 342610007480 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 342610007481 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 342610007482 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 342610007483 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 342610007484 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 342610007485 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 342610007486 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 342610007487 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 342610007488 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 342610007489 putative DNA binding site [nucleotide binding]; other site 342610007490 putative Zn2+ binding site [ion binding]; other site 342610007491 AsnC family; Region: AsnC_trans_reg; pfam01037 342610007492 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 342610007493 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 342610007494 hexamer interface [polypeptide binding]; other site 342610007495 ligand binding site [chemical binding]; other site 342610007496 putative active site [active] 342610007497 NAD(P) binding site [chemical binding]; other site 342610007498 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 342610007499 active site 342610007500 dimer interface [polypeptide binding]; other site 342610007501 tetratricopeptide repeat protein; Provisional; Region: PRK11788 342610007502 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 342610007503 binding surface 342610007504 TPR motif; other site 342610007505 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 342610007506 binding surface 342610007507 TPR motif; other site 342610007508 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 342610007509 binding surface 342610007510 TPR motif; other site 342610007511 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 342610007512 IHF dimer interface [polypeptide binding]; other site 342610007513 IHF - DNA interface [nucleotide binding]; other site 342610007514 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 342610007515 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 342610007516 RNA binding site [nucleotide binding]; other site 342610007517 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 342610007518 RNA binding site [nucleotide binding]; other site 342610007519 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 342610007520 RNA binding site [nucleotide binding]; other site 342610007521 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 342610007522 RNA binding site [nucleotide binding]; other site 342610007523 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 342610007524 RNA binding site [nucleotide binding]; other site 342610007525 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 342610007526 RNA binding site [nucleotide binding]; other site 342610007527 cytidylate kinase; Provisional; Region: cmk; PRK00023 342610007528 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 342610007529 CMP-binding site; other site 342610007530 The sites determining sugar specificity; other site 342610007531 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 342610007532 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 342610007533 hinge; other site 342610007534 active site 342610007535 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 342610007536 homodimer interface [polypeptide binding]; other site 342610007537 substrate-cofactor binding pocket; other site 342610007538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610007539 catalytic residue [active] 342610007540 DNA gyrase subunit A; Validated; Region: PRK05560 342610007541 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 342610007542 CAP-like domain; other site 342610007543 active site 342610007544 primary dimer interface [polypeptide binding]; other site 342610007545 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007546 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007547 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007548 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007549 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007550 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 342610007551 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 342610007552 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 342610007553 S-adenosylmethionine binding site [chemical binding]; other site 342610007554 phosphoglycolate phosphatase; Provisional; Region: PRK13226 342610007555 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 342610007556 motif II; other site 342610007557 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 342610007558 ATP cone domain; Region: ATP-cone; pfam03477 342610007559 Class I ribonucleotide reductase; Region: RNR_I; cd01679 342610007560 active site 342610007561 dimer interface [polypeptide binding]; other site 342610007562 catalytic residues [active] 342610007563 effector binding site; other site 342610007564 R2 peptide binding site; other site 342610007565 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 342610007566 dimer interface [polypeptide binding]; other site 342610007567 putative radical transfer pathway; other site 342610007568 diiron center [ion binding]; other site 342610007569 tyrosyl radical; other site 342610007570 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 342610007571 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 342610007572 catalytic loop [active] 342610007573 iron binding site [ion binding]; other site 342610007574 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 342610007575 ATP binding site [chemical binding]; other site 342610007576 active site 342610007577 substrate binding site [chemical binding]; other site 342610007578 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 342610007579 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 342610007580 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 342610007581 dihydrodipicolinate synthase; Region: dapA; TIGR00674 342610007582 dimer interface [polypeptide binding]; other site 342610007583 active site 342610007584 catalytic residue [active] 342610007585 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 342610007586 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 342610007587 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 342610007588 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 342610007589 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 342610007590 catalytic triad [active] 342610007591 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 342610007592 Domain of unknown function DUF20; Region: UPF0118; pfam01594 342610007593 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 342610007594 Peptidase family M48; Region: Peptidase_M48; pfam01435 342610007595 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 342610007596 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610007597 catalytic residues [active] 342610007598 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 342610007599 ArsC family; Region: ArsC; pfam03960 342610007600 catalytic residues [active] 342610007601 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 342610007602 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 342610007603 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 342610007604 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 342610007605 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 342610007606 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 342610007607 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 342610007608 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 342610007609 dimerization interface [polypeptide binding]; other site 342610007610 putative ATP binding site [chemical binding]; other site 342610007611 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 342610007612 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 342610007613 active site 342610007614 substrate binding site [chemical binding]; other site 342610007615 cosubstrate binding site; other site 342610007616 catalytic site [active] 342610007617 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 342610007618 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 342610007619 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 342610007620 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 342610007621 active site 342610007622 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 342610007623 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 342610007624 IHF dimer interface [polypeptide binding]; other site 342610007625 IHF - DNA interface [nucleotide binding]; other site 342610007626 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 342610007627 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 342610007628 putative tRNA-binding site [nucleotide binding]; other site 342610007629 B3/4 domain; Region: B3_4; pfam03483 342610007630 tRNA synthetase B5 domain; Region: B5; smart00874 342610007631 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 342610007632 dimer interface [polypeptide binding]; other site 342610007633 motif 1; other site 342610007634 motif 3; other site 342610007635 motif 2; other site 342610007636 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 342610007637 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 342610007638 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 342610007639 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 342610007640 dimer interface [polypeptide binding]; other site 342610007641 motif 1; other site 342610007642 active site 342610007643 motif 2; other site 342610007644 motif 3; other site 342610007645 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 342610007646 23S rRNA binding site [nucleotide binding]; other site 342610007647 L21 binding site [polypeptide binding]; other site 342610007648 L13 binding site [polypeptide binding]; other site 342610007649 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 342610007650 translation initiation factor IF-3; Region: infC; TIGR00168 342610007651 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 342610007652 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 342610007653 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 342610007654 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 342610007655 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 342610007656 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 342610007657 active site 342610007658 dimer interface [polypeptide binding]; other site 342610007659 motif 1; other site 342610007660 motif 2; other site 342610007661 motif 3; other site 342610007662 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 342610007663 anticodon binding site; other site 342610007664 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 342610007665 putative lipid binding site [chemical binding]; other site 342610007666 pteridine reductase; Provisional; Region: PRK09135 342610007667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610007668 NAD(P) binding site [chemical binding]; other site 342610007669 active site 342610007670 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 342610007671 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 342610007672 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 342610007673 active site 342610007674 catalytic site [active] 342610007675 substrate binding site [chemical binding]; other site 342610007676 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 342610007677 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 342610007678 ligand binding site [chemical binding]; other site 342610007679 flexible hinge region; other site 342610007680 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 342610007681 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610007682 metal binding triad; other site 342610007683 BCCT family transporter; Region: BCCT; pfam02028 342610007684 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 342610007685 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 342610007686 Uncharacterized conserved protein [Function unknown]; Region: COG3603 342610007687 Family description; Region: ACT_7; pfam13840 342610007688 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 342610007689 HPr interaction site; other site 342610007690 glycerol kinase (GK) interaction site [polypeptide binding]; other site 342610007691 active site 342610007692 phosphorylation site [posttranslational modification] 342610007693 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 342610007694 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007695 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 342610007696 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007697 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 342610007698 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 342610007699 catalytic loop [active] 342610007700 iron binding site [ion binding]; other site 342610007701 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610007702 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 342610007703 Ligand binding site; other site 342610007704 metal-binding site 342610007705 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 342610007706 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 342610007707 XdhC Rossmann domain; Region: XdhC_C; pfam13478 342610007708 RDD family; Region: RDD; pfam06271 342610007709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 342610007710 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 342610007711 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 342610007712 Walker A motif; other site 342610007713 ATP binding site [chemical binding]; other site 342610007714 Walker B motif; other site 342610007715 arginine finger; other site 342610007716 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 342610007717 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 342610007718 dimer interface [polypeptide binding]; other site 342610007719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610007720 catalytic residue [active] 342610007721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 342610007722 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 342610007723 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 342610007724 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 342610007725 FOG: CBS domain [General function prediction only]; Region: COG0517 342610007726 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 342610007727 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 342610007728 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 342610007729 elongation factor P; Provisional; Region: PRK04542 342610007730 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 342610007731 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 342610007732 RNA binding site [nucleotide binding]; other site 342610007733 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 342610007734 RNA binding site [nucleotide binding]; other site 342610007735 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 342610007736 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610007737 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 342610007738 catalytic residues [active] 342610007739 dimer interface [polypeptide binding]; other site 342610007740 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 342610007741 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 342610007742 NMT1-like family; Region: NMT1_2; pfam13379 342610007743 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 342610007744 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 342610007745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610007746 active site 342610007747 phosphorylation site [posttranslational modification] 342610007748 intermolecular recognition site; other site 342610007749 dimerization interface [polypeptide binding]; other site 342610007750 ANTAR domain; Region: ANTAR; pfam03861 342610007751 hypothetical protein; Validated; Region: PRK09071 342610007752 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 342610007753 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 342610007754 active site 342610007755 SAM binding site [chemical binding]; other site 342610007756 homodimer interface [polypeptide binding]; other site 342610007757 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 342610007758 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 342610007759 [4Fe-4S] binding site [ion binding]; other site 342610007760 molybdopterin cofactor binding site; other site 342610007761 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 342610007762 molybdopterin cofactor binding site; other site 342610007763 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 342610007764 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 342610007765 nitrite reductase subunit NirD; Provisional; Region: PRK14989 342610007766 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 342610007767 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 342610007768 TraB family; Region: TraB; pfam01963 342610007769 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 342610007770 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 342610007771 ATP binding site [chemical binding]; other site 342610007772 substrate interface [chemical binding]; other site 342610007773 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 342610007774 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 342610007775 dimer interface [polypeptide binding]; other site 342610007776 putative functional site; other site 342610007777 putative MPT binding site; other site 342610007778 multidrug efflux protein; Reviewed; Region: PRK01766 342610007779 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 342610007780 cation binding site [ion binding]; other site 342610007781 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610007782 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610007783 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 342610007784 substrate binding pocket [chemical binding]; other site 342610007785 membrane-bound complex binding site; other site 342610007786 hinge residues; other site 342610007787 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 342610007788 LysE type translocator; Region: LysE; cl00565 342610007789 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 342610007790 dimer interface [polypeptide binding]; other site 342610007791 phosphorylation site [posttranslational modification] 342610007792 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 342610007793 ATP binding site [chemical binding]; other site 342610007794 Mg2+ binding site [ion binding]; other site 342610007795 G-X-G motif; other site 342610007796 Response regulator receiver domain; Region: Response_reg; pfam00072 342610007797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610007798 active site 342610007799 phosphorylation site [posttranslational modification] 342610007800 intermolecular recognition site; other site 342610007801 dimerization interface [polypeptide binding]; other site 342610007802 SapC; Region: SapC; pfam07277 342610007803 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610007804 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610007805 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 342610007806 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 342610007807 Transcriptional regulators [Transcription]; Region: GntR; COG1802 342610007808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610007809 DNA-binding site [nucleotide binding]; DNA binding site 342610007810 FCD domain; Region: FCD; pfam07729 342610007811 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 342610007812 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 342610007813 active site pocket [active] 342610007814 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 342610007815 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 342610007816 NAD(P) binding site [chemical binding]; other site 342610007817 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 342610007818 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 342610007819 NADP binding site [chemical binding]; other site 342610007820 homodimer interface [polypeptide binding]; other site 342610007821 active site 342610007822 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 342610007823 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610007824 NAD binding site [chemical binding]; other site 342610007825 catalytic residues [active] 342610007826 substrate binding site [chemical binding]; other site 342610007827 AAA domain; Region: AAA_26; pfam13500 342610007828 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 342610007829 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 342610007830 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 342610007831 S-adenosylmethionine binding site [chemical binding]; other site 342610007832 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 342610007833 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 342610007834 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610007835 catalytic residue [active] 342610007836 biotin synthase; Provisional; Region: PRK15108 342610007837 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 342610007838 FeS/SAM binding site; other site 342610007839 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 342610007840 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 342610007841 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 342610007842 inhibitor-cofactor binding pocket; inhibition site 342610007843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610007844 catalytic residue [active] 342610007845 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 342610007846 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 342610007847 TPR motif; other site 342610007848 binding surface 342610007849 Tetratricopeptide repeat; Region: TPR_9; pfam13371 342610007850 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 342610007851 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610007852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610007853 active site 342610007854 phosphorylation site [posttranslational modification] 342610007855 intermolecular recognition site; other site 342610007856 dimerization interface [polypeptide binding]; other site 342610007857 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 342610007858 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610007859 Zn2+ binding site [ion binding]; other site 342610007860 Mg2+ binding site [ion binding]; other site 342610007861 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 342610007862 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 342610007863 peptide chain release factor 1; Validated; Region: prfA; PRK00591 342610007864 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 342610007865 This domain is found in peptide chain release factors; Region: PCRF; smart00937 342610007866 RF-1 domain; Region: RF-1; pfam00472 342610007867 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 342610007868 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 342610007869 tRNA; other site 342610007870 putative tRNA binding site [nucleotide binding]; other site 342610007871 putative NADP binding site [chemical binding]; other site 342610007872 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 342610007873 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 342610007874 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 342610007875 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 342610007876 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 342610007877 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 342610007878 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 342610007879 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610007880 active site 342610007881 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 342610007882 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610007883 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 342610007884 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 342610007885 5S rRNA interface [nucleotide binding]; other site 342610007886 CTC domain interface [polypeptide binding]; other site 342610007887 L16 interface [polypeptide binding]; other site 342610007888 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 342610007889 putative active site [active] 342610007890 catalytic residue [active] 342610007891 GTP-binding protein YchF; Reviewed; Region: PRK09601 342610007892 YchF GTPase; Region: YchF; cd01900 342610007893 G1 box; other site 342610007894 GTP/Mg2+ binding site [chemical binding]; other site 342610007895 Switch I region; other site 342610007896 G2 box; other site 342610007897 Switch II region; other site 342610007898 G3 box; other site 342610007899 G4 box; other site 342610007900 G5 box; other site 342610007901 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 342610007902 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 342610007903 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 342610007904 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 342610007905 amino acid carrier protein; Region: agcS; TIGR00835 342610007906 Predicted flavoprotein [General function prediction only]; Region: COG0431 342610007907 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 342610007908 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610007909 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 342610007910 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 342610007911 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610007912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610007913 active site 342610007914 phosphorylation site [posttranslational modification] 342610007915 intermolecular recognition site; other site 342610007916 dimerization interface [polypeptide binding]; other site 342610007917 PAS domain S-box; Region: sensory_box; TIGR00229 342610007918 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 342610007919 putative active site [active] 342610007920 heme pocket [chemical binding]; other site 342610007921 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610007922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610007923 metal binding site [ion binding]; metal-binding site 342610007924 active site 342610007925 I-site; other site 342610007926 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 342610007927 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 342610007928 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 342610007929 active site 342610007930 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610007931 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 342610007932 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 342610007933 BCCT family transporter; Region: BCCT; cl00569 342610007934 choline dehydrogenase; Validated; Region: PRK02106 342610007935 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610007936 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 342610007937 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 342610007938 NAD(P) binding site [chemical binding]; other site 342610007939 catalytic residues [active] 342610007940 transcriptional regulator BetI; Validated; Region: PRK00767 342610007941 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610007942 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 342610007943 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 342610007944 propionate/acetate kinase; Provisional; Region: PRK12379 342610007945 phosphate acetyltransferase; Reviewed; Region: PRK05632 342610007946 DRTGG domain; Region: DRTGG; pfam07085 342610007947 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 342610007948 6-phosphofructokinase; Provisional; Region: PRK03202 342610007949 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 342610007950 active site 342610007951 ADP/pyrophosphate binding site [chemical binding]; other site 342610007952 dimerization interface [polypeptide binding]; other site 342610007953 allosteric effector site; other site 342610007954 fructose-1,6-bisphosphate binding site; other site 342610007955 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 342610007956 catalytic core [active] 342610007957 phosphoenolpyruvate synthase; Validated; Region: PRK06464 342610007958 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 342610007959 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 342610007960 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 342610007961 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 342610007962 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 342610007963 Cl- selectivity filter; other site 342610007964 Cl- binding residues [ion binding]; other site 342610007965 pore gating glutamate residue; other site 342610007966 dimer interface [polypeptide binding]; other site 342610007967 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 342610007968 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 342610007969 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 342610007970 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610007971 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 342610007972 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 342610007973 ATP binding site [chemical binding]; other site 342610007974 putative Mg++ binding site [ion binding]; other site 342610007975 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 342610007976 nucleotide binding region [chemical binding]; other site 342610007977 ATP-binding site [chemical binding]; other site 342610007978 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 342610007979 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 342610007980 catalytic loop [active] 342610007981 iron binding site [ion binding]; other site 342610007982 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610007983 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007984 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 342610007985 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 342610007986 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610007987 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 342610007988 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 342610007989 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 342610007990 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 342610007991 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 342610007992 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 342610007993 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 342610007994 putative substrate binding pocket [chemical binding]; other site 342610007995 trimer interface [polypeptide binding]; other site 342610007996 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 342610007997 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 342610007998 active site 342610007999 nucleophile elbow; other site 342610008000 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610008001 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610008002 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 342610008003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610008004 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 342610008005 putative DNA binding site [nucleotide binding]; other site 342610008006 putative Zn2+ binding site [ion binding]; other site 342610008007 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 342610008008 dimerization interface [polypeptide binding]; other site 342610008009 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 342610008010 short chain dehydrogenase; Provisional; Region: PRK07041 342610008011 putative NAD(P) binding site [chemical binding]; other site 342610008012 homodimer interface [polypeptide binding]; other site 342610008013 Putative addiction module component; Region: Unstab_antitox; pfam09720 342610008014 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 342610008015 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; cl03075 342610008016 dimer interface [polypeptide binding]; other site 342610008017 Helix-turn-helix domain; Region: HTH_18; pfam12833 342610008018 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 342610008019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610008020 Uncharacterized conserved protein [Function unknown]; Region: COG2128 342610008021 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 342610008022 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 342610008023 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 342610008024 [2Fe-2S] cluster binding site [ion binding]; other site 342610008025 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_3; cd08887 342610008026 putative alpha subunit interface [polypeptide binding]; other site 342610008027 putative active site [active] 342610008028 putative substrate binding site [chemical binding]; other site 342610008029 Fe binding site [ion binding]; other site 342610008030 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 342610008031 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 342610008032 DNA-binding site [nucleotide binding]; DNA binding site 342610008033 RNA-binding motif; other site 342610008034 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 342610008035 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 342610008036 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 342610008037 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 342610008038 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610008039 dimer interface [polypeptide binding]; other site 342610008040 active site 342610008041 metal binding site [ion binding]; metal-binding site 342610008042 glutathione binding site [chemical binding]; other site 342610008043 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610008044 Coenzyme A binding pocket [chemical binding]; other site 342610008045 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 342610008046 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 342610008047 putative NAD(P) binding site [chemical binding]; other site 342610008048 dimer interface [polypeptide binding]; other site 342610008049 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610008050 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610008051 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 342610008052 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 342610008053 NADP binding site [chemical binding]; other site 342610008054 dimer interface [polypeptide binding]; other site 342610008055 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 342610008056 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 342610008057 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 342610008058 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 342610008059 active site 342610008060 intersubunit interface [polypeptide binding]; other site 342610008061 catalytic residue [active] 342610008062 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610008063 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 342610008064 substrate binding site [chemical binding]; other site 342610008065 ATP binding site [chemical binding]; other site 342610008066 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 342610008067 D-galactonate transporter; Region: 2A0114; TIGR00893 342610008068 putative substrate translocation pore; other site 342610008069 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 342610008070 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 342610008071 active site pocket [active] 342610008072 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610008073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008074 DNA-binding site [nucleotide binding]; DNA binding site 342610008075 FCD domain; Region: FCD; pfam07729 342610008076 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 342610008077 putative catalytic site [active] 342610008078 putative phosphate binding site [ion binding]; other site 342610008079 active site 342610008080 metal binding site A [ion binding]; metal-binding site 342610008081 DNA binding site [nucleotide binding] 342610008082 putative AP binding site [nucleotide binding]; other site 342610008083 putative metal binding site B [ion binding]; other site 342610008084 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 342610008085 Predicted membrane protein [Function unknown]; Region: COG3235 342610008086 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 342610008087 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 342610008088 potential catalytic triad [active] 342610008089 conserved cys residue [active] 342610008090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610008091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610008092 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 342610008093 putative effector binding pocket; other site 342610008094 dimerization interface [polypeptide binding]; other site 342610008095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610008096 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610008097 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610008098 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 342610008099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610008100 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 342610008101 active site 342610008102 metal binding site [ion binding]; metal-binding site 342610008103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610008104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610008105 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 342610008106 dimerization interface [polypeptide binding]; other site 342610008107 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 342610008108 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 342610008109 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610008110 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610008111 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 342610008112 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 342610008113 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 342610008114 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 342610008115 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 342610008116 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 342610008117 Walker A/P-loop; other site 342610008118 ATP binding site [chemical binding]; other site 342610008119 Q-loop/lid; other site 342610008120 ABC transporter signature motif; other site 342610008121 Walker B; other site 342610008122 D-loop; other site 342610008123 H-loop/switch region; other site 342610008124 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 342610008125 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610008126 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610008127 HAMP domain; Region: HAMP; pfam00672 342610008128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610008129 metal binding site [ion binding]; metal-binding site 342610008130 active site 342610008131 I-site; other site 342610008132 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 342610008133 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 342610008134 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610008135 GAF domain; Region: GAF; pfam01590 342610008136 PAS domain; Region: PAS_9; pfam13426 342610008137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610008138 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 342610008139 dimer interface [polypeptide binding]; other site 342610008140 phosphorylation site [posttranslational modification] 342610008141 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 342610008142 ATP binding site [chemical binding]; other site 342610008143 Mg2+ binding site [ion binding]; other site 342610008144 G-X-G motif; other site 342610008145 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610008146 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610008147 active site 342610008148 phosphorylation site [posttranslational modification] 342610008149 intermolecular recognition site; other site 342610008150 dimerization interface [polypeptide binding]; other site 342610008151 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610008152 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610008153 metal binding site [ion binding]; metal-binding site 342610008154 active site 342610008155 I-site; other site 342610008156 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 342610008157 D-cysteine desulfhydrase; Validated; Region: PRK03910 342610008158 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 342610008159 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610008160 catalytic residue [active] 342610008161 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 342610008162 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 342610008163 oligomer interface [polypeptide binding]; other site 342610008164 metal binding site [ion binding]; metal-binding site 342610008165 metal binding site [ion binding]; metal-binding site 342610008166 Cl binding site [ion binding]; other site 342610008167 aspartate ring; other site 342610008168 basic sphincter; other site 342610008169 putative hydrophobic gate; other site 342610008170 periplasmic entrance; other site 342610008171 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 342610008172 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 342610008173 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 342610008174 alpha subunit interaction interface [polypeptide binding]; other site 342610008175 Walker A motif; other site 342610008176 ATP binding site [chemical binding]; other site 342610008177 Walker B motif; other site 342610008178 inhibitor binding site; inhibition site 342610008179 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610008180 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 342610008181 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 342610008182 gamma subunit interface [polypeptide binding]; other site 342610008183 epsilon subunit interface [polypeptide binding]; other site 342610008184 LBP interface [polypeptide binding]; other site 342610008185 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 342610008186 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 342610008187 alternate F1F0 ATPase, F0 subunit A; Region: altF1_A; TIGR03306 342610008188 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 342610008189 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 342610008190 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 342610008191 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 342610008192 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 342610008193 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 342610008194 Walker A motif; other site 342610008195 ATP binding site [chemical binding]; other site 342610008196 Walker B motif; other site 342610008197 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610008198 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 342610008199 core domain interface [polypeptide binding]; other site 342610008200 delta subunit interface [polypeptide binding]; other site 342610008201 epsilon subunit interface [polypeptide binding]; other site 342610008202 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 342610008203 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610008204 GAF domain; Region: GAF; pfam01590 342610008205 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610008206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610008207 metal binding site [ion binding]; metal-binding site 342610008208 active site 342610008209 I-site; other site 342610008210 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610008211 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610008212 DNA binding site [nucleotide binding] 342610008213 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 342610008214 dimerization interface (closed form) [polypeptide binding]; other site 342610008215 ligand binding site [chemical binding]; other site 342610008216 MFS/sugar transport protein; Region: MFS_2; pfam13347 342610008217 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610008218 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610008219 DNA binding site [nucleotide binding] 342610008220 domain linker motif; other site 342610008221 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 342610008222 dimerization interface (closed form) [polypeptide binding]; other site 342610008223 ligand binding site [chemical binding]; other site 342610008224 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 342610008225 active site 342610008226 catalytic residues [active] 342610008227 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 342610008228 putative transporter; Provisional; Region: PRK10484 342610008229 Na binding site [ion binding]; other site 342610008230 substrate binding site [chemical binding]; other site 342610008231 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 342610008232 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 342610008233 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 342610008234 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 342610008235 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610008236 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 342610008237 nucleoside transporter; Region: 2A0110; TIGR00889 342610008238 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 342610008239 putative substrate translocation pore; other site 342610008240 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 342610008241 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 342610008242 Metal-binding active site; metal-binding site 342610008243 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 342610008244 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610008245 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 342610008246 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 342610008247 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610008248 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610008249 DNA binding site [nucleotide binding] 342610008250 domain linker motif; other site 342610008251 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 342610008252 dimerization interface [polypeptide binding]; other site 342610008253 ligand binding site [chemical binding]; other site 342610008254 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 342610008255 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610008256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008257 DNA-binding site [nucleotide binding]; DNA binding site 342610008258 FCD domain; Region: FCD; pfam07729 342610008259 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610008260 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 342610008261 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 342610008262 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610008263 Sulfatase; Region: Sulfatase; pfam00884 342610008264 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610008265 Coenzyme A binding pocket [chemical binding]; other site 342610008266 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610008267 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 342610008268 active site 342610008269 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 342610008270 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 342610008271 active site 342610008272 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 342610008273 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 342610008274 ligand binding site [chemical binding]; other site 342610008275 flexible hinge region; other site 342610008276 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 342610008277 putative switch regulator; other site 342610008278 non-specific DNA interactions [nucleotide binding]; other site 342610008279 DNA binding site [nucleotide binding] 342610008280 sequence specific DNA binding site [nucleotide binding]; other site 342610008281 putative cAMP binding site [chemical binding]; other site 342610008282 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610008283 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 342610008284 active site 342610008285 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610008286 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 342610008287 N-terminal plug; other site 342610008288 ligand-binding site [chemical binding]; other site 342610008289 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610008290 putative active site [active] 342610008291 putative metal binding site [ion binding]; other site 342610008292 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610008293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610008294 metal binding site [ion binding]; metal-binding site 342610008295 active site 342610008296 I-site; other site 342610008297 Predicted ATPase [General function prediction only]; Region: COG1485 342610008298 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 342610008299 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 342610008300 Lipase. 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 process of...; Region: Lipase; cl14883 342610008301 nucleophilic elbow; other site 342610008302 catalytic triad; other site 342610008303 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 342610008304 CoenzymeA binding site [chemical binding]; other site 342610008305 subunit interaction site [polypeptide binding]; other site 342610008306 PHB binding site; other site 342610008307 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 342610008308 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 342610008309 FMN binding site [chemical binding]; other site 342610008310 substrate binding site [chemical binding]; other site 342610008311 putative catalytic residue [active] 342610008312 EthD domain; Region: EthD; cl17553 342610008313 lysozyme inhibitor; Provisional; Region: PRK11372 342610008314 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 342610008315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 342610008316 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 342610008317 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610008318 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 342610008319 N-terminal plug; other site 342610008320 ligand-binding site [chemical binding]; other site 342610008321 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 342610008322 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 342610008323 CoA-transferase family III; Region: CoA_transf_3; pfam02515 342610008324 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 342610008325 CoA-transferase family III; Region: CoA_transf_3; pfam02515 342610008326 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610008327 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610008328 active site 342610008329 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 342610008330 putative active site [active] 342610008331 putative catalytic site [active] 342610008332 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 342610008333 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 342610008334 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 342610008335 active site 342610008336 catalytic site [active] 342610008337 tetramer interface [polypeptide binding]; other site 342610008338 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610008339 classical (c) SDRs; Region: SDR_c; cd05233 342610008340 NAD(P) binding site [chemical binding]; other site 342610008341 active site 342610008342 REDY-like protein HapK; Region: HapK; pfam11639 342610008343 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 342610008344 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 342610008345 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 342610008346 putative acyl-acceptor binding pocket; other site 342610008347 Sulfatase; Region: Sulfatase; pfam00884 342610008348 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610008349 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 342610008350 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 342610008351 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610008352 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 342610008353 S-adenosylmethionine binding site [chemical binding]; other site 342610008354 Isochorismatase family; Region: Isochorismatase; pfam00857 342610008355 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; cl00220 342610008356 catalytic triad [active] 342610008357 conserved cis-peptide bond; other site 342610008358 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 342610008359 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 342610008360 putative active site [active] 342610008361 putative catalytic site [active] 342610008362 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 342610008363 putative active site [active] 342610008364 putative catalytic site [active] 342610008365 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 342610008366 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 342610008367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610008368 Coenzyme A binding pocket [chemical binding]; other site 342610008369 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610008370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610008371 Coenzyme A binding pocket [chemical binding]; other site 342610008372 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610008373 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 342610008374 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610008375 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 342610008376 Protein of unknown function (DUF1838); Region: DUF1838; pfam08894 342610008377 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 342610008378 CoenzymeA binding site [chemical binding]; other site 342610008379 subunit interaction site [polypeptide binding]; other site 342610008380 PHB binding site; other site 342610008381 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 342610008382 enoyl-CoA hydratase; Provisional; Region: PRK06127 342610008383 substrate binding site [chemical binding]; other site 342610008384 oxyanion hole (OAH) forming residues; other site 342610008385 trimer interface [polypeptide binding]; other site 342610008386 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610008387 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610008388 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 342610008389 N-terminal plug; other site 342610008390 ligand-binding site [chemical binding]; other site 342610008391 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 342610008392 dockerin binding interface; other site 342610008393 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 342610008394 Prostaglandin dehydrogenases; Region: PGDH; cd05288 342610008395 NAD(P) binding site [chemical binding]; other site 342610008396 substrate binding site [chemical binding]; other site 342610008397 dimer interface [polypeptide binding]; other site 342610008398 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610008399 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 342610008400 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610008401 N-terminal domain interface [polypeptide binding]; other site 342610008402 dimer interface [polypeptide binding]; other site 342610008403 substrate binding pocket (H-site) [chemical binding]; other site 342610008404 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 342610008405 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 342610008406 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 342610008407 active site 342610008408 catalytic residues [active] 342610008409 metal binding site [ion binding]; metal-binding site 342610008410 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 342610008411 CoA-transferase family III; Region: CoA_transf_3; pfam02515 342610008412 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 342610008413 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 342610008414 hypothetical protein; Provisional; Region: PRK14812 342610008415 substrate binding site [chemical binding]; other site 342610008416 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 342610008417 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 342610008418 substrate binding site [chemical binding]; other site 342610008419 ligand binding site [chemical binding]; other site 342610008420 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 342610008421 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 342610008422 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610008423 FAD binding domain; Region: FAD_binding_4; pfam01565 342610008424 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 342610008425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008426 DNA-binding site [nucleotide binding]; DNA binding site 342610008427 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 342610008428 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610008429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610008430 Coenzyme A binding pocket [chemical binding]; other site 342610008431 Protein of unknown function, DUF606; Region: DUF606; pfam04657 342610008432 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 342610008433 FMN binding site [chemical binding]; other site 342610008434 dimer interface [polypeptide binding]; other site 342610008435 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 342610008436 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 342610008437 ligand binding site [chemical binding]; other site 342610008438 flexible hinge region; other site 342610008439 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 342610008440 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 342610008441 FtsX-like permease family; Region: FtsX; pfam02687 342610008442 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 342610008443 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 342610008444 Walker A/P-loop; other site 342610008445 ATP binding site [chemical binding]; other site 342610008446 Q-loop/lid; other site 342610008447 ABC transporter signature motif; other site 342610008448 Walker B; other site 342610008449 D-loop; other site 342610008450 H-loop/switch region; other site 342610008451 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610008452 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610008453 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 342610008454 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 342610008455 putative active site [active] 342610008456 Zn binding site [ion binding]; other site 342610008457 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 342610008458 ATP-grasp domain; Region: ATP-grasp_4; cl17255 342610008459 choline dehydrogenase; Validated; Region: PRK02106 342610008460 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 342610008461 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 342610008462 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610008463 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 342610008464 Predicted permeases [General function prediction only]; Region: COG0679 342610008465 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 342610008466 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 342610008467 active site 342610008468 Zn binding site [ion binding]; other site 342610008469 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 342610008470 amidohydrolase; Region: amidohydrolases; TIGR01891 342610008471 metal binding site [ion binding]; metal-binding site 342610008472 putative dimer interface [polypeptide binding]; other site 342610008473 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610008474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610008475 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 342610008476 dimerization interface [polypeptide binding]; other site 342610008477 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 342610008478 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 342610008479 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 342610008480 active site 342610008481 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 342610008482 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 342610008483 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 342610008484 Ligand binding site; other site 342610008485 DXD motif; other site 342610008486 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 342610008487 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 342610008488 fatty acid metabolism regulator; Provisional; Region: PRK04984 342610008489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008490 DNA-binding site [nucleotide binding]; DNA binding site 342610008491 FadR C-terminal domain; Region: FadR_C; pfam07840 342610008492 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 342610008493 disulfide bond formation protein B; Provisional; Region: PRK01749 342610008494 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 342610008495 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 342610008496 hypothetical protein; Provisional; Region: PRK05170 342610008497 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 342610008498 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 342610008499 Transglycosylase SLT domain; Region: SLT_2; pfam13406 342610008500 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 342610008501 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610008502 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 342610008503 YcgL domain; Region: YcgL; pfam05166 342610008504 ribonuclease D; Provisional; Region: PRK10829 342610008505 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 342610008506 catalytic site [active] 342610008507 putative active site [active] 342610008508 putative substrate binding site [chemical binding]; other site 342610008509 HRDC domain; Region: HRDC; pfam00570 342610008510 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 342610008511 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 342610008512 acyl-activating enzyme (AAE) consensus motif; other site 342610008513 putative AMP binding site [chemical binding]; other site 342610008514 putative active site [active] 342610008515 putative CoA binding site [chemical binding]; other site 342610008516 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 342610008517 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 342610008518 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 342610008519 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 342610008520 Glycoprotease family; Region: Peptidase_M22; pfam00814 342610008521 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 342610008522 DEAD/DEAH box helicase; Region: DEAD; pfam00270 342610008523 DEAD_2; Region: DEAD_2; pfam06733 342610008524 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 342610008525 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 342610008526 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610008527 active site 342610008528 catalytic site [active] 342610008529 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 342610008530 Flagellar L-ring protein; Region: FlgH; pfam02107 342610008531 SEC-C motif; Region: SEC-C; pfam02810 342610008532 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 342610008533 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 342610008534 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 342610008535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610008536 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 342610008537 dimer interface [polypeptide binding]; other site 342610008538 phosphorylation site [posttranslational modification] 342610008539 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 342610008540 ATP binding site [chemical binding]; other site 342610008541 Mg2+ binding site [ion binding]; other site 342610008542 G-X-G motif; other site 342610008543 Response regulator receiver domain; Region: Response_reg; pfam00072 342610008544 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610008545 active site 342610008546 phosphorylation site [posttranslational modification] 342610008547 intermolecular recognition site; other site 342610008548 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610008549 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610008550 active site 342610008551 phosphorylation site [posttranslational modification] 342610008552 intermolecular recognition site; other site 342610008553 dimerization interface [polypeptide binding]; other site 342610008554 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 342610008555 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 342610008556 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 342610008557 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 342610008558 RNA binding surface [nucleotide binding]; other site 342610008559 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 342610008560 probable active site [active] 342610008561 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 342610008562 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 342610008563 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 342610008564 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 342610008565 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 342610008566 active site 342610008567 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 342610008568 anthranilate synthase component I; Provisional; Region: PRK13564 342610008569 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 342610008570 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 342610008571 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 342610008572 Glutamine amidotransferase class-I; Region: GATase; pfam00117 342610008573 glutamine binding [chemical binding]; other site 342610008574 catalytic triad [active] 342610008575 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 342610008576 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 342610008577 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 342610008578 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 342610008579 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 342610008580 active site 342610008581 ribulose/triose binding site [chemical binding]; other site 342610008582 phosphate binding site [ion binding]; other site 342610008583 substrate (anthranilate) binding pocket [chemical binding]; other site 342610008584 product (indole) binding pocket [chemical binding]; other site 342610008585 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 342610008586 active site 342610008587 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 342610008588 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 342610008589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610008590 catalytic residue [active] 342610008591 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 342610008592 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 342610008593 substrate binding site [chemical binding]; other site 342610008594 active site 342610008595 catalytic residues [active] 342610008596 heterodimer interface [polypeptide binding]; other site 342610008597 YciI-like protein; Reviewed; Region: PRK11370 342610008598 hypothetical protein; Provisional; Region: PRK09256 342610008599 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 342610008600 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 342610008601 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610008602 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 342610008603 TPR motif; other site 342610008604 binding surface 342610008605 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 342610008606 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 342610008607 TPR motif; other site 342610008608 binding surface 342610008609 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 342610008610 binding surface 342610008611 TPR motif; other site 342610008612 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 342610008613 TPR motif; other site 342610008614 binding surface 342610008615 Predicted membrane protein [Function unknown]; Region: COG3212 342610008616 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610008617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610008618 active site 342610008619 phosphorylation site [posttranslational modification] 342610008620 intermolecular recognition site; other site 342610008621 dimerization interface [polypeptide binding]; other site 342610008622 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 342610008623 DNA binding site [nucleotide binding] 342610008624 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 342610008625 dimer interface [polypeptide binding]; other site 342610008626 phosphorylation site [posttranslational modification] 342610008627 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 342610008628 ATP binding site [chemical binding]; other site 342610008629 Mg2+ binding site [ion binding]; other site 342610008630 G-X-G motif; other site 342610008631 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 342610008632 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610008633 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 342610008634 TPR motif; other site 342610008635 binding surface 342610008636 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 342610008637 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 342610008638 putative molybdopterin cofactor binding site [chemical binding]; other site 342610008639 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 342610008640 putative molybdopterin cofactor binding site; other site 342610008641 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 342610008642 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610008643 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 342610008644 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 342610008645 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 342610008646 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 342610008647 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 342610008648 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 342610008649 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 342610008650 active site 342610008651 DNA binding site [nucleotide binding] 342610008652 Int/Topo IB signature motif; other site 342610008653 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610008654 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610008655 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 342610008656 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 342610008657 putative NAD(P) binding site [chemical binding]; other site 342610008658 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 342610008659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 342610008660 Coenzyme A binding pocket [chemical binding]; other site 342610008661 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610008662 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610008663 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610008664 Alpha amylase catalytic domain found in bacterial and eukaryotic Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_euk_AmyA; cd11317 342610008665 active site 342610008666 Ca binding site [ion binding]; other site 342610008667 catalytic site [active] 342610008668 Aamy_C domain; Region: Aamy_C; smart00632 342610008669 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 342610008670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610008671 DNA-binding site [nucleotide binding]; DNA binding site 342610008672 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 342610008673 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 342610008674 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 342610008675 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 342610008676 active site 342610008677 homotrimer interface [polypeptide binding]; other site 342610008678 catalytic site [active] 342610008679 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 342610008680 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 342610008681 DctM-like transporters; Region: DctM; pfam06808 342610008682 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 342610008683 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 342610008684 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 342610008685 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610008686 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 342610008687 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 342610008688 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 342610008689 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 342610008690 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 342610008691 DNA binding residues [nucleotide binding] 342610008692 dimer interface [polypeptide binding]; other site 342610008693 putative metal binding site [ion binding]; other site 342610008694 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610008695 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610008696 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610008697 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610008698 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610008699 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610008700 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610008701 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610008702 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610008703 sulfite oxidase; Provisional; Region: PLN00177 342610008704 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 342610008705 Moco binding site; other site 342610008706 metal coordination site [ion binding]; other site 342610008707 dimerization interface [polypeptide binding]; other site 342610008708 Predicted membrane protein [Function unknown]; Region: COG2855 342610008709 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 342610008710 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 342610008711 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610008712 active site 342610008713 catalytic tetrad [active] 342610008714 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 342610008715 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 342610008716 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 342610008717 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 342610008718 histidinol dehydrogenase; Region: hisD; TIGR00069 342610008719 NAD binding site [chemical binding]; other site 342610008720 dimerization interface [polypeptide binding]; other site 342610008721 product binding site; other site 342610008722 substrate binding site [chemical binding]; other site 342610008723 zinc binding site [ion binding]; other site 342610008724 catalytic residues [active] 342610008725 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 342610008726 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 342610008727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610008728 homodimer interface [polypeptide binding]; other site 342610008729 catalytic residue [active] 342610008730 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 342610008731 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 342610008732 active site 342610008733 motif I; other site 342610008734 motif II; other site 342610008735 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 342610008736 putative active site pocket [active] 342610008737 4-fold oligomerization interface [polypeptide binding]; other site 342610008738 metal binding residues [ion binding]; metal-binding site 342610008739 3-fold/trimer interface [polypeptide binding]; other site 342610008740 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 342610008741 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 342610008742 putative active site [active] 342610008743 oxyanion strand; other site 342610008744 catalytic triad [active] 342610008745 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 342610008746 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 342610008747 catalytic residues [active] 342610008748 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 342610008749 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 342610008750 homodimer interface [polypeptide binding]; other site 342610008751 substrate-cofactor binding pocket; other site 342610008752 catalytic residue [active] 342610008753 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 342610008754 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 342610008755 substrate binding site [chemical binding]; other site 342610008756 glutamase interaction surface [polypeptide binding]; other site 342610008757 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 342610008758 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 342610008759 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 342610008760 metal binding site [ion binding]; metal-binding site 342610008761 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 342610008762 hypothetical protein; Provisional; Region: PRK03757 342610008763 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 342610008764 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 342610008765 putative dimer interface [polypeptide binding]; other site 342610008766 MAPEG family; Region: MAPEG; cl09190 342610008767 adenylate kinase; Reviewed; Region: adk; PRK00279 342610008768 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 342610008769 AMP-binding site [chemical binding]; other site 342610008770 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 342610008771 heat shock protein 90; Provisional; Region: PRK05218 342610008772 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 342610008773 ATP binding site [chemical binding]; other site 342610008774 Mg2+ binding site [ion binding]; other site 342610008775 G-X-G motif; other site 342610008776 recombination protein RecR; Reviewed; Region: recR; PRK00076 342610008777 RecR protein; Region: RecR; pfam02132 342610008778 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 342610008779 putative active site [active] 342610008780 putative metal-binding site [ion binding]; other site 342610008781 tetramer interface [polypeptide binding]; other site 342610008782 hypothetical protein; Validated; Region: PRK00153 342610008783 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 342610008784 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 342610008785 Walker A motif; other site 342610008786 ATP binding site [chemical binding]; other site 342610008787 Walker B motif; other site 342610008788 DNA polymerase III subunit delta'; Validated; Region: PRK08485 342610008789 arginine finger; other site 342610008790 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 342610008791 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 342610008792 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610008793 active site 342610008794 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 342610008795 hypothetical protein; Provisional; Region: PRK05409 342610008796 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610008797 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610008798 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 342610008799 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 342610008800 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 342610008801 YHYH protein; Region: YHYH; pfam14240 342610008802 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 342610008803 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 342610008804 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 342610008805 Domain of unknown function DUF20; Region: UPF0118; pfam01594 342610008806 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 342610008807 active site 342610008808 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 342610008809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610008810 NAD(P) binding site [chemical binding]; other site 342610008811 active site 342610008812 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 342610008813 FtsX-like permease family; Region: FtsX; pfam02687 342610008814 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 342610008815 FtsX-like permease family; Region: FtsX; pfam02687 342610008816 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 342610008817 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 342610008818 Walker A/P-loop; other site 342610008819 ATP binding site [chemical binding]; other site 342610008820 Q-loop/lid; other site 342610008821 ABC transporter signature motif; other site 342610008822 Walker B; other site 342610008823 D-loop; other site 342610008824 H-loop/switch region; other site 342610008825 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 342610008826 active site 342610008827 catalytic triad [active] 342610008828 oxyanion hole [active] 342610008829 switch loop; other site 342610008830 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 342610008831 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 342610008832 FMN binding site [chemical binding]; other site 342610008833 active site 342610008834 catalytic residues [active] 342610008835 substrate binding site [chemical binding]; other site 342610008836 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 342610008837 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 342610008838 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 342610008839 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 342610008840 HIGH motif; other site 342610008841 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 342610008842 active site 342610008843 KMSKS motif; other site 342610008844 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610008845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610008846 active site 342610008847 phosphorylation site [posttranslational modification] 342610008848 intermolecular recognition site; other site 342610008849 dimerization interface [polypeptide binding]; other site 342610008850 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 342610008851 kynureninase; Region: kynureninase; TIGR01814 342610008852 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610008853 catalytic residue [active] 342610008854 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610008855 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610008856 putative acyltransferase; Provisional; Region: PRK05790 342610008857 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 342610008858 dimer interface [polypeptide binding]; other site 342610008859 active site 342610008860 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 342610008861 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 342610008862 DNA binding residues [nucleotide binding] 342610008863 putative dimer interface [polypeptide binding]; other site 342610008864 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 342610008865 isovaleryl-CoA dehydrogenase; Region: PLN02519 342610008866 substrate binding site [chemical binding]; other site 342610008867 FAD binding site [chemical binding]; other site 342610008868 catalytic base [active] 342610008869 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 342610008870 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 342610008871 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 342610008872 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 342610008873 enoyl-CoA hydratase; Provisional; Region: PRK05995 342610008874 substrate binding site [chemical binding]; other site 342610008875 oxyanion hole (OAH) forming residues; other site 342610008876 trimer interface [polypeptide binding]; other site 342610008877 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 342610008878 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 342610008879 ATP-grasp domain; Region: ATP-grasp_4; cl17255 342610008880 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 342610008881 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 342610008882 carboxyltransferase (CT) interaction site; other site 342610008883 biotinylation site [posttranslational modification]; other site 342610008884 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 342610008885 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 342610008886 active site 342610008887 catalytic residues [active] 342610008888 metal binding site [ion binding]; metal-binding site 342610008889 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 342610008890 putative hydrophobic ligand binding site [chemical binding]; other site 342610008891 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 342610008892 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 342610008893 ligand binding site; other site 342610008894 oligomer interface; other site 342610008895 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 342610008896 dimer interface [polypeptide binding]; other site 342610008897 N-terminal domain interface [polypeptide binding]; other site 342610008898 sulfate 1 binding site; other site 342610008899 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 342610008900 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 342610008901 catalytic site [active] 342610008902 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 342610008903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610008904 putative substrate translocation pore; other site 342610008905 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 342610008906 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 342610008907 active site 342610008908 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 342610008909 active site 2 [active] 342610008910 active site 1 [active] 342610008911 HDOD domain; Region: HDOD; pfam08668 342610008912 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 342610008913 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 342610008914 binding surface 342610008915 TPR motif; other site 342610008916 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 342610008917 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610008918 ligand binding site [chemical binding]; other site 342610008919 translocation protein TolB; Provisional; Region: tolB; PRK04792 342610008920 TolB amino-terminal domain; Region: TolB_N; pfam04052 342610008921 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610008922 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610008923 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 342610008924 TolA protein; Region: tolA_full; TIGR02794 342610008925 TolA C-terminal; Region: TolA; pfam06519 342610008926 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 342610008927 TolR protein; Region: tolR; TIGR02801 342610008928 TolQ protein; Region: tolQ; TIGR02796 342610008929 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 342610008930 active site 342610008931 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 342610008932 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 342610008933 Walker A motif; other site 342610008934 ATP binding site [chemical binding]; other site 342610008935 Walker B motif; other site 342610008936 arginine finger; other site 342610008937 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 342610008938 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 342610008939 RuvA N terminal domain; Region: RuvA_N; pfam01330 342610008940 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 342610008941 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 342610008942 active site 342610008943 putative DNA-binding cleft [nucleotide binding]; other site 342610008944 dimer interface [polypeptide binding]; other site 342610008945 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 342610008946 nudix motif; other site 342610008947 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 342610008948 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 342610008949 dimer interface [polypeptide binding]; other site 342610008950 anticodon binding site; other site 342610008951 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 342610008952 homodimer interface [polypeptide binding]; other site 342610008953 motif 1; other site 342610008954 active site 342610008955 motif 2; other site 342610008956 GAD domain; Region: GAD; pfam02938 342610008957 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 342610008958 active site 342610008959 motif 3; other site 342610008960 Protein of unknown function DUF72; Region: DUF72; pfam01904 342610008961 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 342610008962 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 342610008963 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 342610008964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610008965 Walker A/P-loop; other site 342610008966 ATP binding site [chemical binding]; other site 342610008967 Q-loop/lid; other site 342610008968 ABC transporter signature motif; other site 342610008969 Walker B; other site 342610008970 D-loop; other site 342610008971 H-loop/switch region; other site 342610008972 Yip1 domain; Region: Yip1; pfam04893 342610008973 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 342610008974 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610008975 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 342610008976 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610008977 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 342610008978 Peptidase family M28; Region: Peptidase_M28; pfam04389 342610008979 metal binding site [ion binding]; metal-binding site 342610008980 asparagine synthetase B; Provisional; Region: asnB; PRK09431 342610008981 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 342610008982 active site 342610008983 dimer interface [polypeptide binding]; other site 342610008984 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 342610008985 Ligand Binding Site [chemical binding]; other site 342610008986 Molecular Tunnel; other site 342610008987 hypothetical protein; Provisional; Region: PRK06194 342610008988 classical (c) SDRs; Region: SDR_c; cd05233 342610008989 NAD(P) binding site [chemical binding]; other site 342610008990 active site 342610008991 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 342610008992 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 342610008993 NADP binding site [chemical binding]; other site 342610008994 dimer interface [polypeptide binding]; other site 342610008995 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 342610008996 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 342610008997 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 342610008998 Ligand Binding Site [chemical binding]; other site 342610008999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610009000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610009001 LysR substrate binding domain; Region: LysR_substrate; pfam03466 342610009002 dimerization interface [polypeptide binding]; other site 342610009003 excinuclease ABC subunit B; Provisional; Region: PRK05298 342610009004 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 342610009005 ATP binding site [chemical binding]; other site 342610009006 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 342610009007 nucleotide binding region [chemical binding]; other site 342610009008 ATP-binding site [chemical binding]; other site 342610009009 Ultra-violet resistance protein B; Region: UvrB; pfam12344 342610009010 UvrB/uvrC motif; Region: UVR; pfam02151 342610009011 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 342610009012 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 342610009013 electron transport complex protein RsxA; Provisional; Region: PRK05151 342610009014 electron transport complex protein RnfB; Provisional; Region: PRK05113 342610009015 Putative Fe-S cluster; Region: FeS; pfam04060 342610009016 4Fe-4S binding domain; Region: Fer4; pfam00037 342610009017 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 342610009018 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 342610009019 SLBB domain; Region: SLBB; pfam10531 342610009020 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 342610009021 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 342610009022 electron transport complex protein RnfG; Validated; Region: PRK01908 342610009023 electron transport complex RsxE subunit; Provisional; Region: PRK12405 342610009024 endonuclease III; Provisional; Region: PRK10702 342610009025 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 342610009026 minor groove reading motif; other site 342610009027 helix-hairpin-helix signature motif; other site 342610009028 substrate binding pocket [chemical binding]; other site 342610009029 active site 342610009030 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 342610009031 DoxX-like family; Region: DoxX_2; pfam13564 342610009032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610009033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610009034 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 342610009035 dimerization interface [polypeptide binding]; other site 342610009036 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 342610009037 active site 342610009038 substrate binding pocket [chemical binding]; other site 342610009039 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 342610009040 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610009041 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 342610009042 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 342610009043 short chain dehydrogenase; Provisional; Region: PRK06197 342610009044 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 342610009045 putative NAD(P) binding site [chemical binding]; other site 342610009046 active site 342610009047 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 342610009048 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610009049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610009050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610009051 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 342610009052 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 342610009053 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 342610009054 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610009055 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 342610009056 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 342610009057 nucleotide binding site [chemical binding]; other site 342610009058 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 342610009059 putative NEF/HSP70 interaction site [polypeptide binding]; other site 342610009060 nucleotide binding site [chemical binding]; other site 342610009061 SBD interface [polypeptide binding]; other site 342610009062 TIGR03545 family protein; Region: TIGR03545 342610009063 TPR repeat; Region: TPR_11; pfam13414 342610009064 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 342610009065 binding surface 342610009066 TPR motif; other site 342610009067 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 342610009068 binding surface 342610009069 TPR repeat; Region: TPR_11; pfam13414 342610009070 TPR motif; other site 342610009071 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 342610009072 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 342610009073 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 342610009074 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 342610009075 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 342610009076 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 342610009077 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 342610009078 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 342610009079 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610009080 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 342610009081 S-adenosylmethionine binding site [chemical binding]; other site 342610009082 TPR repeat; Region: TPR_11; pfam13414 342610009083 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 342610009084 binding surface 342610009085 TPR motif; other site 342610009086 TPR repeat; Region: TPR_11; pfam13414 342610009087 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 342610009088 binding surface 342610009089 TPR motif; other site 342610009090 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 342610009091 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 342610009092 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610009093 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 342610009094 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610009095 Late competence development protein ComFB; Region: ComFB; pfam10719 342610009096 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 342610009097 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 342610009098 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 342610009099 NAD binding site [chemical binding]; other site 342610009100 Phe binding site; other site 342610009101 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610009102 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 342610009103 putative DNA binding site [nucleotide binding]; other site 342610009104 putative Zn2+ binding site [ion binding]; other site 342610009105 AsnC family; Region: AsnC_trans_reg; pfam01037 342610009106 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 342610009107 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 342610009108 dimer interface [polypeptide binding]; other site 342610009109 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 342610009110 active site 342610009111 Fe binding site [ion binding]; other site 342610009112 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 342610009113 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 342610009114 putative aromatic amino acid binding site; other site 342610009115 PAS domain; Region: PAS; smart00091 342610009116 putative active site [active] 342610009117 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 342610009118 Walker A motif; other site 342610009119 ATP binding site [chemical binding]; other site 342610009120 Walker B motif; other site 342610009121 arginine finger; other site 342610009122 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 342610009123 cofactor binding site; other site 342610009124 metal binding site [ion binding]; metal-binding site 342610009125 hypothetical protein; Provisional; Region: PRK05415 342610009126 Domain of unknown function (DUF697); Region: DUF697; cl12064 342610009127 YcjX-like family, DUF463; Region: DUF463; pfam04317 342610009128 phage shock protein C; Region: phageshock_pspC; TIGR02978 342610009129 PspC domain; Region: PspC; pfam04024 342610009130 phage shock protein B; Provisional; Region: pspB; PRK09458 342610009131 phage shock protein A; Region: phageshock_pspA; TIGR02977 342610009132 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 342610009133 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 342610009134 Walker A motif; other site 342610009135 ATP binding site [chemical binding]; other site 342610009136 Walker B motif; other site 342610009137 arginine finger; other site 342610009138 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 342610009139 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 342610009140 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 342610009141 peptide binding site [polypeptide binding]; other site 342610009142 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 342610009143 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 342610009144 dimer interface [polypeptide binding]; other site 342610009145 conserved gate region; other site 342610009146 putative PBP binding loops; other site 342610009147 ABC-ATPase subunit interface; other site 342610009148 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 342610009149 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 342610009150 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 342610009151 dimer interface [polypeptide binding]; other site 342610009152 ABC-ATPase subunit interface; other site 342610009153 putative PBP binding loops; other site 342610009154 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 342610009155 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 342610009156 Walker A/P-loop; other site 342610009157 ATP binding site [chemical binding]; other site 342610009158 Q-loop/lid; other site 342610009159 ABC transporter signature motif; other site 342610009160 Walker B; other site 342610009161 D-loop; other site 342610009162 H-loop/switch region; other site 342610009163 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 342610009164 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 342610009165 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 342610009166 Walker A/P-loop; other site 342610009167 ATP binding site [chemical binding]; other site 342610009168 Q-loop/lid; other site 342610009169 ABC transporter signature motif; other site 342610009170 Walker B; other site 342610009171 D-loop; other site 342610009172 H-loop/switch region; other site 342610009173 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 342610009174 oxaloacetate decarboxylase; Provisional; Region: PRK14040 342610009175 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 342610009176 active site 342610009177 catalytic residues [active] 342610009178 metal binding site [ion binding]; metal-binding site 342610009179 homodimer binding site [polypeptide binding]; other site 342610009180 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 342610009181 carboxyltransferase (CT) interaction site; other site 342610009182 biotinylation site [posttranslational modification]; other site 342610009183 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 342610009184 carbon storage regulator; Provisional; Region: PRK01712 342610009185 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 342610009186 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 342610009187 motif 1; other site 342610009188 active site 342610009189 motif 2; other site 342610009190 motif 3; other site 342610009191 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 342610009192 DHHA1 domain; Region: DHHA1; pfam02272 342610009193 recombination regulator RecX; Reviewed; Region: recX; PRK00117 342610009194 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 342610009195 Protein of unknown function, DUF482; Region: DUF482; pfam04339 342610009196 Protein of unknown function (DUF938); Region: DUF938; pfam06080 342610009197 homoserine O-succinyltransferase; Provisional; Region: PRK05368 342610009198 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 342610009199 proposed active site lysine [active] 342610009200 conserved cys residue [active] 342610009201 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 342610009202 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 342610009203 putative CheA interaction surface; other site 342610009204 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 342610009205 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 342610009206 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 342610009207 Magnesium ion binding site [ion binding]; other site 342610009208 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 342610009209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610009210 active site 342610009211 phosphorylation site [posttranslational modification] 342610009212 intermolecular recognition site; other site 342610009213 dimerization interface [polypeptide binding]; other site 342610009214 CheB methylesterase; Region: CheB_methylest; pfam01339 342610009215 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 342610009216 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 342610009217 putative binding surface; other site 342610009218 active site 342610009219 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 342610009220 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 342610009221 ATP binding site [chemical binding]; other site 342610009222 Mg2+ binding site [ion binding]; other site 342610009223 G-X-G motif; other site 342610009224 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 342610009225 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 342610009226 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 342610009227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610009228 active site 342610009229 phosphorylation site [posttranslational modification] 342610009230 intermolecular recognition site; other site 342610009231 dimerization interface [polypeptide binding]; other site 342610009232 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 342610009233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610009234 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 342610009235 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 342610009236 DNA binding residues [nucleotide binding] 342610009237 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 342610009238 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 342610009239 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 342610009240 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 342610009241 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 342610009242 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 342610009243 FHIPEP family; Region: FHIPEP; pfam00771 342610009244 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 342610009245 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 342610009246 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 342610009247 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 342610009248 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 342610009249 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 342610009250 flagellar motor switch protein; Validated; Region: fliN; PRK08983 342610009251 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 342610009252 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 342610009253 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 342610009254 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 342610009255 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 342610009256 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 342610009257 Flagellar FliJ protein; Region: FliJ; pfam02050 342610009258 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 342610009259 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 342610009260 Walker A motif/ATP binding site; other site 342610009261 Walker B motif; other site 342610009262 flagellar assembly protein H; Validated; Region: fliH; PRK05687 342610009263 Flagellar assembly protein FliH; Region: FliH; pfam02108 342610009264 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 342610009265 MgtE intracellular N domain; Region: MgtE_N; smart00924 342610009266 FliG C-terminal domain; Region: FliG_C; pfam01706 342610009267 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 342610009268 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 342610009269 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 342610009270 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 342610009271 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 342610009272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610009273 active site 342610009274 phosphorylation site [posttranslational modification] 342610009275 intermolecular recognition site; other site 342610009276 dimerization interface [polypeptide binding]; other site 342610009277 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 342610009278 Walker A motif; other site 342610009279 ATP binding site [chemical binding]; other site 342610009280 Walker B motif; other site 342610009281 arginine finger; other site 342610009282 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 342610009283 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 342610009284 PAS domain; Region: PAS; smart00091 342610009285 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 342610009286 dimer interface [polypeptide binding]; other site 342610009287 phosphorylation site [posttranslational modification] 342610009288 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 342610009289 ATP binding site [chemical binding]; other site 342610009290 Mg2+ binding site [ion binding]; other site 342610009291 G-X-G motif; other site 342610009292 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 342610009293 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 342610009294 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 342610009295 Walker A motif; other site 342610009296 ATP binding site [chemical binding]; other site 342610009297 Walker B motif; other site 342610009298 arginine finger; other site 342610009299 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 342610009300 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009301 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 342610009302 Cephalosporin hydroxylase; Region: CmcI; pfam04989 342610009303 WbqC-like protein family; Region: WbqC; pfam08889 342610009304 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 342610009305 active site 342610009306 substrate binding site [chemical binding]; other site 342610009307 cosubstrate binding site; other site 342610009308 catalytic site [active] 342610009309 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 342610009310 S-adenosylmethionine binding site [chemical binding]; other site 342610009311 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 342610009312 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 342610009313 inhibitor-cofactor binding pocket; inhibition site 342610009314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610009315 catalytic residue [active] 342610009316 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 342610009317 Methyltransferase domain; Region: Methyltransf_23; pfam13489 342610009318 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 342610009319 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 342610009320 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 342610009321 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 342610009322 NAD binding site [chemical binding]; other site 342610009323 homotetramer interface [polypeptide binding]; other site 342610009324 homodimer interface [polypeptide binding]; other site 342610009325 substrate binding site [chemical binding]; other site 342610009326 active site 342610009327 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 342610009328 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 342610009329 substrate binding site; other site 342610009330 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610009331 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 342610009332 active site 342610009333 putative glycosyl transferase; Provisional; Region: PRK10073 342610009334 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 342610009335 active site 342610009336 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610009337 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 342610009338 active site 342610009339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 342610009340 Methyltransferase domain; Region: Methyltransf_23; pfam13489 342610009341 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 342610009342 S-adenosylmethionine binding site [chemical binding]; other site 342610009343 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 342610009344 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 342610009345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 342610009346 UDP-galactopyranose mutase; Region: GLF; pfam03275 342610009347 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 342610009348 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 342610009349 active site 342610009350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610009351 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610009352 NAD(P) binding site [chemical binding]; other site 342610009353 active site 342610009354 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 342610009355 acyl-activating enzyme (AAE) consensus motif; other site 342610009356 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 342610009357 AMP binding site [chemical binding]; other site 342610009358 active site 342610009359 CoA binding site [chemical binding]; other site 342610009360 Phosphopantetheine attachment site; Region: PP-binding; cl09936 342610009361 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 342610009362 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 342610009363 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 342610009364 pseudaminic acid synthase; Region: PseI; TIGR03586 342610009365 NeuB family; Region: NeuB; pfam03102 342610009366 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 342610009367 NeuB binding interface [polypeptide binding]; other site 342610009368 putative substrate binding site [chemical binding]; other site 342610009369 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 342610009370 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 342610009371 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 342610009372 ligand binding site; other site 342610009373 tetramer interface; other site 342610009374 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 342610009375 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 342610009376 inhibitor-cofactor binding pocket; inhibition site 342610009377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610009378 catalytic residue [active] 342610009379 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 342610009380 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 342610009381 NAD(P) binding site [chemical binding]; other site 342610009382 homodimer interface [polypeptide binding]; other site 342610009383 substrate binding site [chemical binding]; other site 342610009384 active site 342610009385 Flagellar protein FliS; Region: FliS; cl00654 342610009386 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 342610009387 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 342610009388 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 342610009389 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 342610009390 FlaG protein; Region: FlaG; pfam03646 342610009391 flagellin; Provisional; Region: PRK12802 342610009392 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009393 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 342610009394 flagellin; Provisional; Region: PRK12802 342610009395 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009396 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 342610009397 flagellin; Provisional; Region: PRK12802 342610009398 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009399 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 342610009400 BNR repeat-like domain; Region: BNR_2; pfam13088 342610009401 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 342610009402 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 342610009403 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 342610009404 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 342610009405 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 342610009406 Rod binding protein; Region: Rod-binding; cl01626 342610009407 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 342610009408 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 342610009409 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 342610009410 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 342610009411 Flagellar L-ring protein; Region: FlgH; pfam02107 342610009412 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 342610009413 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 342610009414 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 342610009415 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 342610009416 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 342610009417 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 342610009418 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 342610009419 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 342610009420 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 342610009421 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 342610009422 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 342610009423 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 342610009424 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 342610009425 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 342610009426 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 342610009427 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 342610009428 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 342610009429 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 342610009430 S-adenosylmethionine binding site [chemical binding]; other site 342610009431 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 342610009432 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610009433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610009434 active site 342610009435 phosphorylation site [posttranslational modification] 342610009436 intermolecular recognition site; other site 342610009437 dimerization interface [polypeptide binding]; other site 342610009438 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 342610009439 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 342610009440 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 342610009441 FlgN protein; Region: FlgN; pfam05130 342610009442 LPP20 lipoprotein; Region: LPP20; pfam02169 342610009443 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 342610009444 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 342610009445 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 342610009446 N-terminal plug; other site 342610009447 ligand-binding site [chemical binding]; other site 342610009448 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 342610009449 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 342610009450 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 342610009451 active site 342610009452 Zn binding site [ion binding]; other site 342610009453 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 342610009454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 342610009455 Smr domain; Region: Smr; pfam01713 342610009456 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 342610009457 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 342610009458 dimerization interface [polypeptide binding]; other site 342610009459 ATP binding site [chemical binding]; other site 342610009460 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 342610009461 dimerization interface [polypeptide binding]; other site 342610009462 ATP binding site [chemical binding]; other site 342610009463 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 342610009464 putative active site [active] 342610009465 catalytic triad [active] 342610009466 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610009467 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 342610009468 substrate binding pocket [chemical binding]; other site 342610009469 membrane-bound complex binding site; other site 342610009470 hinge residues; other site 342610009471 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 342610009472 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 342610009473 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610009474 catalytic residue [active] 342610009475 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 342610009476 nucleoside/Zn binding site; other site 342610009477 dimer interface [polypeptide binding]; other site 342610009478 catalytic motif [active] 342610009479 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 342610009480 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 342610009481 putative acyl-acceptor binding pocket; other site 342610009482 YaeQ protein; Region: YaeQ; pfam07152 342610009483 GMP synthase; Reviewed; Region: guaA; PRK00074 342610009484 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 342610009485 AMP/PPi binding site [chemical binding]; other site 342610009486 candidate oxyanion hole; other site 342610009487 catalytic triad [active] 342610009488 potential glutamine specificity residues [chemical binding]; other site 342610009489 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 342610009490 ATP Binding subdomain [chemical binding]; other site 342610009491 Ligand Binding sites [chemical binding]; other site 342610009492 Dimerization subdomain; other site 342610009493 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 342610009494 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 342610009495 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 342610009496 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 342610009497 active site 342610009498 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 342610009499 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 342610009500 generic binding surface II; other site 342610009501 generic binding surface I; other site 342610009502 GTP-binding protein Der; Reviewed; Region: PRK00093 342610009503 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 342610009504 G1 box; other site 342610009505 GTP/Mg2+ binding site [chemical binding]; other site 342610009506 Switch I region; other site 342610009507 G2 box; other site 342610009508 Switch II region; other site 342610009509 G3 box; other site 342610009510 G4 box; other site 342610009511 G5 box; other site 342610009512 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 342610009513 G1 box; other site 342610009514 GTP/Mg2+ binding site [chemical binding]; other site 342610009515 Switch I region; other site 342610009516 G2 box; other site 342610009517 G3 box; other site 342610009518 Switch II region; other site 342610009519 G4 box; other site 342610009520 G5 box; other site 342610009521 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 342610009522 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 342610009523 Trp docking motif [polypeptide binding]; other site 342610009524 active site 342610009525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 342610009526 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 342610009527 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 342610009528 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 342610009529 dimer interface [polypeptide binding]; other site 342610009530 motif 1; other site 342610009531 active site 342610009532 motif 2; other site 342610009533 motif 3; other site 342610009534 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 342610009535 anticodon binding site; other site 342610009536 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 342610009537 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 342610009538 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 342610009539 cytoskeletal protein RodZ; Provisional; Region: PRK10856 342610009540 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 342610009541 non-specific DNA binding site [nucleotide binding]; other site 342610009542 salt bridge; other site 342610009543 sequence-specific DNA binding site [nucleotide binding]; other site 342610009544 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 342610009545 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 342610009546 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 342610009547 binding surface 342610009548 TPR motif; other site 342610009549 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 342610009550 TPR motif; other site 342610009551 binding surface 342610009552 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 342610009553 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 342610009554 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 342610009555 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 342610009556 FeS/SAM binding site; other site 342610009557 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 342610009558 active site 342610009559 multimer interface [polypeptide binding]; other site 342610009560 periplasmic folding chaperone; Provisional; Region: PRK10788 342610009561 SurA N-terminal domain; Region: SurA_N_3; cl07813 342610009562 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 342610009563 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 342610009564 IHF dimer interface [polypeptide binding]; other site 342610009565 IHF - DNA interface [nucleotide binding]; other site 342610009566 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 342610009567 Found in ATP-dependent protease La (LON); Region: LON; smart00464 342610009568 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 342610009569 Walker A motif; other site 342610009570 ATP binding site [chemical binding]; other site 342610009571 Walker B motif; other site 342610009572 arginine finger; other site 342610009573 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 342610009574 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 342610009575 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 342610009576 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 342610009577 Walker A motif; other site 342610009578 ATP binding site [chemical binding]; other site 342610009579 Walker B motif; other site 342610009580 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 342610009581 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 342610009582 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 342610009583 oligomer interface [polypeptide binding]; other site 342610009584 active site residues [active] 342610009585 trigger factor; Provisional; Region: tig; PRK01490 342610009586 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 342610009587 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 342610009588 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 342610009589 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 342610009590 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 342610009591 homodimer interface [polypeptide binding]; other site 342610009592 NADP binding site [chemical binding]; other site 342610009593 substrate binding site [chemical binding]; other site 342610009594 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 342610009595 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 342610009596 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 342610009597 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 342610009598 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 342610009599 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 342610009600 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 342610009601 Walker A/P-loop; other site 342610009602 ATP binding site [chemical binding]; other site 342610009603 Q-loop/lid; other site 342610009604 ABC transporter signature motif; other site 342610009605 Walker B; other site 342610009606 D-loop; other site 342610009607 H-loop/switch region; other site 342610009608 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 342610009609 active site 342610009610 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 342610009611 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 342610009612 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 342610009613 GTPase Era; Reviewed; Region: era; PRK00089 342610009614 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 342610009615 G1 box; other site 342610009616 GTP/Mg2+ binding site [chemical binding]; other site 342610009617 Switch I region; other site 342610009618 G2 box; other site 342610009619 Switch II region; other site 342610009620 G3 box; other site 342610009621 G4 box; other site 342610009622 G5 box; other site 342610009623 KH domain; Region: KH_2; pfam07650 342610009624 ribonuclease III; Reviewed; Region: rnc; PRK00102 342610009625 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 342610009626 dimerization interface [polypeptide binding]; other site 342610009627 active site 342610009628 metal binding site [ion binding]; metal-binding site 342610009629 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 342610009630 dsRNA binding site [nucleotide binding]; other site 342610009631 signal peptidase I; Provisional; Region: PRK10861 342610009632 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 342610009633 Catalytic site [active] 342610009634 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 342610009635 GTP-binding protein LepA; Provisional; Region: PRK05433 342610009636 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 342610009637 G1 box; other site 342610009638 putative GEF interaction site [polypeptide binding]; other site 342610009639 GTP/Mg2+ binding site [chemical binding]; other site 342610009640 Switch I region; other site 342610009641 G2 box; other site 342610009642 G3 box; other site 342610009643 Switch II region; other site 342610009644 G4 box; other site 342610009645 G5 box; other site 342610009646 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 342610009647 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 342610009648 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 342610009649 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 342610009650 anti-sigma E factor; Provisional; Region: rseB; PRK09455 342610009651 MucB/RseB family; Region: MucB_RseB; pfam03888 342610009652 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 342610009653 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 342610009654 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 342610009655 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 342610009656 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610009657 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 342610009658 DNA binding residues [nucleotide binding] 342610009659 L-aspartate oxidase; Provisional; Region: PRK09077 342610009660 L-aspartate oxidase; Provisional; Region: PRK06175 342610009661 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 342610009662 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 342610009663 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 342610009664 active site 1 [active] 342610009665 Uncharacterized conserved protein [Function unknown]; Region: COG2938 342610009666 putative global regulator; Reviewed; Region: PRK09559 342610009667 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 342610009668 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 342610009669 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 342610009670 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 342610009671 Nitrogen regulatory protein P-II; Region: P-II; smart00938 342610009672 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 342610009673 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 342610009674 homodimer interface [polypeptide binding]; other site 342610009675 NAD binding pocket [chemical binding]; other site 342610009676 ATP binding pocket [chemical binding]; other site 342610009677 Mg binding site [ion binding]; other site 342610009678 active-site loop [active] 342610009679 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 342610009680 hypothetical protein; Provisional; Region: PRK10557 342610009681 hypothetical protein; Provisional; Region: PRK10506 342610009682 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 342610009683 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 342610009684 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 342610009685 Type II transport protein GspH; Region: GspH; pfam12019 342610009686 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 342610009687 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 342610009688 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 342610009689 von Willebrand factor type A domain; Region: VWA_2; pfam13519 342610009690 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 342610009691 PilX N-terminal; Region: PilX_N; pfam14341 342610009692 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 342610009693 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 342610009694 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 342610009695 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 342610009696 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 342610009697 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 342610009698 lipoprotein signal peptidase; Provisional; Region: PRK14787 342610009699 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 342610009700 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610009701 active site 342610009702 HIGH motif; other site 342610009703 nucleotide binding site [chemical binding]; other site 342610009704 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 342610009705 active site 342610009706 KMSKS motif; other site 342610009707 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 342610009708 tRNA binding surface [nucleotide binding]; other site 342610009709 anticodon binding site; other site 342610009710 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 342610009711 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 342610009712 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 342610009713 active site 342610009714 Riboflavin kinase; Region: Flavokinase; smart00904 342610009715 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 342610009716 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 342610009717 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 342610009718 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 342610009719 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 342610009720 PA/protease or protease-like domain interface [polypeptide binding]; other site 342610009721 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 342610009722 Peptidase family M28; Region: Peptidase_M28; pfam04389 342610009723 metal binding site [ion binding]; metal-binding site 342610009724 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 342610009725 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 342610009726 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 342610009727 probable active site [active] 342610009728 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 342610009729 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 342610009730 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 342610009731 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610009732 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 342610009733 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 342610009734 SecY interacting protein Syd; Provisional; Region: PRK04968 342610009735 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 342610009736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 342610009737 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 342610009738 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 342610009739 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 342610009740 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 342610009741 tartrate dehydrogenase; Region: TTC; TIGR02089 342610009742 isocitrate dehydrogenase; Provisional; Region: PRK08997 342610009743 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 342610009744 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 342610009745 active site 342610009746 tetramer interface; other site 342610009747 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 342610009748 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 342610009749 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 342610009750 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 342610009751 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 342610009752 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 342610009753 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 342610009754 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 342610009755 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 342610009756 Ligand binding site; other site 342610009757 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 342610009758 active site 342610009759 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 342610009760 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 342610009761 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 342610009762 Probable Catalytic site; other site 342610009763 metal-binding site 342610009764 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 342610009765 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 342610009766 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 342610009767 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 342610009768 active site 342610009769 nucleotide binding site [chemical binding]; other site 342610009770 HIGH motif; other site 342610009771 KMSKS motif; other site 342610009772 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 342610009773 LicD family; Region: LicD; pfam04991 342610009774 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 342610009775 LicD family; Region: LicD; cl01378 342610009776 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 342610009777 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610009778 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 342610009779 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 342610009780 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 342610009781 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 342610009782 Probable Catalytic site; other site 342610009783 metal-binding site 342610009784 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 342610009785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 342610009786 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 342610009787 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610009788 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 342610009789 active site 342610009790 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610009791 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 342610009792 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 342610009793 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 342610009794 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 342610009795 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 342610009796 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 342610009797 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610009798 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610009799 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 342610009800 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 342610009801 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 342610009802 Walker A motif; other site 342610009803 ATP binding site [chemical binding]; other site 342610009804 Walker B motif; other site 342610009805 type II secretion system protein D; Region: type_II_gspD; TIGR02517 342610009806 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 342610009807 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 342610009808 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 342610009809 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 342610009810 Walker A/P-loop; other site 342610009811 ATP binding site [chemical binding]; other site 342610009812 Q-loop/lid; other site 342610009813 ABC transporter signature motif; other site 342610009814 Walker B; other site 342610009815 D-loop; other site 342610009816 H-loop/switch region; other site 342610009817 ABC-2 type transporter; Region: ABC2_membrane; cl17235 342610009818 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 342610009819 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610009820 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 342610009821 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 342610009822 Mg++ binding site [ion binding]; other site 342610009823 putative catalytic motif [active] 342610009824 substrate binding site [chemical binding]; other site 342610009825 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 342610009826 POT family; Region: PTR2; cl17359 342610009827 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 342610009828 UDP-glucose 4-epimerase; Region: PLN02240 342610009829 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 342610009830 NAD binding site [chemical binding]; other site 342610009831 homodimer interface [polypeptide binding]; other site 342610009832 active site 342610009833 substrate binding site [chemical binding]; other site 342610009834 VacJ like lipoprotein; Region: VacJ; cl01073 342610009835 TPR repeat; Region: TPR_11; pfam13414 342610009836 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 342610009837 binding surface 342610009838 TPR motif; other site 342610009839 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 342610009840 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 342610009841 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610009842 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 342610009843 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 342610009844 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 342610009845 heme exporter protein CcmC; Region: ccmC; TIGR01191 342610009846 heme exporter protein CcmB; Region: ccmB; TIGR01190 342610009847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610009848 Walker A/P-loop; other site 342610009849 ATP binding site [chemical binding]; other site 342610009850 ABC transporter; Region: ABC_tran; pfam00005 342610009851 Q-loop/lid; other site 342610009852 ABC transporter signature motif; other site 342610009853 Walker B; other site 342610009854 D-loop; other site 342610009855 H-loop/switch region; other site 342610009856 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 342610009857 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 342610009858 recombinase A; Provisional; Region: recA; PRK09354 342610009859 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 342610009860 hexamer interface [polypeptide binding]; other site 342610009861 Walker A motif; other site 342610009862 ATP binding site [chemical binding]; other site 342610009863 Walker B motif; other site 342610009864 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 342610009865 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 342610009866 Competence-damaged protein; Region: CinA; cl00666 342610009867 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 342610009868 MutS domain I; Region: MutS_I; pfam01624 342610009869 MutS domain II; Region: MutS_II; pfam05188 342610009870 MutS domain III; Region: MutS_III; pfam05192 342610009871 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 342610009872 Walker A/P-loop; other site 342610009873 ATP binding site [chemical binding]; other site 342610009874 Q-loop/lid; other site 342610009875 ABC transporter signature motif; other site 342610009876 Walker B; other site 342610009877 D-loop; other site 342610009878 H-loop/switch region; other site 342610009879 Response regulator receiver domain; Region: Response_reg; pfam00072 342610009880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610009881 active site 342610009882 phosphorylation site [posttranslational modification] 342610009883 intermolecular recognition site; other site 342610009884 dimerization interface [polypeptide binding]; other site 342610009885 CTP synthetase; Validated; Region: pyrG; PRK05380 342610009886 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 342610009887 Catalytic site [active] 342610009888 active site 342610009889 UTP binding site [chemical binding]; other site 342610009890 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 342610009891 active site 342610009892 putative oxyanion hole; other site 342610009893 catalytic triad [active] 342610009894 enolase; Provisional; Region: eno; PRK00077 342610009895 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 342610009896 dimer interface [polypeptide binding]; other site 342610009897 metal binding site [ion binding]; metal-binding site 342610009898 substrate binding pocket [chemical binding]; other site 342610009899 2-isopropylmalate synthase; Validated; Region: PRK00915 342610009900 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 342610009901 active site 342610009902 catalytic residues [active] 342610009903 metal binding site [ion binding]; metal-binding site 342610009904 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 342610009905 tartrate dehydrogenase; Region: TTC; TIGR02089 342610009906 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 342610009907 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 342610009908 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 342610009909 substrate binding site [chemical binding]; other site 342610009910 ligand binding site [chemical binding]; other site 342610009911 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 342610009912 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 342610009913 substrate binding site [chemical binding]; other site 342610009914 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610009915 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610009916 DNA binding site [nucleotide binding] 342610009917 domain linker motif; other site 342610009918 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 342610009919 dimerization interface [polypeptide binding]; other site 342610009920 ligand binding site [chemical binding]; other site 342610009921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 342610009922 CreA protein; Region: CreA; pfam05981 342610009923 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 342610009924 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 342610009925 catalytic domain interface [polypeptide binding]; other site 342610009926 homodimer interface [polypeptide binding]; other site 342610009927 putative active site [active] 342610009928 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 342610009929 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 342610009930 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 342610009931 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610009932 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610009933 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 342610009934 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 342610009935 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 342610009936 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 342610009937 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 342610009938 substrate binding pocket [chemical binding]; other site 342610009939 membrane-bound complex binding site; other site 342610009940 hinge residues; other site 342610009941 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 342610009942 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 342610009943 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 342610009944 Walker A motif; other site 342610009945 ATP binding site [chemical binding]; other site 342610009946 Walker B motif; other site 342610009947 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; cl00399 342610009948 arginine finger; other site 342610009949 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 342610009950 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 342610009951 active site 342610009952 NTP binding site [chemical binding]; other site 342610009953 metal binding triad [ion binding]; metal-binding site 342610009954 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 342610009955 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610009956 Zn2+ binding site [ion binding]; other site 342610009957 Mg2+ binding site [ion binding]; other site 342610009958 dUTPase; Region: dUTPase_2; pfam08761 342610009959 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 342610009960 active site 342610009961 homodimer interface [polypeptide binding]; other site 342610009962 metal binding site [ion binding]; metal-binding site 342610009963 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 342610009964 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 342610009965 DEAD-like helicases superfamily; Region: DEXDc; smart00487 342610009966 ATP binding site [chemical binding]; other site 342610009967 Mg++ binding site [ion binding]; other site 342610009968 motif III; other site 342610009969 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 342610009970 nucleotide binding region [chemical binding]; other site 342610009971 ATP-binding site [chemical binding]; other site 342610009972 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 342610009973 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 342610009974 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 342610009975 active site 342610009976 dimerization interface [polypeptide binding]; other site 342610009977 HemN family oxidoreductase; Provisional; Region: PRK05660 342610009978 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 342610009979 FeS/SAM binding site; other site 342610009980 HemN C-terminal domain; Region: HemN_C; pfam06969 342610009981 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 342610009982 DNA methylase; Region: N6_N4_Mtase; pfam01555 342610009983 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 342610009984 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 342610009985 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; cl17457 342610009986 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 342610009987 LrgB-like family; Region: LrgB; pfam04172 342610009988 LrgA family; Region: LrgA; pfam03788 342610009989 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 342610009990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610009991 active site 342610009992 phosphorylation site [posttranslational modification] 342610009993 intermolecular recognition site; other site 342610009994 dimerization interface [polypeptide binding]; other site 342610009995 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 342610009996 Walker A motif; other site 342610009997 ATP binding site [chemical binding]; other site 342610009998 Walker B motif; other site 342610009999 arginine finger; other site 342610010000 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 342610010001 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 342610010002 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 342610010003 ATP binding site [chemical binding]; other site 342610010004 Mg2+ binding site [ion binding]; other site 342610010005 G-X-G motif; other site 342610010006 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 342610010007 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 342610010008 dimer interface [polypeptide binding]; other site 342610010009 active site 342610010010 CoA binding pocket [chemical binding]; other site 342610010011 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 342610010012 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 342610010013 putative substrate translocation pore; other site 342610010014 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 342610010015 putative substrate translocation pore; other site 342610010016 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610010017 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 342610010018 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610010019 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610010020 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 342610010021 putative effector binding pocket; other site 342610010022 dimerization interface [polypeptide binding]; other site 342610010023 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 342610010024 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610010025 NAD binding site [chemical binding]; other site 342610010026 substrate binding site [chemical binding]; other site 342610010027 putative active site [active] 342610010028 MgtC family; Region: MgtC; pfam02308 342610010029 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610010030 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 342610010031 CoenzymeA binding site [chemical binding]; other site 342610010032 subunit interaction site [polypeptide binding]; other site 342610010033 PHB binding site; other site 342610010034 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 342610010035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610010036 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 342610010037 DNA binding residues [nucleotide binding] 342610010038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610010039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610010040 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 342610010041 dimerization interface [polypeptide binding]; other site 342610010042 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 342610010043 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 342610010044 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 342610010045 transcriptional regulator PhoU; Provisional; Region: PRK11115 342610010046 PhoU domain; Region: PhoU; pfam01895 342610010047 PhoU domain; Region: PhoU; pfam01895 342610010048 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 342610010049 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 342610010050 Walker A/P-loop; other site 342610010051 ATP binding site [chemical binding]; other site 342610010052 Q-loop/lid; other site 342610010053 ABC transporter signature motif; other site 342610010054 Walker B; other site 342610010055 D-loop; other site 342610010056 H-loop/switch region; other site 342610010057 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 342610010058 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 342610010059 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 342610010060 dimer interface [polypeptide binding]; other site 342610010061 conserved gate region; other site 342610010062 putative PBP binding loops; other site 342610010063 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 342610010064 ABC-ATPase subunit interface; other site 342610010065 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 342610010066 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 342610010067 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 342610010068 dimer interface [polypeptide binding]; other site 342610010069 conserved gate region; other site 342610010070 putative PBP binding loops; other site 342610010071 ABC-ATPase subunit interface; other site 342610010072 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 342610010073 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 342610010074 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 342610010075 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 342610010076 ACT domain; Region: ACT_6; pfam13740 342610010077 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 342610010078 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 342610010079 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 342610010080 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 342610010081 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 342610010082 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 342610010083 domain interface [polypeptide binding]; other site 342610010084 active site 342610010085 catalytic site [active] 342610010086 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 342610010087 putative active site [active] 342610010088 catalytic site [active] 342610010089 exopolyphosphatase; Provisional; Region: PRK10854 342610010090 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 342610010091 nucleotide binding site [chemical binding]; other site 342610010092 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 342610010093 HD domain; Region: HD_3; pfam13023 342610010094 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 342610010095 catalytic residue [active] 342610010096 Phosphoglycerate kinase; Region: PGK; pfam00162 342610010097 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 342610010098 substrate binding site [chemical binding]; other site 342610010099 hinge regions; other site 342610010100 ADP binding site [chemical binding]; other site 342610010101 catalytic site [active] 342610010102 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 342610010103 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 342610010104 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 342610010105 transketolase; Reviewed; Region: PRK12753 342610010106 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 342610010107 TPP-binding site [chemical binding]; other site 342610010108 dimer interface [polypeptide binding]; other site 342610010109 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 342610010110 PYR/PP interface [polypeptide binding]; other site 342610010111 dimer interface [polypeptide binding]; other site 342610010112 TPP binding site [chemical binding]; other site 342610010113 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 342610010114 S-adenosylmethionine synthetase; Validated; Region: PRK05250 342610010115 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 342610010116 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 342610010117 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 342610010118 Peptidase family M48; Region: Peptidase_M48; pfam01435 342610010119 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610010120 RNA methyltransferase, RsmE family; Region: TIGR00046 342610010121 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 342610010122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010123 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 342610010124 ATP binding site [chemical binding]; other site 342610010125 Mg2+ binding site [ion binding]; other site 342610010126 G-X-G motif; other site 342610010127 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610010128 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 342610010129 Glutathione S-transferase, C-terminal domain; Region: GST_C_2; pfam13410 342610010130 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610010131 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 342610010132 catalytic triad [active] 342610010133 dimer interface [polypeptide binding]; other site 342610010134 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610010135 Domain of unknown function (DUF329); Region: DUF329; pfam03884 342610010136 hypothetical protein; Provisional; Region: PRK05287 342610010137 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 342610010138 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 342610010139 CoA-binding site [chemical binding]; other site 342610010140 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 342610010141 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 342610010142 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 342610010143 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 342610010144 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610010145 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 342610010146 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 342610010147 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 342610010148 Pilin (bacterial filament); Region: Pilin; pfam00114 342610010149 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 342610010150 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 342610010151 dimerization interface [polypeptide binding]; other site 342610010152 active site 342610010153 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 342610010154 catalytic motif [active] 342610010155 Catalytic residue [active] 342610010156 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 342610010157 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 342610010158 amidase catalytic site [active] 342610010159 substrate binding site [chemical binding]; other site 342610010160 Zn binding residues [ion binding]; other site 342610010161 regulatory protein AmpE; Provisional; Region: PRK10987 342610010162 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 342610010163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610010164 DNA-binding site [nucleotide binding]; DNA binding site 342610010165 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 342610010166 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 342610010167 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 342610010168 dimer interface [polypeptide binding]; other site 342610010169 TPP-binding site [chemical binding]; other site 342610010170 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 342610010171 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 342610010172 E3 interaction surface; other site 342610010173 lipoyl attachment site [posttranslational modification]; other site 342610010174 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 342610010175 E3 interaction surface; other site 342610010176 lipoyl attachment site [posttranslational modification]; other site 342610010177 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 342610010178 E3 interaction surface; other site 342610010179 lipoyl attachment site [posttranslational modification]; other site 342610010180 e3 binding domain; Region: E3_binding; pfam02817 342610010181 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 342610010182 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 342610010183 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610010184 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610010185 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 342610010186 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 342610010187 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 342610010188 active site 342610010189 Zn binding site [ion binding]; other site 342610010190 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 342610010191 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 342610010192 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 342610010193 TAP-like protein; Region: Abhydrolase_4; pfam08386 342610010194 HDOD domain; Region: HDOD; pfam08668 342610010195 Protein of unknown function, DUF481; Region: DUF481; pfam04338 342610010196 Protein of unknown function, DUF481; Region: DUF481; pfam04338 342610010197 HAMP domain; Region: HAMP; pfam00672 342610010198 dimerization interface [polypeptide binding]; other site 342610010199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010201 metal binding site [ion binding]; metal-binding site 342610010202 active site 342610010203 I-site; other site 342610010204 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 342610010205 FimV N-terminal domain; Region: FimV_core; TIGR03505 342610010206 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 342610010207 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 342610010208 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 342610010209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610010210 Walker A/P-loop; other site 342610010211 ATP binding site [chemical binding]; other site 342610010212 Q-loop/lid; other site 342610010213 ABC transporter signature motif; other site 342610010214 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 342610010215 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 342610010216 ligand binding site [chemical binding]; other site 342610010217 NAD binding site [chemical binding]; other site 342610010218 catalytic site [active] 342610010219 homodimer interface [polypeptide binding]; other site 342610010220 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 342610010221 aldolase II superfamily protein; Provisional; Region: PRK07044 342610010222 intersubunit interface [polypeptide binding]; other site 342610010223 active site 342610010224 Zn2+ binding site [ion binding]; other site 342610010225 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 342610010226 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 342610010227 ligand binding site [chemical binding]; other site 342610010228 flexible hinge region; other site 342610010229 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 342610010230 non-specific DNA interactions [nucleotide binding]; other site 342610010231 DNA binding site [nucleotide binding] 342610010232 sequence specific DNA binding site [nucleotide binding]; other site 342610010233 putative cAMP binding site [chemical binding]; other site 342610010234 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 342610010235 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 342610010236 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010237 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 342610010238 ATP binding site [chemical binding]; other site 342610010239 Mg2+ binding site [ion binding]; other site 342610010240 G-X-G motif; other site 342610010241 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 342610010242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610010243 active site 342610010244 phosphorylation site [posttranslational modification] 342610010245 intermolecular recognition site; other site 342610010246 dimerization interface [polypeptide binding]; other site 342610010247 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 342610010248 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010250 metal binding site [ion binding]; metal-binding site 342610010251 active site 342610010252 I-site; other site 342610010253 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 342610010254 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 342610010255 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 342610010256 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 342610010257 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610010258 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 342610010259 Nucleoid-associated protein [General function prediction only]; Region: COG3081 342610010260 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 342610010261 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 342610010262 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 342610010263 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 342610010264 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 342610010265 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 342610010266 Major Facilitator Superfamily; Region: MFS_1; pfam07690 342610010267 putative substrate translocation pore; other site 342610010268 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 342610010269 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 342610010270 dimer interface [polypeptide binding]; other site 342610010271 active site 342610010272 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 342610010273 Uncharacterized conserved protein [Function unknown]; Region: COG4121 342610010274 YfcL protein; Region: YfcL; pfam08891 342610010275 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 342610010276 ATP-NAD kinase; Region: NAD_kinase; pfam01513 342610010277 Protein of unknown function, DUF462; Region: DUF462; pfam04315 342610010278 Domain of unknown function (DUF1083); Region: DUF1083; pfam06452 342610010279 putative ligand binding site [chemical binding]; other site 342610010280 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 342610010281 active site 342610010282 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 342610010283 catalytic motif [active] 342610010284 Catalytic residue [active] 342610010285 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 342610010286 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 342610010287 ATP binding site [chemical binding]; other site 342610010288 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 342610010289 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 342610010290 putative trimer interface [polypeptide binding]; other site 342610010291 putative CoA binding site [chemical binding]; other site 342610010292 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 342610010293 arsenical-resistance protein; Region: acr3; TIGR00832 342610010294 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 342610010295 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 342610010296 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 342610010297 Low molecular weight phosphatase family; Region: LMWPc; cd00115 342610010298 active site 342610010299 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 342610010300 putative DNA binding site [nucleotide binding]; other site 342610010301 dimerization interface [polypeptide binding]; other site 342610010302 putative Zn2+ binding site [ion binding]; other site 342610010303 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610010304 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 342610010305 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 342610010306 RNA/DNA hybrid binding site [nucleotide binding]; other site 342610010307 active site 342610010308 YcxB-like protein; Region: YcxB; pfam14317 342610010309 MltA-interacting protein MipA; Region: MipA; cl01504 342610010310 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 342610010311 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 342610010312 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 342610010313 homodimer interface [polypeptide binding]; other site 342610010314 substrate-cofactor binding pocket; other site 342610010315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610010316 catalytic residue [active] 342610010317 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 342610010318 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610010319 putative active site [active] 342610010320 putative metal binding site [ion binding]; other site 342610010321 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 342610010322 Sulfatase; Region: Sulfatase; cl17466 342610010323 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 342610010324 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 342610010325 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610010326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610010327 active site 342610010328 phosphorylation site [posttranslational modification] 342610010329 intermolecular recognition site; other site 342610010330 dimerization interface [polypeptide binding]; other site 342610010331 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 342610010332 DNA binding site [nucleotide binding] 342610010333 two-component sensor protein; Provisional; Region: cpxA; PRK09470 342610010334 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 342610010335 dimerization interface [polypeptide binding]; other site 342610010336 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 342610010337 dimer interface [polypeptide binding]; other site 342610010338 phosphorylation site [posttranslational modification] 342610010339 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 342610010340 ATP binding site [chemical binding]; other site 342610010341 Mg2+ binding site [ion binding]; other site 342610010342 G-X-G motif; other site 342610010343 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 342610010344 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610010345 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 342610010346 N-terminal plug; other site 342610010347 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 342610010348 ligand-binding site [chemical binding]; other site 342610010349 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 342610010350 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 342610010351 putative metal binding site [ion binding]; other site 342610010352 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 342610010353 HSP70 interaction site [polypeptide binding]; other site 342610010354 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 342610010355 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 342610010356 Substrate binding site; other site 342610010357 metal-binding site 342610010358 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 342610010359 Phosphotransferase enzyme family; Region: APH; pfam01636 342610010360 OstA-like protein; Region: OstA; cl00844 342610010361 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 342610010362 Organic solvent tolerance protein; Region: OstA_C; pfam04453 342610010363 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 342610010364 SurA N-terminal domain; Region: SurA_N; pfam09312 342610010365 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 342610010366 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 342610010367 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 342610010368 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 342610010369 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 342610010370 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 342610010371 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 342610010372 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 342610010373 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 342610010374 active site 342610010375 metal binding site [ion binding]; metal-binding site 342610010376 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 342610010377 dimerization interface [polypeptide binding]; other site 342610010378 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610010379 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610010380 dimer interface [polypeptide binding]; other site 342610010381 putative CheW interface [polypeptide binding]; other site 342610010382 aspartate kinase III; Validated; Region: PRK09084 342610010383 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 342610010384 nucleotide binding site [chemical binding]; other site 342610010385 putative catalytic residues [active] 342610010386 aspartate binding site [chemical binding]; other site 342610010387 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 342610010388 lysine allosteric regulatory site; other site 342610010389 dimer interface [polypeptide binding]; other site 342610010390 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 342610010391 dimer interface [polypeptide binding]; other site 342610010392 amidase; Provisional; Region: PRK08137 342610010393 Amidase; Region: Amidase; pfam01425 342610010394 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 342610010395 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 342610010396 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 342610010397 substrate binding site [chemical binding]; other site 342610010398 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 342610010399 substrate binding site [chemical binding]; other site 342610010400 ligand binding site [chemical binding]; other site 342610010401 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 342610010402 Strictosidine synthase; Region: Str_synth; pfam03088 342610010403 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 342610010404 intracellular protease, PfpI family; Region: PfpI; TIGR01382 342610010405 proposed catalytic triad [active] 342610010406 conserved cys residue [active] 342610010407 hypothetical protein; Provisional; Region: PRK01254 342610010408 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 342610010409 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 342610010410 Transglycosylase SLT domain; Region: SLT_2; pfam13406 342610010411 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 342610010412 N-acetyl-D-glucosamine binding site [chemical binding]; other site 342610010413 catalytic residue [active] 342610010414 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 342610010415 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 342610010416 active site 342610010417 catalytic residues [active] 342610010418 metal binding site [ion binding]; metal-binding site 342610010419 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 342610010420 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 342610010421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610010422 Walker A/P-loop; other site 342610010423 ATP binding site [chemical binding]; other site 342610010424 Q-loop/lid; other site 342610010425 ABC transporter signature motif; other site 342610010426 Walker B; other site 342610010427 D-loop; other site 342610010428 H-loop/switch region; other site 342610010429 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 342610010430 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 342610010431 Sulfatase; Region: Sulfatase; pfam00884 342610010432 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 342610010433 active site 342610010434 catalytic triad [active] 342610010435 oxyanion hole [active] 342610010436 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 342610010437 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 342610010438 putative active site [active] 342610010439 heme pocket [chemical binding]; other site 342610010440 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010442 metal binding site [ion binding]; metal-binding site 342610010443 active site 342610010444 I-site; other site 342610010445 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 342610010446 Ecdysteroid kinase; Region: EcKinase; cl17738 342610010447 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 342610010448 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610010449 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 342610010450 N-terminal plug; other site 342610010451 ligand-binding site [chemical binding]; other site 342610010452 exonuclease subunit SbcD; Provisional; Region: PRK10966 342610010453 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 342610010454 active site 342610010455 metal binding site [ion binding]; metal-binding site 342610010456 DNA binding site [nucleotide binding] 342610010457 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 342610010458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610010459 Walker A/P-loop; other site 342610010460 ATP binding site [chemical binding]; other site 342610010461 Q-loop/lid; other site 342610010462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610010463 ABC transporter signature motif; other site 342610010464 Walker B; other site 342610010465 D-loop; other site 342610010466 H-loop/switch region; other site 342610010467 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 342610010468 non-specific DNA binding site [nucleotide binding]; other site 342610010469 salt bridge; other site 342610010470 sequence-specific DNA binding site [nucleotide binding]; other site 342610010471 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 342610010472 AAA domain; Region: AAA_21; pfam13304 342610010473 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 342610010474 D-galactonate transporter; Region: 2A0114; TIGR00893 342610010475 putative substrate translocation pore; other site 342610010476 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 342610010477 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 342610010478 ATP binding site [chemical binding]; other site 342610010479 putative Mg++ binding site [ion binding]; other site 342610010480 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 342610010481 nucleotide binding region [chemical binding]; other site 342610010482 ATP-binding site [chemical binding]; other site 342610010483 Double zinc ribbon; Region: DZR; pfam12773 342610010484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 342610010485 nucleotide binding site [chemical binding]; other site 342610010486 glutaredoxin 2; Provisional; Region: PRK10387 342610010487 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 342610010488 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 342610010489 N-terminal domain interface [polypeptide binding]; other site 342610010490 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 342610010491 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 342610010492 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 342610010493 Protein of unknown function (DUF502); Region: DUF502; cl01107 342610010494 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 342610010495 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 342610010496 dimerization interface [polypeptide binding]; other site 342610010497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610010498 dimer interface [polypeptide binding]; other site 342610010499 putative CheW interface [polypeptide binding]; other site 342610010500 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 342610010501 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 342610010502 putative DNA binding site [nucleotide binding]; other site 342610010503 putative Zn2+ binding site [ion binding]; other site 342610010504 AsnC family; Region: AsnC_trans_reg; pfam01037 342610010505 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610010506 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 342610010507 N-terminal plug; other site 342610010508 ligand-binding site [chemical binding]; other site 342610010509 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 342610010510 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 342610010511 Na binding site [ion binding]; other site 342610010512 Protein of unknown function (DUF917); Region: DUF917; pfam06032 342610010513 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 342610010514 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 342610010515 RNA binding surface [nucleotide binding]; other site 342610010516 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 342610010517 active site 342610010518 uracil binding [chemical binding]; other site 342610010519 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 342610010520 binding surface 342610010521 Tetratricopeptide repeat; Region: TPR_16; pfam13432 342610010522 TPR motif; other site 342610010523 TPR repeat; Region: TPR_11; pfam13414 342610010524 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 342610010525 TPR motif; other site 342610010526 binding surface 342610010527 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 342610010528 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 342610010529 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610010530 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 342610010531 N-terminal plug; other site 342610010532 ligand-binding site [chemical binding]; other site 342610010533 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 342610010534 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 342610010535 heme-binding site [chemical binding]; other site 342610010536 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 342610010537 FAD binding pocket [chemical binding]; other site 342610010538 FAD binding motif [chemical binding]; other site 342610010539 phosphate binding motif [ion binding]; other site 342610010540 beta-alpha-beta structure motif; other site 342610010541 NAD binding pocket [chemical binding]; other site 342610010542 Heme binding pocket [chemical binding]; other site 342610010543 NnrS protein; Region: NnrS; pfam05940 342610010544 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 342610010545 GAF domain; Region: GAF; pfam01590 342610010546 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 342610010547 Walker A motif; other site 342610010548 ATP binding site [chemical binding]; other site 342610010549 Walker B motif; other site 342610010550 arginine finger; other site 342610010551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 342610010552 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 342610010553 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 342610010554 putative active site [active] 342610010555 heme pocket [chemical binding]; other site 342610010556 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 342610010557 putative active site [active] 342610010558 heme pocket [chemical binding]; other site 342610010559 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610010560 dimer interface [polypeptide binding]; other site 342610010561 putative CheW interface [polypeptide binding]; other site 342610010562 cyanate hydratase; Validated; Region: PRK02866 342610010563 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 342610010564 oligomer interface [polypeptide binding]; other site 342610010565 active site 342610010566 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 342610010567 active site 342610010568 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 342610010569 Catalytic domain of Protein Kinases; Region: PKc; cd00180 342610010570 active site 342610010571 ATP binding site [chemical binding]; other site 342610010572 substrate binding site [chemical binding]; other site 342610010573 activation loop (A-loop); other site 342610010574 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 342610010575 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 342610010576 catalytic site [active] 342610010577 putative active site [active] 342610010578 putative substrate binding site [chemical binding]; other site 342610010579 dimer interface [polypeptide binding]; other site 342610010580 GTPase RsgA; Reviewed; Region: PRK12288 342610010581 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 342610010582 RNA binding site [nucleotide binding]; other site 342610010583 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 342610010584 GTPase/Zn-binding domain interface [polypeptide binding]; other site 342610010585 GTP/Mg2+ binding site [chemical binding]; other site 342610010586 G4 box; other site 342610010587 G5 box; other site 342610010588 G1 box; other site 342610010589 Switch I region; other site 342610010590 G2 box; other site 342610010591 G3 box; other site 342610010592 Switch II region; other site 342610010593 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 342610010594 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 342610010595 EamA-like transporter family; Region: EamA; pfam00892 342610010596 EamA-like transporter family; Region: EamA; pfam00892 342610010597 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 342610010598 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 342610010599 active site 342610010600 catalytic site [active] 342610010601 MerC mercury resistance protein; Region: MerC; pfam03203 342610010602 Methyltransferase domain; Region: Methyltransf_32; pfam13679 342610010603 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 342610010604 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 342610010605 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 342610010606 active site 342610010607 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 342610010608 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 342610010609 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 342610010610 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 342610010611 MoxR-like ATPases [General function prediction only]; Region: COG0714 342610010612 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 342610010613 Walker A motif; other site 342610010614 ATP binding site [chemical binding]; other site 342610010615 Walker B motif; other site 342610010616 arginine finger; other site 342610010617 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 342610010618 Protein of unknown function DUF58; Region: DUF58; pfam01882 342610010619 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 342610010620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610010621 Coenzyme A binding pocket [chemical binding]; other site 342610010622 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 342610010623 putative deacylase active site [active] 342610010624 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 342610010625 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 342610010626 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 342610010627 proline aminopeptidase P II; Provisional; Region: PRK10879 342610010628 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 342610010629 active site 342610010630 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 342610010631 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610010632 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 342610010633 substrate binding site [chemical binding]; other site 342610010634 dimer interface [polypeptide binding]; other site 342610010635 ATP binding site [chemical binding]; other site 342610010636 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 342610010637 active site 342610010638 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 342610010639 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 342610010640 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 342610010641 tetramer (dimer of dimers) interface [polypeptide binding]; other site 342610010642 active site 342610010643 dimer interface [polypeptide binding]; other site 342610010644 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 342610010645 active site 342610010646 8-oxo-dGMP binding site [chemical binding]; other site 342610010647 nudix motif; other site 342610010648 metal binding site [ion binding]; metal-binding site 342610010649 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 342610010650 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 342610010651 SEC-C motif; Region: SEC-C; pfam02810 342610010652 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 342610010653 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610010654 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 342610010655 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 342610010656 cell division protein FtsZ; Validated; Region: PRK09330 342610010657 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 342610010658 nucleotide binding site [chemical binding]; other site 342610010659 SulA interaction site; other site 342610010660 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 342610010661 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 342610010662 nucleotide binding site [chemical binding]; other site 342610010663 Cell division protein FtsA; Region: FtsA; pfam14450 342610010664 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 342610010665 Cell division protein FtsQ; Region: FtsQ; pfam03799 342610010666 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 342610010667 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 342610010668 ATP-grasp domain; Region: ATP-grasp_4; cl17255 342610010669 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 342610010670 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 342610010671 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010672 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010673 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 342610010674 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 342610010675 active site 342610010676 homodimer interface [polypeptide binding]; other site 342610010677 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 342610010678 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 342610010679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010680 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010681 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 342610010682 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 342610010683 Mg++ binding site [ion binding]; other site 342610010684 putative catalytic motif [active] 342610010685 putative substrate binding site [chemical binding]; other site 342610010686 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 342610010687 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 342610010688 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010689 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010690 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 342610010691 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 342610010692 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 342610010693 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 342610010694 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 342610010695 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 342610010696 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 342610010697 Cell division protein FtsL; Region: FtsL; pfam04999 342610010698 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 342610010699 MraW methylase family; Region: Methyltransf_5; pfam01795 342610010700 cell division protein MraZ; Reviewed; Region: PRK00326 342610010701 MraZ protein; Region: MraZ; pfam02381 342610010702 MraZ protein; Region: MraZ; pfam02381 342610010703 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 342610010704 classical (c) SDRs; Region: SDR_c; cd05233 342610010705 NAD(P) binding site [chemical binding]; other site 342610010706 active site 342610010707 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 342610010708 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 342610010709 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 342610010710 Strictosidine synthase; Region: Str_synth; pfam03088 342610010711 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610010712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610010713 DNA-binding site [nucleotide binding]; DNA binding site 342610010714 FCD domain; Region: FCD; pfam07729 342610010715 glycerol kinase; Provisional; Region: glpK; PRK00047 342610010716 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 342610010717 N- and C-terminal domain interface [polypeptide binding]; other site 342610010718 active site 342610010719 MgATP binding site [chemical binding]; other site 342610010720 catalytic site [active] 342610010721 metal binding site [ion binding]; metal-binding site 342610010722 glycerol binding site [chemical binding]; other site 342610010723 homotetramer interface [polypeptide binding]; other site 342610010724 homodimer interface [polypeptide binding]; other site 342610010725 FBP binding site [chemical binding]; other site 342610010726 protein IIAGlc interface [polypeptide binding]; other site 342610010727 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 342610010728 active site 342610010729 catalytic residues [active] 342610010730 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 342610010731 Uncharacterized conserved protein [Function unknown]; Region: COG1359 342610010732 Uncharacterized conserved protein [Function unknown]; Region: COG1359 342610010733 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 342610010734 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610010735 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 342610010736 DNA binding residues [nucleotide binding] 342610010737 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 342610010738 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 342610010739 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010741 metal binding site [ion binding]; metal-binding site 342610010742 active site 342610010743 I-site; other site 342610010744 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 342610010745 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 342610010746 Walker A motif; other site 342610010747 ATP binding site [chemical binding]; other site 342610010748 Walker B motif; other site 342610010749 arginine finger; other site 342610010750 Response regulator receiver domain; Region: Response_reg; pfam00072 342610010751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610010752 active site 342610010753 phosphorylation site [posttranslational modification] 342610010754 intermolecular recognition site; other site 342610010755 dimerization interface [polypeptide binding]; other site 342610010756 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010758 metal binding site [ion binding]; metal-binding site 342610010759 active site 342610010760 I-site; other site 342610010761 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 342610010762 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 342610010763 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 342610010764 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010765 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 342610010766 dimer interface [polypeptide binding]; other site 342610010767 phosphorylation site [posttranslational modification] 342610010768 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 342610010769 ATP binding site [chemical binding]; other site 342610010770 Mg2+ binding site [ion binding]; other site 342610010771 G-X-G motif; other site 342610010772 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610010773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610010774 active site 342610010775 phosphorylation site [posttranslational modification] 342610010776 intermolecular recognition site; other site 342610010777 dimerization interface [polypeptide binding]; other site 342610010778 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 342610010779 putative binding surface; other site 342610010780 active site 342610010781 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 342610010782 active site 342610010783 catalytic triad [active] 342610010784 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610010785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610010786 active site 342610010787 phosphorylation site [posttranslational modification] 342610010788 intermolecular recognition site; other site 342610010789 dimerization interface [polypeptide binding]; other site 342610010790 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010791 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010792 metal binding site [ion binding]; metal-binding site 342610010793 active site 342610010794 I-site; other site 342610010795 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 342610010796 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 342610010797 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 342610010798 putative active site [active] 342610010799 heme pocket [chemical binding]; other site 342610010800 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 342610010801 dimer interface [polypeptide binding]; other site 342610010802 phosphorylation site [posttranslational modification] 342610010803 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 342610010804 ATP binding site [chemical binding]; other site 342610010805 Mg2+ binding site [ion binding]; other site 342610010806 G-X-G motif; other site 342610010807 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610010808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610010809 active site 342610010810 phosphorylation site [posttranslational modification] 342610010811 intermolecular recognition site; other site 342610010812 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010813 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 342610010814 dimer interface [polypeptide binding]; other site 342610010815 phosphorylation site [posttranslational modification] 342610010816 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 342610010817 ATP binding site [chemical binding]; other site 342610010818 Mg2+ binding site [ion binding]; other site 342610010819 G-X-G motif; other site 342610010820 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610010821 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610010822 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610010823 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610010824 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 342610010825 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 342610010826 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 342610010827 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 342610010828 Predicted transcriptional regulator [Transcription]; Region: COG2378 342610010829 HTH domain; Region: HTH_11; pfam08279 342610010830 WYL domain; Region: WYL; pfam13280 342610010831 glucosamine-fructose-6-phosphate aminotransferase; Provisional; Region: PTZ00295 342610010832 Beta-tubulin folding cofactor D [Posttranslational modification, protein turnover, chaperones / Cytoskeleton]; Region: CIN1; COG5234 342610010833 RDD family; Region: RDD; pfam06271 342610010834 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 342610010835 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 342610010836 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 342610010837 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 342610010838 multifunctional aminopeptidase A; Provisional; Region: PRK00913 342610010839 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 342610010840 interface (dimer of trimers) [polypeptide binding]; other site 342610010841 Substrate-binding/catalytic site; other site 342610010842 Zn-binding sites [ion binding]; other site 342610010843 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 342610010844 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 342610010845 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 342610010846 HIGH motif; other site 342610010847 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 342610010848 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 342610010849 active site 342610010850 KMSKS motif; other site 342610010851 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 342610010852 tRNA binding surface [nucleotide binding]; other site 342610010853 anticodon binding site; other site 342610010854 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 342610010855 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 342610010856 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 342610010857 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 342610010858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010860 metal binding site [ion binding]; metal-binding site 342610010861 active site 342610010862 I-site; other site 342610010863 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 342610010864 MltA-interacting protein MipA; Region: MipA; cl01504 342610010865 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 342610010866 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 342610010867 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610010868 active site 342610010869 phosphorylation site [posttranslational modification] 342610010870 intermolecular recognition site; other site 342610010871 dimerization interface [polypeptide binding]; other site 342610010872 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 342610010873 DNA binding site [nucleotide binding] 342610010874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010875 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 342610010876 dimer interface [polypeptide binding]; other site 342610010877 phosphorylation site [posttranslational modification] 342610010878 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 342610010879 ATP binding site [chemical binding]; other site 342610010880 Mg2+ binding site [ion binding]; other site 342610010881 G-X-G motif; other site 342610010882 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 342610010883 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 342610010884 serine/threonine protein kinase; Provisional; Region: PRK11768 342610010885 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 342610010886 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 342610010887 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 342610010888 catalytic residues [active] 342610010889 hinge region; other site 342610010890 alpha helical domain; other site 342610010891 MASE1; Region: MASE1; cl17823 342610010892 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610010893 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610010894 metal binding site [ion binding]; metal-binding site 342610010895 active site 342610010896 I-site; other site 342610010897 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 342610010898 ligand binding site [chemical binding]; other site 342610010899 active site 342610010900 UGI interface [polypeptide binding]; other site 342610010901 catalytic site [active] 342610010902 threonine synthase; Validated; Region: PRK09225 342610010903 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 342610010904 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610010905 catalytic residue [active] 342610010906 homoserine kinase; Provisional; Region: PRK01212 342610010907 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 342610010908 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 342610010909 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 342610010910 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 342610010911 putative catalytic residues [active] 342610010912 putative nucleotide binding site [chemical binding]; other site 342610010913 putative aspartate binding site [chemical binding]; other site 342610010914 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 342610010915 dimer interface [polypeptide binding]; other site 342610010916 putative threonine allosteric regulatory site; other site 342610010917 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 342610010918 putative threonine allosteric regulatory site; other site 342610010919 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 342610010920 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 342610010921 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 342610010922 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 342610010923 ligand binding site; other site 342610010924 oligomer interface; other site 342610010925 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 342610010926 dimer interface [polypeptide binding]; other site 342610010927 N-terminal domain interface [polypeptide binding]; other site 342610010928 sulfate 1 binding site; other site 342610010929 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 342610010930 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 342610010931 putative dimer interface [polypeptide binding]; other site 342610010932 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 342610010933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610010934 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 342610010935 dimer interface [polypeptide binding]; other site 342610010936 phosphorylation site [posttranslational modification] 342610010937 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 342610010938 ATP binding site [chemical binding]; other site 342610010939 Mg2+ binding site [ion binding]; other site 342610010940 G-X-G motif; other site 342610010941 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 342610010942 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 342610010943 FeS/SAM binding site; other site 342610010944 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 342610010945 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 342610010946 AAA domain; Region: AAA_13; pfam13166 342610010947 glycine dehydrogenase; Provisional; Region: PRK05367 342610010948 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 342610010949 tetramer interface [polypeptide binding]; other site 342610010950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610010951 catalytic residue [active] 342610010952 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 342610010953 tetramer interface [polypeptide binding]; other site 342610010954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610010955 catalytic residue [active] 342610010956 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 342610010957 lipoyl attachment site [posttranslational modification]; other site 342610010958 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 342610010959 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 342610010960 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610010961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610010962 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 342610010963 dimerization interface [polypeptide binding]; other site 342610010964 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 342610010965 Haemolysin-III related; Region: HlyIII; cl03831 342610010966 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 342610010967 WYL domain; Region: WYL; pfam13280 342610010968 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 342610010969 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610010970 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610010971 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 342610010972 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 342610010973 GIY-YIG motif/motif A; other site 342610010974 putative active site [active] 342610010975 putative metal binding site [ion binding]; other site 342610010976 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 342610010977 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610010978 metal binding triad; other site 342610010979 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 342610010980 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 342610010981 metal binding triad; other site 342610010982 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 342610010983 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 342610010984 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 342610010985 putative acyl-acceptor binding pocket; other site 342610010986 PAS domain; Region: PAS_9; pfam13426 342610010987 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 342610010988 PAS fold; Region: PAS_3; pfam08447 342610010989 putative active site [active] 342610010990 heme pocket [chemical binding]; other site 342610010991 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 342610010992 PAS domain; Region: PAS_9; pfam13426 342610010993 putative active site [active] 342610010994 heme pocket [chemical binding]; other site 342610010995 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 342610010996 PAS domain; Region: PAS_9; pfam13426 342610010997 putative active site [active] 342610010998 heme pocket [chemical binding]; other site 342610010999 PAS fold; Region: PAS_3; pfam08447 342610011000 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610011001 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 342610011002 dimer interface [polypeptide binding]; other site 342610011003 phosphorylation site [posttranslational modification] 342610011004 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 342610011005 ATP binding site [chemical binding]; other site 342610011006 Mg2+ binding site [ion binding]; other site 342610011007 G-X-G motif; other site 342610011008 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011010 active site 342610011011 phosphorylation site [posttranslational modification] 342610011012 intermolecular recognition site; other site 342610011013 dimerization interface [polypeptide binding]; other site 342610011014 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610011015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011016 active site 342610011017 phosphorylation site [posttranslational modification] 342610011018 intermolecular recognition site; other site 342610011019 dimerization interface [polypeptide binding]; other site 342610011020 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 342610011021 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610011022 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610011023 cation transport regulator; Reviewed; Region: chaB; PRK09582 342610011024 Protein of unknown function (DUF808); Region: DUF808; pfam05661 342610011025 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 342610011026 putative active site [active] 342610011027 putative catalytic site [active] 342610011028 NodB motif; other site 342610011029 Zn binding site [ion binding]; other site 342610011030 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 342610011031 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610011032 phosphoglyceromutase; Provisional; Region: PRK05434 342610011033 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 342610011034 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 342610011035 active site residue [active] 342610011036 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 342610011037 GSH binding site [chemical binding]; other site 342610011038 catalytic residues [active] 342610011039 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 342610011040 SecA binding site; other site 342610011041 Preprotein binding site; other site 342610011042 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 342610011043 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 342610011044 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 342610011045 hypothetical protein; Provisional; Region: PRK11383 342610011046 yiaA/B two helix domain; Region: YiaAB; pfam05360 342610011047 yiaA/B two helix domain; Region: YiaAB; pfam05360 342610011048 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 342610011049 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 342610011050 non-specific DNA binding site [nucleotide binding]; other site 342610011051 salt bridge; other site 342610011052 sequence-specific DNA binding site [nucleotide binding]; other site 342610011053 hypothetical protein; Validated; Region: PRK02101 342610011054 transaldolase-like protein; Provisional; Region: PTZ00411 342610011055 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 342610011056 active site 342610011057 dimer interface [polypeptide binding]; other site 342610011058 catalytic residue [active] 342610011059 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 342610011060 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 342610011061 active site 342610011062 dimer interface [polypeptide binding]; other site 342610011063 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 342610011064 dimer interface [polypeptide binding]; other site 342610011065 active site 342610011066 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 342610011067 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 342610011068 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610011069 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610011070 transcriptional regulator SlyA; Provisional; Region: PRK03573 342610011071 MarR family; Region: MarR_2; pfam12802 342610011072 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 342610011073 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 342610011074 N-terminal plug; other site 342610011075 ligand-binding site [chemical binding]; other site 342610011076 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 342610011077 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 342610011078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610011079 homodimer interface [polypeptide binding]; other site 342610011080 catalytic residue [active] 342610011081 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011083 active site 342610011084 phosphorylation site [posttranslational modification] 342610011085 intermolecular recognition site; other site 342610011086 dimerization interface [polypeptide binding]; other site 342610011087 DNA polymerase II; Reviewed; Region: PRK05762 342610011088 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 342610011089 active site 342610011090 catalytic site [active] 342610011091 substrate binding site [chemical binding]; other site 342610011092 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 342610011093 active site 342610011094 metal-binding site 342610011095 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 342610011096 TPR motif; other site 342610011097 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610011098 binding surface 342610011099 Tetratricopeptide repeat; Region: TPR_12; pfam13424 342610011100 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610011101 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011102 metal binding site [ion binding]; metal-binding site 342610011103 active site 342610011104 I-site; other site 342610011105 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610011106 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610011107 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 342610011108 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 342610011109 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 342610011110 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 342610011111 GTP/Mg2+ binding site [chemical binding]; other site 342610011112 G4 box; other site 342610011113 G5 box; other site 342610011114 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 342610011115 G1 box; other site 342610011116 Switch I region; other site 342610011117 G2 box; other site 342610011118 G3 box; other site 342610011119 Switch II region; other site 342610011120 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610011121 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 342610011122 N-terminal plug; other site 342610011123 ligand-binding site [chemical binding]; other site 342610011124 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 342610011125 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610011126 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 342610011127 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 342610011128 Alginate lyase; Region: Alginate_lyase2; pfam08787 342610011129 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610011130 classical (c) SDRs; Region: SDR_c; cd05233 342610011131 NAD(P) binding site [chemical binding]; other site 342610011132 active site 342610011133 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 342610011134 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 342610011135 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 342610011136 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 342610011137 ATP-binding site [chemical binding]; other site 342610011138 Gluconate-6-phosphate binding site [chemical binding]; other site 342610011139 Shikimate kinase; Region: SKI; pfam01202 342610011140 Alginate lyase; Region: Alginate_lyase2; pfam08787 342610011141 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 342610011142 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 342610011143 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 342610011144 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 342610011145 mannonate dehydratase; Provisional; Region: PRK03906 342610011146 mannonate dehydratase; Region: uxuA; TIGR00695 342610011147 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 342610011148 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 342610011149 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 342610011150 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610011151 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 342610011152 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 342610011153 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 342610011154 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 342610011155 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 342610011156 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 342610011157 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 342610011158 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 342610011159 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 342610011160 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 342610011161 ligand binding site [chemical binding]; other site 342610011162 homodimer interface [polypeptide binding]; other site 342610011163 NAD(P) binding site [chemical binding]; other site 342610011164 trimer interface B [polypeptide binding]; other site 342610011165 trimer interface A [polypeptide binding]; other site 342610011166 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610011167 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 342610011168 substrate binding site [chemical binding]; other site 342610011169 ATP binding site [chemical binding]; other site 342610011170 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 342610011171 D-galactonate transporter; Region: 2A0114; TIGR00893 342610011172 putative substrate translocation pore; other site 342610011173 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 342610011174 Right handed beta helix region; Region: Beta_helix; pfam13229 342610011175 Transcriptional regulators [Transcription]; Region: FadR; COG2186 342610011176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 342610011177 DNA-binding site [nucleotide binding]; DNA binding site 342610011178 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 342610011179 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610011180 classical (c) SDRs; Region: SDR_c; cd05233 342610011181 NAD(P) binding site [chemical binding]; other site 342610011182 active site 342610011183 FAD binding domain; Region: FAD_binding_3; pfam01494 342610011184 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 342610011185 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 342610011186 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 342610011187 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610011188 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 342610011189 S-adenosylmethionine binding site [chemical binding]; other site 342610011190 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 342610011191 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 342610011192 Cl binding site [ion binding]; other site 342610011193 oligomer interface [polypeptide binding]; other site 342610011194 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 342610011195 RimK-like ATP-grasp domain; Region: RimK; pfam08443 342610011196 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 342610011197 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 342610011198 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011200 active site 342610011201 phosphorylation site [posttranslational modification] 342610011202 intermolecular recognition site; other site 342610011203 dimerization interface [polypeptide binding]; other site 342610011204 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610011205 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011206 metal binding site [ion binding]; metal-binding site 342610011207 active site 342610011208 I-site; other site 342610011209 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610011210 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610011211 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610011212 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 342610011213 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 342610011214 dimer interface [polypeptide binding]; other site 342610011215 active site 342610011216 metal binding site [ion binding]; metal-binding site 342610011217 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 342610011218 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011219 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610011220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011221 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 342610011222 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 342610011223 Uncharacterized conserved protein [Function unknown]; Region: COG0398 342610011224 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 342610011225 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 342610011226 Ligand binding site; other site 342610011227 Putative Catalytic site; other site 342610011228 DXD motif; other site 342610011229 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 342610011230 Response regulator receiver domain; Region: Response_reg; pfam00072 342610011231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011232 active site 342610011233 phosphorylation site [posttranslational modification] 342610011234 intermolecular recognition site; other site 342610011235 dimerization interface [polypeptide binding]; other site 342610011236 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610011237 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 342610011238 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 342610011239 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610011240 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 342610011241 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 342610011242 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 342610011243 catalytic loop [active] 342610011244 iron binding site [ion binding]; other site 342610011245 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 342610011246 putative S-transferase; Provisional; Region: PRK11752 342610011247 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 342610011248 C-terminal domain interface [polypeptide binding]; other site 342610011249 GSH binding site (G-site) [chemical binding]; other site 342610011250 dimer interface [polypeptide binding]; other site 342610011251 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 342610011252 dimer interface [polypeptide binding]; other site 342610011253 N-terminal domain interface [polypeptide binding]; other site 342610011254 active site 342610011255 SapC; Region: SapC; pfam07277 342610011256 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 342610011257 putative transporter; Provisional; Region: PRK10484 342610011258 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 342610011259 Na binding site [ion binding]; other site 342610011260 SapC; Region: SapC; pfam07277 342610011261 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610011262 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610011263 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 342610011264 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 342610011265 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 342610011266 Melibiase; Region: Melibiase; pfam02065 342610011267 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 342610011268 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 342610011269 active site 342610011270 dimer interface [polypeptide binding]; other site 342610011271 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610011272 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 342610011273 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 342610011274 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 342610011275 active site 342610011276 catalytic site [active] 342610011277 substrate binding site [chemical binding]; other site 342610011278 Predicted methyltransferases [General function prediction only]; Region: COG0313 342610011279 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 342610011280 putative SAM binding site [chemical binding]; other site 342610011281 putative homodimer interface [polypeptide binding]; other site 342610011282 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 342610011283 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 342610011284 putative ligand binding site [chemical binding]; other site 342610011285 hypothetical protein; Reviewed; Region: PRK12497 342610011286 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 342610011287 dimer interface [polypeptide binding]; other site 342610011288 active site 342610011289 BON domain; Region: BON; pfam04972 342610011290 BON domain; Region: BON; pfam04972 342610011291 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 342610011292 stringent starvation protein A; Provisional; Region: sspA; PRK09481 342610011293 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 342610011294 C-terminal domain interface [polypeptide binding]; other site 342610011295 putative GSH binding site (G-site) [chemical binding]; other site 342610011296 dimer interface [polypeptide binding]; other site 342610011297 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 342610011298 dimer interface [polypeptide binding]; other site 342610011299 N-terminal domain interface [polypeptide binding]; other site 342610011300 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 342610011301 cytochrome b; Provisional; Region: CYTB; MTH00145 342610011302 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 342610011303 Qi binding site; other site 342610011304 intrachain domain interface; other site 342610011305 interchain domain interface [polypeptide binding]; other site 342610011306 heme bH binding site [chemical binding]; other site 342610011307 heme bL binding site [chemical binding]; other site 342610011308 Qo binding site; other site 342610011309 interchain domain interface [polypeptide binding]; other site 342610011310 intrachain domain interface; other site 342610011311 Qi binding site; other site 342610011312 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 342610011313 Qo binding site; other site 342610011314 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 342610011315 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 342610011316 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 342610011317 [2Fe-2S] cluster binding site [ion binding]; other site 342610011318 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 342610011319 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 342610011320 23S rRNA interface [nucleotide binding]; other site 342610011321 L3 interface [polypeptide binding]; other site 342610011322 FOG: CBS domain [General function prediction only]; Region: COG0517 342610011323 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 342610011324 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 342610011325 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 342610011326 homodimer interface [polypeptide binding]; other site 342610011327 metal binding site [ion binding]; metal-binding site 342610011328 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 342610011329 homodimer interface [polypeptide binding]; other site 342610011330 active site 342610011331 putative chemical substrate binding site [chemical binding]; other site 342610011332 metal binding site [ion binding]; metal-binding site 342610011333 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 342610011334 HD domain; Region: HD_4; pfam13328 342610011335 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 342610011336 synthetase active site [active] 342610011337 NTP binding site [chemical binding]; other site 342610011338 metal binding site [ion binding]; metal-binding site 342610011339 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 342610011340 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 342610011341 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 342610011342 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 342610011343 active site 342610011344 hydrophilic channel; other site 342610011345 dimerization interface [polypeptide binding]; other site 342610011346 catalytic residues [active] 342610011347 active site lid [active] 342610011348 Recombination protein O N terminal; Region: RecO_N; pfam11967 342610011349 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 342610011350 Recombination protein O C terminal; Region: RecO_C; pfam02565 342610011351 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 342610011352 DHH family; Region: DHH; pfam01368 342610011353 DHHA1 domain; Region: DHHA1; pfam02272 342610011354 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 342610011355 dimerization domain [polypeptide binding]; other site 342610011356 dimer interface [polypeptide binding]; other site 342610011357 catalytic residues [active] 342610011358 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 342610011359 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 342610011360 active site 342610011361 Int/Topo IB signature motif; other site 342610011362 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 342610011363 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 342610011364 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 342610011365 Walker A motif; other site 342610011366 ATP binding site [chemical binding]; other site 342610011367 Walker B motif; other site 342610011368 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 342610011369 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 342610011370 Walker A motif; other site 342610011371 ATP binding site [chemical binding]; other site 342610011372 Walker B motif; other site 342610011373 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 342610011374 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610011375 catalytic residue [active] 342610011376 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 342610011377 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 342610011378 YGGT family; Region: YGGT; pfam02325 342610011379 YGGT family; Region: YGGT; pfam02325 342610011380 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 342610011381 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 342610011382 HAMP domain; Region: HAMP; pfam00672 342610011383 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 342610011384 dimer interface [polypeptide binding]; other site 342610011385 phosphorylation site [posttranslational modification] 342610011386 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 342610011387 ATP binding site [chemical binding]; other site 342610011388 Mg2+ binding site [ion binding]; other site 342610011389 G-X-G motif; other site 342610011390 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610011391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011392 active site 342610011393 phosphorylation site [posttranslational modification] 342610011394 intermolecular recognition site; other site 342610011395 dimerization interface [polypeptide binding]; other site 342610011396 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610011397 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 342610011398 putative dimerization interface [polypeptide binding]; other site 342610011399 putative ligand binding site [chemical binding]; other site 342610011400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 342610011401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011402 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 342610011403 xylulokinase; Provisional; Region: PRK15027 342610011404 N- and C-terminal domain interface [polypeptide binding]; other site 342610011405 active site 342610011406 MgATP binding site [chemical binding]; other site 342610011407 catalytic site [active] 342610011408 metal binding site [ion binding]; metal-binding site 342610011409 xylulose binding site [chemical binding]; other site 342610011410 homodimer interface [polypeptide binding]; other site 342610011411 xylose isomerase; Provisional; Region: PRK05474 342610011412 xylose isomerase; Region: xylose_isom_A; TIGR02630 342610011413 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 342610011414 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 342610011415 putative substrate translocation pore; other site 342610011416 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 342610011417 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 342610011418 substrate binding site [chemical binding]; other site 342610011419 active site 342610011420 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 342610011421 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 342610011422 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 342610011423 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 342610011424 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 342610011425 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610011426 putative catalytic site [active] 342610011427 putative metal binding site [ion binding]; other site 342610011428 putative phosphate binding site [ion binding]; other site 342610011429 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 342610011430 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 342610011431 putative active site [active] 342610011432 putative active site [active] 342610011433 catalytic site [active] 342610011434 catalytic site [active] 342610011435 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 342610011436 PLD-like domain; Region: PLDc_2; pfam13091 342610011437 putative active site [active] 342610011438 catalytic site [active] 342610011439 Uncharacterized conserved protein [Function unknown]; Region: COG0398 342610011440 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 342610011441 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 342610011442 DNA-binding site [nucleotide binding]; DNA binding site 342610011443 RNA-binding motif; other site 342610011444 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 342610011445 dimer interface [polypeptide binding]; other site 342610011446 catalytic triad [active] 342610011447 peroxidatic and resolving cysteines [active] 342610011448 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 342610011449 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 342610011450 folate binding site [chemical binding]; other site 342610011451 NADP+ binding site [chemical binding]; other site 342610011452 GTPase CgtA; Reviewed; Region: obgE; PRK12298 342610011453 GTP1/OBG; Region: GTP1_OBG; pfam01018 342610011454 Obg GTPase; Region: Obg; cd01898 342610011455 G1 box; other site 342610011456 GTP/Mg2+ binding site [chemical binding]; other site 342610011457 Switch I region; other site 342610011458 G2 box; other site 342610011459 G3 box; other site 342610011460 Switch II region; other site 342610011461 G4 box; other site 342610011462 G5 box; other site 342610011463 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 342610011464 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 342610011465 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 342610011466 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 342610011467 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 342610011468 substrate binding pocket [chemical binding]; other site 342610011469 chain length determination region; other site 342610011470 substrate-Mg2+ binding site; other site 342610011471 catalytic residues [active] 342610011472 aspartate-rich region 1; other site 342610011473 active site lid residues [active] 342610011474 aspartate-rich region 2; other site 342610011475 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 342610011476 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 342610011477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610011478 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 342610011479 DNA binding residues [nucleotide binding] 342610011480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 342610011481 MOSC domain; Region: MOSC; pfam03473 342610011482 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 342610011483 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 342610011484 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 342610011485 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 342610011486 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 342610011487 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 342610011488 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 342610011489 putative active site [active] 342610011490 heme pocket [chemical binding]; other site 342610011491 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 342610011492 dimer interface [polypeptide binding]; other site 342610011493 phosphorylation site [posttranslational modification] 342610011494 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 342610011495 ATP binding site [chemical binding]; other site 342610011496 Mg2+ binding site [ion binding]; other site 342610011497 G-X-G motif; other site 342610011498 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011499 active site 342610011500 phosphorylation site [posttranslational modification] 342610011501 intermolecular recognition site; other site 342610011502 dimerization interface [polypeptide binding]; other site 342610011503 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 342610011504 putative binding surface; other site 342610011505 active site 342610011506 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 342610011507 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 342610011508 active site 342610011509 dimer interface [polypeptide binding]; other site 342610011510 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 342610011511 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 342610011512 active site 342610011513 FMN binding site [chemical binding]; other site 342610011514 substrate binding site [chemical binding]; other site 342610011515 3Fe-4S cluster binding site [ion binding]; other site 342610011516 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 342610011517 domain interface; other site 342610011518 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 342610011519 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 342610011520 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 342610011521 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 342610011522 putative active site [active] 342610011523 metal binding site [ion binding]; metal-binding site 342610011524 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 342610011525 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 342610011526 catalytic residues [active] 342610011527 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 342610011528 oligomerisation interface [polypeptide binding]; other site 342610011529 mobile loop; other site 342610011530 roof hairpin; other site 342610011531 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 342610011532 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 342610011533 ring oligomerisation interface [polypeptide binding]; other site 342610011534 ATP/Mg binding site [chemical binding]; other site 342610011535 stacking interactions; other site 342610011536 hinge regions; other site 342610011537 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 342610011538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 342610011539 Transposase; Region: DEDD_Tnp_IS110; pfam01548 342610011540 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 342610011541 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 342610011542 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 342610011543 putative NAD(P) binding site [chemical binding]; other site 342610011544 dimer interface [polypeptide binding]; other site 342610011545 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 342610011546 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610011547 NAD(P) binding site [chemical binding]; other site 342610011548 catalytic residues [active] 342610011549 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 342610011550 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 342610011551 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 342610011552 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 342610011553 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 342610011554 catalytic Zn binding site [ion binding]; other site 342610011555 NAD binding site [chemical binding]; other site 342610011556 structural Zn binding site [ion binding]; other site 342610011557 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 342610011558 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 342610011559 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 342610011560 non-specific DNA binding site [nucleotide binding]; other site 342610011561 salt bridge; other site 342610011562 sequence-specific DNA binding site [nucleotide binding]; other site 342610011563 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 342610011564 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 342610011565 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 342610011566 DNA binding site [nucleotide binding] 342610011567 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610011568 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610011569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610011570 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610011571 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 342610011572 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 342610011573 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 342610011574 Walker A/P-loop; other site 342610011575 ATP binding site [chemical binding]; other site 342610011576 Q-loop/lid; other site 342610011577 ABC transporter signature motif; other site 342610011578 Walker B; other site 342610011579 D-loop; other site 342610011580 H-loop/switch region; other site 342610011581 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 342610011582 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 342610011583 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 342610011584 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 342610011585 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 342610011586 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610011587 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 342610011588 N-terminal plug; other site 342610011589 ligand-binding site [chemical binding]; other site 342610011590 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 342610011591 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 342610011592 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 342610011593 active site 342610011594 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 342610011595 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 342610011596 conserved cys residue [active] 342610011597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011599 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 342610011600 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 342610011601 active site 342610011602 PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate...; Region: PAF_acetylesterase_like; cd01820 342610011603 active site 342610011604 catalytic triad [active] 342610011605 oxyanion hole [active] 342610011606 specificity pocket; other site 342610011607 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 342610011608 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 342610011609 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610011610 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610011611 active site 342610011612 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 342610011613 DNA-binding site [nucleotide binding]; DNA binding site 342610011614 RNA-binding motif; other site 342610011615 ribonuclease R; Region: RNase_R; TIGR02063 342610011616 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 342610011617 RNB domain; Region: RNB; pfam00773 342610011618 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 342610011619 RNA binding site [nucleotide binding]; other site 342610011620 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 342610011621 Protein of unknown function (DUF465); Region: DUF465; pfam04325 342610011622 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 342610011623 Cytochrome b562; Region: Cytochrom_B562; cl01546 342610011624 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 342610011625 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 342610011626 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 342610011627 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 342610011628 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 342610011629 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 342610011630 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610011631 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 342610011632 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610011633 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 342610011634 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 342610011635 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 342610011636 binding surface 342610011637 TPR motif; other site 342610011638 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 342610011639 binding surface 342610011640 TPR motif; other site 342610011641 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 342610011642 binding surface 342610011643 TPR motif; other site 342610011644 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 342610011645 binding surface 342610011646 TPR motif; other site 342610011647 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 342610011648 binding surface 342610011649 TPR motif; other site 342610011650 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 342610011651 binding surface 342610011652 TPR motif; other site 342610011653 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 342610011654 binding surface 342610011655 TPR motif; other site 342610011656 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 342610011657 TPR motif; other site 342610011658 binding surface 342610011659 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 342610011660 binding surface 342610011661 TPR motif; other site 342610011662 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 342610011663 binding surface 342610011664 TPR motif; other site 342610011665 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610011666 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011667 metal binding site [ion binding]; metal-binding site 342610011668 active site 342610011669 I-site; other site 342610011670 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 342610011671 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 342610011672 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 342610011673 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 342610011674 Protein export membrane protein; Region: SecD_SecF; cl14618 342610011675 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 342610011676 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610011677 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610011678 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610011679 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 342610011680 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 342610011681 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610011682 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 342610011683 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 342610011684 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 342610011685 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 342610011686 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 342610011687 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 342610011688 active site 342610011689 catalytic residues [active] 342610011690 Int/Topo IB signature motif; other site 342610011691 DNA binding site [nucleotide binding] 342610011692 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 342610011693 hypothetical protein; Provisional; Region: PRK07236 342610011694 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 342610011695 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 342610011696 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 342610011697 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 342610011698 acyl-activating enzyme (AAE) consensus motif; other site 342610011699 putative AMP binding site [chemical binding]; other site 342610011700 putative active site [active] 342610011701 putative CoA binding site [chemical binding]; other site 342610011702 enoyl-CoA hydratase; Provisional; Region: PRK06688 342610011703 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 342610011704 substrate binding site [chemical binding]; other site 342610011705 oxyanion hole (OAH) forming residues; other site 342610011706 trimer interface [polypeptide binding]; other site 342610011707 MarR family; Region: MarR_2; cl17246 342610011708 5-oxoprolinase; Region: PLN02666 342610011709 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 342610011710 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 342610011711 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 342610011712 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 342610011713 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 342610011714 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 342610011715 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610011716 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610011717 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 342610011718 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 342610011719 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610011720 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 342610011721 putative substrate translocation pore; other site 342610011722 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 342610011723 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 342610011724 active site 342610011725 catalytic site [active] 342610011726 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 342610011727 Transcriptional regulators [Transcription]; Region: PurR; COG1609 342610011728 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 342610011729 DNA binding site [nucleotide binding] 342610011730 domain linker motif; other site 342610011731 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 342610011732 putative dimerization interface [polypeptide binding]; other site 342610011733 putative ligand binding site [chemical binding]; other site 342610011734 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 342610011735 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 342610011736 putative substrate translocation pore; other site 342610011737 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 342610011738 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 342610011739 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 342610011740 substrate binding [chemical binding]; other site 342610011741 active site 342610011742 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 342610011743 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610011744 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 342610011745 C-terminal domain interface [polypeptide binding]; other site 342610011746 GSH binding site (G-site) [chemical binding]; other site 342610011747 dimer interface [polypeptide binding]; other site 342610011748 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610011749 N-terminal domain interface [polypeptide binding]; other site 342610011750 dimer interface [polypeptide binding]; other site 342610011751 substrate binding pocket (H-site) [chemical binding]; other site 342610011752 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 342610011753 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 342610011754 putative active site [active] 342610011755 PhoH-like protein; Region: PhoH; pfam02562 342610011756 ATP-dependent helicase HepA; Validated; Region: PRK04914 342610011757 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 342610011758 ATP binding site [chemical binding]; other site 342610011759 putative Mg++ binding site [ion binding]; other site 342610011760 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 342610011761 nucleotide binding region [chemical binding]; other site 342610011762 ATP-binding site [chemical binding]; other site 342610011763 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 342610011764 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 342610011765 active site 342610011766 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 342610011767 muropeptide transporter; Reviewed; Region: ampG; PRK11902 342610011768 AmpG-like permease; Region: 2A0125; TIGR00901 342610011769 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610011770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011771 metal binding site [ion binding]; metal-binding site 342610011772 active site 342610011773 I-site; other site 342610011774 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610011775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610011776 active site 342610011777 phosphorylation site [posttranslational modification] 342610011778 intermolecular recognition site; other site 342610011779 dimerization interface [polypeptide binding]; other site 342610011780 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 342610011781 thymidylate synthase; Reviewed; Region: thyA; PRK01827 342610011782 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 342610011783 dimerization interface [polypeptide binding]; other site 342610011784 active site 342610011785 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 342610011786 CAAX protease self-immunity; Region: Abi; pfam02517 342610011787 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 342610011788 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 342610011789 dimerization interface [polypeptide binding]; other site 342610011790 DPS ferroxidase diiron center [ion binding]; other site 342610011791 ion pore; other site 342610011792 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 342610011793 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 342610011794 NADP binding site [chemical binding]; other site 342610011795 active site 342610011796 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 342610011797 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610011798 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 342610011799 GAF domain; Region: GAF; pfam01590 342610011800 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 342610011801 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 342610011802 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 342610011803 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 342610011804 putative active site [active] 342610011805 Ap4A binding site [chemical binding]; other site 342610011806 nudix motif; other site 342610011807 putative metal binding site [ion binding]; other site 342610011808 YhhN-like protein; Region: YhhN; pfam07947 342610011809 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 342610011810 putative DNA-binding cleft [nucleotide binding]; other site 342610011811 putative DNA clevage site; other site 342610011812 molecular lever; other site 342610011813 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610011814 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 342610011815 NAD(P) binding site [chemical binding]; other site 342610011816 catalytic residues [active] 342610011817 acetolactate synthase; Reviewed; Region: PRK08322 342610011818 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 342610011819 PYR/PP interface [polypeptide binding]; other site 342610011820 dimer interface [polypeptide binding]; other site 342610011821 TPP binding site [chemical binding]; other site 342610011822 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 342610011823 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 342610011824 TPP-binding site [chemical binding]; other site 342610011825 dimer interface [polypeptide binding]; other site 342610011826 Uncharacterized conserved protein [Function unknown]; Region: COG3025 342610011827 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 342610011828 putative active site [active] 342610011829 putative metal binding residues [ion binding]; other site 342610011830 signature motif; other site 342610011831 putative triphosphate binding site [ion binding]; other site 342610011832 Bacterial SH3 domain homologues; Region: SH3b; smart00287 342610011833 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 342610011834 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 342610011835 TIGR03546 family protein; Region: TIGR03546 342610011836 TIGR03545 family protein; Region: TIGR03545 342610011837 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 342610011838 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 342610011839 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 342610011840 substrate binding site; other site 342610011841 dimer interface; other site 342610011842 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 342610011843 homotrimer interaction site [polypeptide binding]; other site 342610011844 zinc binding site [ion binding]; other site 342610011845 CDP-binding sites; other site 342610011846 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 342610011847 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 342610011848 Permutation of conserved domain; other site 342610011849 active site 342610011850 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 342610011851 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 342610011852 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 342610011853 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 342610011854 S-adenosylmethionine binding site [chemical binding]; other site 342610011855 Domain of unknown function (DUF368); Region: DUF368; pfam04018 342610011856 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 342610011857 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 342610011858 Peptidase family M23; Region: Peptidase_M23; pfam01551 342610011859 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 342610011860 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 342610011861 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610011862 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 342610011863 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 342610011864 DNA binding residues [nucleotide binding] 342610011865 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 342610011866 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 342610011867 putative hydrolase; Validated; Region: PRK09248 342610011868 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 342610011869 active site 342610011870 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 342610011871 nucleoside/Zn binding site; other site 342610011872 dimer interface [polypeptide binding]; other site 342610011873 catalytic motif [active] 342610011874 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 342610011875 non-specific DNA binding site [nucleotide binding]; other site 342610011876 salt bridge; other site 342610011877 sequence-specific DNA binding site [nucleotide binding]; other site 342610011878 Predicted amidohydrolase [General function prediction only]; Region: COG0388 342610011879 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 342610011880 putative active site [active] 342610011881 catalytic triad [active] 342610011882 putative dimer interface [polypeptide binding]; other site 342610011883 arginine decarboxylase; Provisional; Region: PRK05354 342610011884 ParB-like nuclease domain; Region: ParBc; cl02129 342610011885 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 342610011886 dimer interface [polypeptide binding]; other site 342610011887 active site 342610011888 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610011889 catalytic residues [active] 342610011890 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 342610011891 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610011892 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610011893 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 342610011894 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 342610011895 AlkA N-terminal domain; Region: AlkA_N; pfam06029 342610011896 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 342610011897 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 342610011898 minor groove reading motif; other site 342610011899 helix-hairpin-helix signature motif; other site 342610011900 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 342610011901 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 342610011902 DNA binding site [nucleotide binding] 342610011903 active site 342610011904 EamA-like transporter family; Region: EamA; pfam00892 342610011905 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 342610011906 EamA-like transporter family; Region: EamA; pfam00892 342610011907 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610011908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610011909 metal binding site [ion binding]; metal-binding site 342610011910 active site 342610011911 I-site; other site 342610011912 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 342610011913 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 342610011914 Substrate binding site; other site 342610011915 Mg++ binding site; other site 342610011916 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 342610011917 active site 342610011918 substrate binding site [chemical binding]; other site 342610011919 CoA binding site [chemical binding]; other site 342610011920 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 342610011921 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 342610011922 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 342610011923 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 342610011924 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 342610011925 glutaminase active site [active] 342610011926 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 342610011927 dimer interface [polypeptide binding]; other site 342610011928 active site 342610011929 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 342610011930 dimer interface [polypeptide binding]; other site 342610011931 active site 342610011932 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 342610011933 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 342610011934 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610011935 active site 342610011936 catalytic tetrad [active] 342610011937 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 342610011938 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 342610011939 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 342610011940 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 342610011941 active site 342610011942 Fe(II) binding site [ion binding]; other site 342610011943 dimer interface [polypeptide binding]; other site 342610011944 tetramer interface [polypeptide binding]; other site 342610011945 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 342610011946 tetramer interface [polypeptide binding]; other site 342610011947 dimer interface [polypeptide binding]; other site 342610011948 active site 342610011949 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 342610011950 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 342610011951 active site 342610011952 Amidohydrolase; Region: Amidohydro_2; pfam04909 342610011953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 342610011954 hypothetical protein; Provisional; Region: PRK09262 342610011955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610011956 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610011957 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 342610011958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610011959 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 342610011960 dimerization interface [polypeptide binding]; other site 342610011961 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 342610011962 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 342610011963 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 342610011964 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 342610011965 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 342610011966 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 342610011967 Pseudomonas putida vanillin dehydrogenase-like; Region: ALDH_VaniDH_like; cd07150 342610011968 NAD(P) binding site [chemical binding]; other site 342610011969 catalytic residues [active] 342610011970 Transcriptional regulator [Transcription]; Region: LysR; COG0583 342610011971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610011972 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 342610011973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610011974 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 342610011975 putative dimerization interface [polypeptide binding]; other site 342610011976 Activator of aromatic catabolism; Region: XylR_N; pfam06505 342610011977 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 342610011978 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 342610011979 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 342610011980 Walker A motif; other site 342610011981 ATP binding site [chemical binding]; other site 342610011982 Walker B motif; other site 342610011983 arginine finger; other site 342610011984 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 342610011985 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 342610011986 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 342610011987 catalytic Zn binding site [ion binding]; other site 342610011988 NAD binding site [chemical binding]; other site 342610011989 structural Zn binding site [ion binding]; other site 342610011990 SnoaL-like domain; Region: SnoaL_3; pfam13474 342610011991 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 342610011992 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610011993 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 342610011994 N-terminal plug; other site 342610011995 ligand-binding site [chemical binding]; other site 342610011996 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 342610011997 Sulfatase; Region: Sulfatase; cl17466 342610011998 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 342610011999 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 342610012000 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 342610012001 N-terminal plug; other site 342610012002 ligand-binding site [chemical binding]; other site 342610012003 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610012004 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 342610012005 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 342610012006 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 342610012007 FAD binding domain; Region: FAD_binding_4; pfam01565 342610012008 Cytochrome c; Region: Cytochrom_C; cl11414 342610012009 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 342610012010 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 342610012011 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 342610012012 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 342610012013 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 342610012014 active site 342610012015 Protein of unknown function (DUF445); Region: DUF445; pfam04286 342610012016 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 342610012017 PAS domain; Region: PAS_9; pfam13426 342610012018 putative active site [active] 342610012019 heme pocket [chemical binding]; other site 342610012020 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012022 metal binding site [ion binding]; metal-binding site 342610012023 active site 342610012024 I-site; other site 342610012025 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 342610012026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610012027 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 342610012028 dimer interface [polypeptide binding]; other site 342610012029 phosphorylation site [posttranslational modification] 342610012030 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 342610012031 ATP binding site [chemical binding]; other site 342610012032 Mg2+ binding site [ion binding]; other site 342610012033 G-X-G motif; other site 342610012034 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012036 active site 342610012037 phosphorylation site [posttranslational modification] 342610012038 intermolecular recognition site; other site 342610012039 dimerization interface [polypeptide binding]; other site 342610012040 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610012041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012042 active site 342610012043 phosphorylation site [posttranslational modification] 342610012044 intermolecular recognition site; other site 342610012045 dimerization interface [polypeptide binding]; other site 342610012046 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 342610012047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610012048 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 342610012049 putative dimerization interface [polypeptide binding]; other site 342610012050 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 342610012051 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 342610012052 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 342610012053 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 342610012054 putative ligand binding site [chemical binding]; other site 342610012055 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 342610012056 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 342610012057 dimer interface [polypeptide binding]; other site 342610012058 phosphorylation site [posttranslational modification] 342610012059 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 342610012060 ATP binding site [chemical binding]; other site 342610012061 Mg2+ binding site [ion binding]; other site 342610012062 G-X-G motif; other site 342610012063 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 342610012064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012065 active site 342610012066 phosphorylation site [posttranslational modification] 342610012067 intermolecular recognition site; other site 342610012068 dimerization interface [polypeptide binding]; other site 342610012069 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 342610012070 DNA binding site [nucleotide binding] 342610012071 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 342610012072 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610012073 ligand binding site [chemical binding]; other site 342610012074 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 342610012075 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 342610012076 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 342610012077 metal ion-dependent adhesion site (MIDAS); other site 342610012078 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 342610012079 active site 342610012080 catalytic site [active] 342610012081 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 342610012082 Uncharacterized conserved protein [Function unknown]; Region: COG2128 342610012083 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 342610012084 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 342610012085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610012086 Walker A/P-loop; other site 342610012087 ATP binding site [chemical binding]; other site 342610012088 Q-loop/lid; other site 342610012089 ABC transporter signature motif; other site 342610012090 Walker B; other site 342610012091 D-loop; other site 342610012092 H-loop/switch region; other site 342610012093 inner membrane transport permease; Provisional; Region: PRK15066 342610012094 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 342610012095 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 342610012096 S-adenosylmethionine binding site [chemical binding]; other site 342610012097 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 342610012098 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 342610012099 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610012100 catalytic residue [active] 342610012101 pantoate--beta-alanine ligase; Region: panC; TIGR00018 342610012102 Pantoate-beta-alanine ligase; Region: PanC; cd00560 342610012103 active site 342610012104 ATP-binding site [chemical binding]; other site 342610012105 pantoate-binding site; other site 342610012106 HXXH motif; other site 342610012107 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 342610012108 oligomerization interface [polypeptide binding]; other site 342610012109 active site 342610012110 metal binding site [ion binding]; metal-binding site 342610012111 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 342610012112 catalytic center binding site [active] 342610012113 ATP binding site [chemical binding]; other site 342610012114 poly(A) polymerase; Region: pcnB; TIGR01942 342610012115 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 342610012116 active site 342610012117 NTP binding site [chemical binding]; other site 342610012118 metal binding triad [ion binding]; metal-binding site 342610012119 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 342610012120 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 342610012121 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 342610012122 active site 342610012123 HIGH motif; other site 342610012124 nucleotide binding site [chemical binding]; other site 342610012125 KMSKS motif; other site 342610012126 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 342610012127 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 342610012128 aminopeptidase B; Provisional; Region: PRK05015 342610012129 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 342610012130 interface (dimer of trimers) [polypeptide binding]; other site 342610012131 Substrate-binding/catalytic site; other site 342610012132 Zn-binding sites [ion binding]; other site 342610012133 MarC family integral membrane protein; Region: MarC; cl00919 342610012134 Protein of unknown function (DUF416); Region: DUF416; pfam04222 342610012135 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 342610012136 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 342610012137 S-adenosylmethionine binding site [chemical binding]; other site 342610012138 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 342610012139 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 342610012140 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 342610012141 P loop; other site 342610012142 GTP binding site [chemical binding]; other site 342610012143 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 342610012144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 342610012145 Walker A/P-loop; other site 342610012146 ATP binding site [chemical binding]; other site 342610012147 Q-loop/lid; other site 342610012148 ABC transporter signature motif; other site 342610012149 Walker B; other site 342610012150 D-loop; other site 342610012151 H-loop/switch region; other site 342610012152 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 342610012153 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 342610012154 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 342610012155 EAL domain; Region: EAL; pfam00563 342610012156 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 342610012157 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 342610012158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 342610012159 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 342610012160 DNA binding residues [nucleotide binding] 342610012161 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 342610012162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610012163 Coenzyme A binding pocket [chemical binding]; other site 342610012164 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 342610012165 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 342610012166 putative active site [active] 342610012167 dimerization interface [polypeptide binding]; other site 342610012168 putative tRNAtyr binding site [nucleotide binding]; other site 342610012169 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 342610012170 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 342610012171 hypothetical protein; Reviewed; Region: PRK01637 342610012172 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 342610012173 FAD binding site [chemical binding]; other site 342610012174 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 342610012175 dimerization interface [polypeptide binding]; other site 342610012176 DNA binding site [nucleotide binding] 342610012177 corepressor binding sites; other site 342610012178 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610012179 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 342610012180 putative C-terminal domain interface [polypeptide binding]; other site 342610012181 putative GSH binding site (G-site) [chemical binding]; other site 342610012182 putative dimer interface [polypeptide binding]; other site 342610012183 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 342610012184 putative N-terminal domain interface [polypeptide binding]; other site 342610012185 putative dimer interface [polypeptide binding]; other site 342610012186 putative substrate binding pocket (H-site) [chemical binding]; other site 342610012187 Cytochrome c553 [Energy production and conversion]; Region: COG2863 342610012188 Uncharacterized conserved protein [Function unknown]; Region: COG0397 342610012189 hypothetical protein; Validated; Region: PRK00029 342610012190 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 342610012191 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610012192 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 342610012193 PAS domain; Region: PAS_9; pfam13426 342610012194 putative active site [active] 342610012195 heme pocket [chemical binding]; other site 342610012196 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012198 metal binding site [ion binding]; metal-binding site 342610012199 active site 342610012200 I-site; other site 342610012201 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 342610012202 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 342610012203 dimerization interface [polypeptide binding]; other site 342610012204 active site 342610012205 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 342610012206 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 342610012207 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 342610012208 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 342610012209 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 342610012210 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 342610012211 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 342610012212 putative active site; other site 342610012213 catalytic triad [active] 342610012214 putative dimer interface [polypeptide binding]; other site 342610012215 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 342610012216 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 342610012217 tetramer interface [polypeptide binding]; other site 342610012218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610012219 catalytic residue [active] 342610012220 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 342610012221 pentamer interface [polypeptide binding]; other site 342610012222 dodecaamer interface [polypeptide binding]; other site 342610012223 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 342610012224 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 342610012225 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 342610012226 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 342610012227 NADH(P)-binding; Region: NAD_binding_10; pfam13460 342610012228 NAD binding site [chemical binding]; other site 342610012229 active site 342610012230 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 342610012231 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 342610012232 S-adenosylmethionine binding site [chemical binding]; other site 342610012233 epoxyqueuosine reductase; Region: TIGR00276 342610012234 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 342610012235 4Fe-4S binding domain; Region: Fer4; cl02805 342610012236 putative carbohydrate kinase; Provisional; Region: PRK10565 342610012237 Uncharacterized conserved protein [Function unknown]; Region: COG0062 342610012238 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 342610012239 putative substrate binding site [chemical binding]; other site 342610012240 putative ATP binding site [chemical binding]; other site 342610012241 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 342610012242 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 342610012243 AMIN domain; Region: AMIN; pfam11741 342610012244 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 342610012245 active site 342610012246 metal binding site [ion binding]; metal-binding site 342610012247 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 342610012248 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 342610012249 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 342610012250 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 342610012251 ATP binding site [chemical binding]; other site 342610012252 Mg2+ binding site [ion binding]; other site 342610012253 G-X-G motif; other site 342610012254 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 342610012255 ATP binding site [chemical binding]; other site 342610012256 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 342610012257 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 342610012258 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; cd02019 342610012259 active site 342610012260 bacterial Hfq-like; Region: Hfq; cd01716 342610012261 hexamer interface [polypeptide binding]; other site 342610012262 Sm1 motif; other site 342610012263 RNA binding site [nucleotide binding]; other site 342610012264 Sm2 motif; other site 342610012265 GTPase HflX; Provisional; Region: PRK11058 342610012266 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 342610012267 HflX GTPase family; Region: HflX; cd01878 342610012268 G1 box; other site 342610012269 GTP/Mg2+ binding site [chemical binding]; other site 342610012270 Switch I region; other site 342610012271 G2 box; other site 342610012272 G3 box; other site 342610012273 Switch II region; other site 342610012274 G4 box; other site 342610012275 G5 box; other site 342610012276 FtsH protease regulator HflK; Provisional; Region: PRK10930 342610012277 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 342610012278 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 342610012279 FtsH protease regulator HflC; Provisional; Region: PRK11029 342610012280 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 342610012281 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 342610012282 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610012283 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 342610012284 C-terminal domain interface [polypeptide binding]; other site 342610012285 GSH binding site (G-site) [chemical binding]; other site 342610012286 dimer interface [polypeptide binding]; other site 342610012287 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610012288 N-terminal domain interface [polypeptide binding]; other site 342610012289 dimer interface [polypeptide binding]; other site 342610012290 substrate binding pocket (H-site) [chemical binding]; other site 342610012291 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610012292 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 342610012293 putative C-terminal domain interface [polypeptide binding]; other site 342610012294 putative GSH binding site (G-site) [chemical binding]; other site 342610012295 putative dimer interface [polypeptide binding]; other site 342610012296 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610012297 N-terminal domain interface [polypeptide binding]; other site 342610012298 dimer interface [polypeptide binding]; other site 342610012299 substrate binding pocket (H-site) [chemical binding]; other site 342610012300 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 342610012301 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 342610012302 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 342610012303 ferrochelatase; Reviewed; Region: hemH; PRK00035 342610012304 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 342610012305 C-terminal domain interface [polypeptide binding]; other site 342610012306 active site 342610012307 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 342610012308 active site 342610012309 N-terminal domain interface [polypeptide binding]; other site 342610012310 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 342610012311 AbgT putative transporter family; Region: ABG_transport; pfam03806 342610012312 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 342610012313 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 342610012314 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610012315 ligand binding site [chemical binding]; other site 342610012316 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 342610012317 Rab subfamily motif 1 (RabSF1); other site 342610012318 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 342610012319 G1 box; other site 342610012320 GTP/Mg2+ binding site [chemical binding]; other site 342610012321 Rab subfamily motif 2 (RabSF2); other site 342610012322 Switch I region; other site 342610012323 G2 box; other site 342610012324 effector interaction site; other site 342610012325 GDI interaction site; other site 342610012326 Rab family motif 1 (RabF1); other site 342610012327 GEF interaction site [polypeptide binding]; other site 342610012328 Rab family motif 2 (RabF2); other site 342610012329 G3 box; other site 342610012330 Switch II region; other site 342610012331 Rab family motif 3 (RabF3); other site 342610012332 Rab family motif 4 (RabF4); other site 342610012333 Rab family motif 5 (RabF5); other site 342610012334 Rab subfamily motif 3 (RabSF3); other site 342610012335 G4 box; other site 342610012336 G5 box; other site 342610012337 Rab subfamily motif 4 (RabSF4); other site 342610012338 PAS domain; Region: PAS_9; pfam13426 342610012339 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012340 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012341 metal binding site [ion binding]; metal-binding site 342610012342 active site 342610012343 I-site; other site 342610012344 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 342610012345 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 342610012346 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 342610012347 FAD binding site [chemical binding]; other site 342610012348 substrate binding pocket [chemical binding]; other site 342610012349 catalytic base [active] 342610012350 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 342610012351 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610012352 active site 342610012353 catalytic tetrad [active] 342610012354 elongation factor Tu; Reviewed; Region: PRK00049 342610012355 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 342610012356 G1 box; other site 342610012357 GEF interaction site [polypeptide binding]; other site 342610012358 GTP/Mg2+ binding site [chemical binding]; other site 342610012359 Switch I region; other site 342610012360 G2 box; other site 342610012361 G3 box; other site 342610012362 Switch II region; other site 342610012363 G4 box; other site 342610012364 G5 box; other site 342610012365 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 342610012366 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 342610012367 Antibiotic Binding Site [chemical binding]; other site 342610012368 Type III pantothenate kinase; Region: Pan_kinase; cl17198 342610012369 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 342610012370 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 342610012371 putative Zn2+ binding site [ion binding]; other site 342610012372 putative DNA binding site [nucleotide binding]; other site 342610012373 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 342610012374 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 342610012375 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 342610012376 FAD binding domain; Region: FAD_binding_4; pfam01565 342610012377 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 342610012378 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 342610012379 Chain length determinant protein; Region: Wzz; pfam02706 342610012380 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 342610012381 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 342610012382 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 342610012383 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 342610012384 SLBB domain; Region: SLBB; pfam10531 342610012385 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 342610012386 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 342610012387 NAD(P) binding site [chemical binding]; other site 342610012388 homodimer interface [polypeptide binding]; other site 342610012389 substrate binding site [chemical binding]; other site 342610012390 active site 342610012391 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 342610012392 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 342610012393 inhibitor-cofactor binding pocket; inhibition site 342610012394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610012395 catalytic residue [active] 342610012396 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 342610012397 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 342610012398 putative trimer interface [polypeptide binding]; other site 342610012399 putative CoA binding site [chemical binding]; other site 342610012400 Bacterial sugar transferase; Region: Bac_transf; pfam02397 342610012401 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 342610012402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610012403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610012404 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 342610012405 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 342610012406 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 342610012407 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 342610012408 putative ADP-binding pocket [chemical binding]; other site 342610012409 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 342610012410 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 342610012411 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 342610012412 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 342610012413 active site clefts [active] 342610012414 zinc binding site [ion binding]; other site 342610012415 dimer interface [polypeptide binding]; other site 342610012416 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 342610012417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610012418 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 342610012419 dimerization interface [polypeptide binding]; other site 342610012420 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 342610012421 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 342610012422 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 342610012423 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 342610012424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610012425 homodimer interface [polypeptide binding]; other site 342610012426 catalytic residue [active] 342610012427 NRDE protein; Region: NRDE; pfam05742 342610012428 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 342610012429 phosphopeptide binding site; other site 342610012430 DHHC palmitoyltransferase; Region: zf-DHHC; pfam01529 342610012431 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 342610012432 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 342610012433 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 342610012434 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 342610012435 putative acyl-acceptor binding pocket; other site 342610012436 hypothetical protein; Provisional; Region: PRK05939 342610012437 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 342610012438 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 342610012439 catalytic residue [active] 342610012440 OsmC-like protein; Region: OsmC; cl00767 342610012441 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 342610012442 S1 domain; Region: S1_2; pfam13509 342610012443 S1 domain; Region: S1_2; pfam13509 342610012444 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 342610012445 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 342610012446 homodimer interface [polypeptide binding]; other site 342610012447 substrate-cofactor binding pocket; other site 342610012448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610012449 catalytic residue [active] 342610012450 alanine racemase; Reviewed; Region: alr; PRK00053 342610012451 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 342610012452 active site 342610012453 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610012454 substrate binding site [chemical binding]; other site 342610012455 catalytic residues [active] 342610012456 dimer interface [polypeptide binding]; other site 342610012457 Methyltransferase domain; Region: Methyltransf_23; pfam13489 342610012458 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 342610012459 S-adenosylmethionine binding site [chemical binding]; other site 342610012460 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 342610012461 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 342610012462 S-adenosylmethionine binding site [chemical binding]; other site 342610012463 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 342610012464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012465 active site 342610012466 phosphorylation site [posttranslational modification] 342610012467 intermolecular recognition site; other site 342610012468 dimerization interface [polypeptide binding]; other site 342610012469 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 342610012470 DNA binding residues [nucleotide binding] 342610012471 dimerization interface [polypeptide binding]; other site 342610012472 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 342610012473 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 342610012474 S-adenosylmethionine binding site [chemical binding]; other site 342610012475 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 342610012476 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610012477 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 342610012478 Fatty acid desaturase; Region: FA_desaturase; pfam00487 342610012479 Di-iron ligands [ion binding]; other site 342610012480 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 342610012481 putative uracil binding site [chemical binding]; other site 342610012482 putative active site [active] 342610012483 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 342610012485 active site 342610012486 phosphorylation site [posttranslational modification] 342610012487 intermolecular recognition site; other site 342610012488 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 342610012489 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012490 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012491 metal binding site [ion binding]; metal-binding site 342610012492 active site 342610012493 I-site; other site 342610012494 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 342610012495 TIGR03899 family protein; Region: TIGR03899 342610012496 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 342610012497 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 342610012498 Active Sites [active] 342610012499 sulfite reductase subunit beta; Provisional; Region: PRK13504 342610012500 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 342610012501 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 342610012502 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 342610012503 Flavodoxin; Region: Flavodoxin_1; pfam00258 342610012504 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 342610012505 FAD binding pocket [chemical binding]; other site 342610012506 FAD binding motif [chemical binding]; other site 342610012507 catalytic residues [active] 342610012508 NAD binding pocket [chemical binding]; other site 342610012509 phosphate binding motif [ion binding]; other site 342610012510 beta-alpha-beta structure motif; other site 342610012511 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 342610012512 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 342610012513 Protein of unknown function (DUF461); Region: DUF461; pfam04314 342610012514 phage shock protein A; Region: phageshock_pspA; TIGR02977 342610012515 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 342610012516 classical (c) SDRs; Region: SDR_c; cd05233 342610012517 NAD(P) binding site [chemical binding]; other site 342610012518 active site 342610012519 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 342610012520 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 342610012521 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 342610012522 acyl-activating enzyme (AAE) consensus motif; other site 342610012523 acyl-activating enzyme (AAE) consensus motif; other site 342610012524 AMP binding site [chemical binding]; other site 342610012525 active site 342610012526 CoA binding site [chemical binding]; other site 342610012527 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 342610012528 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 342610012529 trimer interface [polypeptide binding]; other site 342610012530 active site 342610012531 substrate binding site [chemical binding]; other site 342610012532 CoA binding site [chemical binding]; other site 342610012533 Acyltransferase family; Region: Acyl_transf_3; pfam01757 342610012534 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 342610012535 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 342610012536 FMN binding site [chemical binding]; other site 342610012537 active site 342610012538 catalytic residues [active] 342610012539 substrate binding site [chemical binding]; other site 342610012540 Uncharacterized conserved protein [Function unknown]; Region: COG2128 342610012541 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 342610012542 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 342610012543 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 342610012544 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 342610012545 active site 342610012546 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 342610012547 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 342610012548 putative acyl-acceptor binding pocket; other site 342610012549 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 342610012550 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 342610012551 putative acyl-acceptor binding pocket; other site 342610012552 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 342610012553 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610012554 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 342610012555 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 342610012556 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 342610012557 putative NAD(P) binding site [chemical binding]; other site 342610012558 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 342610012559 Na2 binding site [ion binding]; other site 342610012560 putative substrate binding site 1 [chemical binding]; other site 342610012561 Na binding site 1 [ion binding]; other site 342610012562 putative substrate binding site 2 [chemical binding]; other site 342610012563 C factor cell-cell signaling protein; Provisional; Region: PRK09009 342610012564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 342610012565 NAD(P) binding site [chemical binding]; other site 342610012566 active site 342610012567 Protein of unknown function, DUF393; Region: DUF393; pfam04134 342610012568 methionine sulfoxide reductase A; Provisional; Region: PRK14054 342610012569 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 342610012570 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 342610012571 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 342610012572 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 342610012573 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 342610012574 SnoaL-like domain; Region: SnoaL_2; pfam12680 342610012575 flavodoxin FldB; Provisional; Region: PRK12359 342610012576 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 342610012577 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 342610012578 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 342610012579 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 342610012580 active site 342610012581 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 342610012582 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 342610012583 diaminopimelate decarboxylase; Region: lysA; TIGR01048 342610012584 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 342610012585 active site 342610012586 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 342610012587 substrate binding site [chemical binding]; other site 342610012588 catalytic residues [active] 342610012589 dimer interface [polypeptide binding]; other site 342610012590 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 342610012591 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 342610012592 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 342610012593 Protein of unknown function, DUF484; Region: DUF484; cl17449 342610012594 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 342610012595 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 342610012596 active site 342610012597 DNA binding site [nucleotide binding] 342610012598 Int/Topo IB signature motif; other site 342610012599 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 342610012600 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 342610012601 motif II; other site 342610012602 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 342610012603 serine acetyltransferase; Provisional; Region: cysE; PRK11132 342610012604 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 342610012605 trimer interface [polypeptide binding]; other site 342610012606 active site 342610012607 substrate binding site [chemical binding]; other site 342610012608 CoA binding site [chemical binding]; other site 342610012609 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 342610012610 Part of AAA domain; Region: AAA_19; pfam13245 342610012611 Family description; Region: UvrD_C_2; pfam13538 342610012612 Baculoviridae ME53; Region: Baculo_ME53; pfam06061 342610012613 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610012614 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012616 active site 342610012617 phosphorylation site [posttranslational modification] 342610012618 intermolecular recognition site; other site 342610012619 dimerization interface [polypeptide binding]; other site 342610012620 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012621 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012622 metal binding site [ion binding]; metal-binding site 342610012623 active site 342610012624 I-site; other site 342610012625 Predicted permeases [General function prediction only]; Region: RarD; COG2962 342610012626 Predicted membrane protein [Function unknown]; Region: COG1238 342610012627 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 342610012628 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 342610012629 Hemerythrin-like domain; Region: Hr-like; cd12108 342610012630 Fe binding site [ion binding]; other site 342610012631 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 342610012632 putative catalytic residues [active] 342610012633 hypothetical protein; Provisional; Region: PRK12361 342610012634 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 342610012635 active site 342610012636 catalytic residues [active] 342610012637 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 342610012638 Conserved TM helix; Region: TM_helix; pfam05552 342610012639 mechanosensitive channel MscS; Provisional; Region: PRK10334 342610012640 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610012641 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 342610012642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012643 I-site; other site 342610012644 active site 342610012645 metal binding site [ion binding]; metal-binding site 342610012646 MAPEG family; Region: MAPEG; pfam01124 342610012647 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 342610012648 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 342610012649 cofactor binding site; other site 342610012650 DNA binding site [nucleotide binding] 342610012651 substrate interaction site [chemical binding]; other site 342610012652 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 342610012653 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 342610012654 nucleotide binding site [chemical binding]; other site 342610012655 Nuclease-related domain; Region: NERD; pfam08378 342610012656 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 342610012657 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 342610012658 Walker A motif; other site 342610012659 ATP binding site [chemical binding]; other site 342610012660 Walker B motif; other site 342610012661 Family description; Region: UvrD_C_2; pfam13538 342610012662 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 342610012663 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 342610012664 nucleotide binding region [chemical binding]; other site 342610012665 ATP-binding site [chemical binding]; other site 342610012666 Part of AAA domain; Region: AAA_19; pfam13245 342610012667 Family description; Region: UvrD_C_2; pfam13538 342610012668 Methyltransferase domain; Region: Methyltransf_31; pfam13847 342610012669 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 342610012670 S-adenosylmethionine binding site [chemical binding]; other site 342610012671 HNH endonuclease; Region: HNH_4; pfam13395 342610012672 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 342610012673 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 342610012674 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 342610012675 dimerization interface [polypeptide binding]; other site 342610012676 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012678 metal binding site [ion binding]; metal-binding site 342610012679 active site 342610012680 I-site; other site 342610012681 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 342610012682 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 342610012683 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 342610012684 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 342610012685 putative PBP binding loops; other site 342610012686 ABC-ATPase subunit interface; other site 342610012687 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 342610012688 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 342610012689 dimer interface [polypeptide binding]; other site 342610012690 conserved gate region; other site 342610012691 putative PBP binding loops; other site 342610012692 ABC-ATPase subunit interface; other site 342610012693 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 342610012694 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 342610012695 Walker A/P-loop; other site 342610012696 ATP binding site [chemical binding]; other site 342610012697 Q-loop/lid; other site 342610012698 ABC transporter signature motif; other site 342610012699 Walker B; other site 342610012700 D-loop; other site 342610012701 H-loop/switch region; other site 342610012702 TOBE domain; Region: TOBE_2; pfam08402 342610012703 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 342610012704 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 342610012705 motif II; other site 342610012706 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 342610012707 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 342610012708 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 342610012709 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 342610012710 putative substrate binding site [chemical binding]; other site 342610012711 putative ATP binding site [chemical binding]; other site 342610012712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610012713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610012714 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 342610012715 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 342610012716 HlyD family secretion protein; Region: HlyD_3; pfam13437 342610012717 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 342610012718 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 342610012719 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610012720 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610012721 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 342610012722 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 342610012723 putative C-terminal domain interface [polypeptide binding]; other site 342610012724 putative GSH binding site (G-site) [chemical binding]; other site 342610012725 putative dimer interface [polypeptide binding]; other site 342610012726 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 342610012727 N-terminal domain interface [polypeptide binding]; other site 342610012728 dimer interface [polypeptide binding]; other site 342610012729 substrate binding pocket (H-site) [chemical binding]; other site 342610012730 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 342610012731 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 342610012732 periplasmic protein; Provisional; Region: PRK10568 342610012733 BON domain; Region: BON; pfam04972 342610012734 BON domain; Region: BON; pfam04972 342610012735 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 342610012736 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 342610012737 active site 342610012738 catalytic tetrad [active] 342610012739 Predicted membrane protein [Function unknown]; Region: COG4325 342610012740 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 342610012741 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 342610012742 putative catalytic site [active] 342610012743 putative metal binding site [ion binding]; other site 342610012744 putative phosphate binding site [ion binding]; other site 342610012745 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 342610012746 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 342610012747 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 342610012748 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 342610012749 Mechanosensitive ion channel; Region: MS_channel; pfam00924 342610012750 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 342610012751 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 342610012752 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 342610012753 putative catalytic cysteine [active] 342610012754 gamma-glutamyl kinase; Provisional; Region: PRK13402 342610012755 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 342610012756 nucleotide binding site [chemical binding]; other site 342610012757 homotetrameric interface [polypeptide binding]; other site 342610012758 putative phosphate binding site [ion binding]; other site 342610012759 putative allosteric binding site; other site 342610012760 PUA domain; Region: PUA; pfam01472 342610012761 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 342610012762 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 342610012763 Na binding site [ion binding]; other site 342610012764 Transcriptional regulators [Transcription]; Region: MarR; COG1846 342610012765 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 342610012766 putative DNA binding site [nucleotide binding]; other site 342610012767 VacJ like lipoprotein; Region: VacJ; cl01073 342610012768 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 342610012769 Protein export membrane protein; Region: SecD_SecF; cl14618 342610012770 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 342610012771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012772 active site 342610012773 phosphorylation site [posttranslational modification] 342610012774 intermolecular recognition site; other site 342610012775 dimerization interface [polypeptide binding]; other site 342610012776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610012777 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 342610012778 dimer interface [polypeptide binding]; other site 342610012779 phosphorylation site [posttranslational modification] 342610012780 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 342610012781 ATP binding site [chemical binding]; other site 342610012782 Mg2+ binding site [ion binding]; other site 342610012783 G-X-G motif; other site 342610012784 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012786 active site 342610012787 phosphorylation site [posttranslational modification] 342610012788 intermolecular recognition site; other site 342610012789 dimerization interface [polypeptide binding]; other site 342610012790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012791 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012792 active site 342610012793 phosphorylation site [posttranslational modification] 342610012794 intermolecular recognition site; other site 342610012795 dimerization interface [polypeptide binding]; other site 342610012796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012797 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012798 active site 342610012799 phosphorylation site [posttranslational modification] 342610012800 intermolecular recognition site; other site 342610012801 dimerization interface [polypeptide binding]; other site 342610012802 CHASE3 domain; Region: CHASE3; pfam05227 342610012803 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 342610012804 dimer interface [polypeptide binding]; other site 342610012805 phosphorylation site [posttranslational modification] 342610012806 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 342610012807 ATP binding site [chemical binding]; other site 342610012808 Mg2+ binding site [ion binding]; other site 342610012809 G-X-G motif; other site 342610012810 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 342610012811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012812 active site 342610012813 phosphorylation site [posttranslational modification] 342610012814 intermolecular recognition site; other site 342610012815 dimerization interface [polypeptide binding]; other site 342610012816 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 342610012817 Walker A motif; other site 342610012818 ATP binding site [chemical binding]; other site 342610012819 Walker B motif; other site 342610012820 arginine finger; other site 342610012821 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 342610012822 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610012823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 342610012824 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 342610012825 Peptidase_C39 like family; Region: DUF3335; pfam11814 342610012826 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 342610012827 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 342610012828 ATP-grasp domain; Region: ATP-grasp_4; cl17255 342610012829 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610012830 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610012831 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 342610012832 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 342610012833 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 342610012834 amidase catalytic site [active] 342610012835 Zn binding residues [ion binding]; other site 342610012836 substrate binding site [chemical binding]; other site 342610012837 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 342610012838 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610012839 Beta-lactamase; Region: Beta-lactamase; cl17358 342610012840 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 342610012841 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 342610012842 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 342610012843 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_21; cd04680 342610012844 nudix motif; other site 342610012845 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 342610012846 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 342610012847 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 342610012848 putative active site [active] 342610012849 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 342610012850 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 342610012851 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 342610012852 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 342610012853 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 342610012854 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 342610012855 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 342610012856 putative active site [active] 342610012857 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 342610012858 nucleotide binding site [chemical binding]; other site 342610012859 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 342610012860 Na binding site [ion binding]; other site 342610012861 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 342610012862 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 342610012863 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 342610012864 NlpC/P60 family; Region: NLPC_P60; cl17555 342610012865 Predicted integral membrane protein [Function unknown]; Region: COG5505 342610012866 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 342610012867 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 342610012868 dimer interface [polypeptide binding]; other site 342610012869 active site 342610012870 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 342610012871 dimer interface [polypeptide binding]; other site 342610012872 active site 342610012873 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 342610012874 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 342610012875 active site 342610012876 dimer interface [polypeptide binding]; other site 342610012877 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 342610012878 L-fucose transporter; Provisional; Region: PRK10133; cl17665 342610012879 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 342610012880 dimer interface [polypeptide binding]; other site 342610012881 catalytic triad [active] 342610012882 Response regulator receiver domain; Region: Response_reg; pfam00072 342610012883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610012884 active site 342610012885 phosphorylation site [posttranslational modification] 342610012886 intermolecular recognition site; other site 342610012887 dimerization interface [polypeptide binding]; other site 342610012888 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012889 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012890 metal binding site [ion binding]; metal-binding site 342610012891 active site 342610012892 I-site; other site 342610012893 mobile mystery protein B; Region: mob_myst_B; TIGR02613 342610012894 Fic/DOC family; Region: Fic; pfam02661 342610012895 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 342610012896 Interdomain contacts; other site 342610012897 Cytokine receptor motif; other site 342610012898 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 342610012899 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610012900 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610012901 ABC transporter; Region: ABC_tran_2; pfam12848 342610012902 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 342610012903 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610012904 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610012905 dimer interface [polypeptide binding]; other site 342610012906 putative CheW interface [polypeptide binding]; other site 342610012907 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 342610012908 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 342610012909 dimer interface [polypeptide binding]; other site 342610012910 putative CheW interface [polypeptide binding]; other site 342610012911 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 342610012912 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 342610012913 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 342610012914 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 342610012915 WHG domain; Region: WHG; pfam13305 342610012916 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 342610012917 Malic enzyme, N-terminal domain; Region: malic; pfam00390 342610012918 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 342610012919 putative NAD(P) binding site [chemical binding]; other site 342610012920 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 342610012921 primosome assembly protein PriA; Validated; Region: PRK05580 342610012922 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 342610012923 ATP binding site [chemical binding]; other site 342610012924 putative Mg++ binding site [ion binding]; other site 342610012925 helicase superfamily c-terminal domain; Region: HELICc; smart00490 342610012926 ATP-binding site [chemical binding]; other site 342610012927 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 342610012928 Sporulation related domain; Region: SPOR; pfam05036 342610012929 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 342610012930 active site 342610012931 HslU subunit interaction site [polypeptide binding]; other site 342610012932 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 342610012933 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 342610012934 Walker A motif; other site 342610012935 ATP binding site [chemical binding]; other site 342610012936 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 342610012937 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 342610012938 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 342610012939 Beta-lactamase; Region: Beta-lactamase; pfam00144 342610012940 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 342610012941 putative active site [active] 342610012942 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 342610012943 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 342610012944 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 342610012945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610012946 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 342610012947 dimerization interface [polypeptide binding]; other site 342610012948 Bacterial SH3 domain; Region: SH3_3; pfam08239 342610012949 Bacterial SH3 domain; Region: SH3_3; pfam08239 342610012950 Bacterial SH3 domain; Region: SH3_3; pfam08239 342610012951 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 342610012952 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 342610012953 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 342610012954 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 342610012955 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 342610012956 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 342610012957 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 342610012958 Protein export membrane protein; Region: SecD_SecF; pfam02355 342610012959 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 342610012960 glutathione reductase; Validated; Region: PRK06116 342610012961 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 342610012962 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610012963 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 342610012964 oligopeptidase A; Provisional; Region: PRK10911 342610012965 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 342610012966 active site 342610012967 Zn binding site [ion binding]; other site 342610012968 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 342610012969 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 342610012970 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 342610012971 S-adenosylmethionine binding site [chemical binding]; other site 342610012972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 342610012973 SCP-2 sterol transfer family; Region: SCP2; pfam02036 342610012974 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 342610012975 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 342610012976 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 342610012977 sec-independent translocase; Provisional; Region: PRK01770 342610012978 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 342610012979 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 342610012980 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 342610012981 active site 342610012982 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 342610012983 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610012984 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 342610012985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 342610012986 metal binding site [ion binding]; metal-binding site 342610012987 active site 342610012988 I-site; other site 342610012989 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 342610012990 dimer interface [polypeptide binding]; other site 342610012991 active site 342610012992 aspartate-rich active site metal binding site; other site 342610012993 allosteric magnesium binding site [ion binding]; other site 342610012994 Schiff base residues; other site 342610012995 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 342610012996 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 342610012997 nucleotide binding site [chemical binding]; other site 342610012998 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 342610012999 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 342610013000 ATP binding site [chemical binding]; other site 342610013001 Mg++ binding site [ion binding]; other site 342610013002 motif III; other site 342610013003 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 342610013004 nucleotide binding region [chemical binding]; other site 342610013005 ATP-binding site [chemical binding]; other site 342610013006 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 342610013007 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 342610013008 catalytic residues [active] 342610013009 transcription termination factor Rho; Provisional; Region: rho; PRK09376 342610013010 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 342610013011 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 342610013012 RNA binding site [nucleotide binding]; other site 342610013013 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 342610013014 multimer interface [polypeptide binding]; other site 342610013015 Walker A motif; other site 342610013016 ATP binding site [chemical binding]; other site 342610013017 Walker B motif; other site 342610013018 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 342610013019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 342610013020 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 342610013021 ATP-grasp domain; Region: ATP-grasp; pfam02222 342610013022 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 342610013023 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 342610013024 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 342610013025 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 342610013026 RNA binding site [nucleotide binding]; other site 342610013027 SprA-related family; Region: SprA-related; pfam12118 342610013028 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 342610013029 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 342610013030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610013031 active site 342610013032 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 342610013033 putative active site [active] 342610013034 Zn binding site [ion binding]; other site 342610013035 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 342610013036 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 342610013037 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 342610013038 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 342610013039 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 342610013040 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 342610013041 putative active site [active] 342610013042 putative metal binding site [ion binding]; other site 342610013043 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 342610013044 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 342610013045 Coenzyme A binding pocket [chemical binding]; other site 342610013046 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 342610013047 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 342610013048 Cu(I) binding site [ion binding]; other site 342610013049 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 342610013050 UbiA prenyltransferase family; Region: UbiA; pfam01040 342610013051 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 342610013052 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 342610013053 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 342610013054 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 342610013055 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 342610013056 Subunit III/VIIa interface [polypeptide binding]; other site 342610013057 Phospholipid binding site [chemical binding]; other site 342610013058 Subunit I/III interface [polypeptide binding]; other site 342610013059 Subunit III/VIb interface [polypeptide binding]; other site 342610013060 Subunit III/VIa interface; other site 342610013061 Subunit III/Vb interface [polypeptide binding]; other site 342610013062 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 342610013063 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 342610013064 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 342610013065 Subunit I/III interface [polypeptide binding]; other site 342610013066 D-pathway; other site 342610013067 Subunit I/VIIc interface [polypeptide binding]; other site 342610013068 Subunit I/IV interface [polypeptide binding]; other site 342610013069 Subunit I/II interface [polypeptide binding]; other site 342610013070 Low-spin heme (heme a) binding site [chemical binding]; other site 342610013071 Subunit I/VIIa interface [polypeptide binding]; other site 342610013072 Subunit I/VIa interface [polypeptide binding]; other site 342610013073 Dimer interface; other site 342610013074 Putative water exit pathway; other site 342610013075 Binuclear center (heme a3/CuB) [ion binding]; other site 342610013076 K-pathway; other site 342610013077 Subunit I/Vb interface [polypeptide binding]; other site 342610013078 Putative proton exit pathway; other site 342610013079 Subunit I/VIb interface; other site 342610013080 Subunit I/VIc interface [polypeptide binding]; other site 342610013081 Electron transfer pathway; other site 342610013082 Subunit I/VIIIb interface [polypeptide binding]; other site 342610013083 Subunit I/VIIb interface [polypeptide binding]; other site 342610013084 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 342610013085 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 342610013086 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 342610013087 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 342610013088 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 342610013089 LexA repressor; Validated; Region: PRK00215 342610013090 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 342610013091 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 342610013092 Catalytic site [active] 342610013093 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 342610013094 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 342610013095 putative acyl-acceptor binding pocket; other site 342610013096 threonine dehydratase; Reviewed; Region: PRK09224 342610013097 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 342610013098 tetramer interface [polypeptide binding]; other site 342610013099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 342610013100 catalytic residue [active] 342610013101 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 342610013102 putative Ile/Val binding site [chemical binding]; other site 342610013103 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 342610013104 putative Ile/Val binding site [chemical binding]; other site 342610013105 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 342610013106 Predicted membrane protein [Function unknown]; Region: COG2860 342610013107 UPF0126 domain; Region: UPF0126; pfam03458 342610013108 UPF0126 domain; Region: UPF0126; pfam03458 342610013109 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 342610013110 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 342610013111 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 342610013112 Walker A motif; other site 342610013113 ATP binding site [chemical binding]; other site 342610013114 Walker B motif; other site 342610013115 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 342610013116 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 342610013117 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 342610013118 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 342610013119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 342610013120 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 342610013121 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 342610013122 dimerization interface [polypeptide binding]; other site 342610013123 ketol-acid reductoisomerase; Validated; Region: PRK05225 342610013124 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 342610013125 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 342610013126 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 342610013127 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 342610013128 Glycine zipper; Region: Gly-zipper_Omp; cl17724 342610013129 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 342610013130 ligand binding site [chemical binding]; other site 342610013131 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 342610013132 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 342610013133 putative substrate translocation pore; other site 342610013134 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 342610013135 catalytic core [active] 342610013136 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_cladeA; cd00883 342610013137 active site clefts [active] 342610013138 zinc binding site [ion binding]; other site 342610013139 dimer interface [polypeptide binding]; other site 342610013140 EamA-like transporter family; Region: EamA; pfam00892 342610013141 hypothetical protein; Provisional; Region: PRK08262 342610013142 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 342610013143 metal binding site [ion binding]; metal-binding site 342610013144 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 342610013145 Nidogen-like; Region: NIDO; pfam06119 342610013146 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 342610013147 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 342610013148 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 342610013149 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 342610013150 putative catalytic cysteine [active] 342610013151 gamma-glutamyl kinase; Provisional; Region: PRK05429 342610013152 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 342610013153 nucleotide binding site [chemical binding]; other site 342610013154 homotetrameric interface [polypeptide binding]; other site 342610013155 putative phosphate binding site [ion binding]; other site 342610013156 putative allosteric binding site; other site 342610013157 PUA domain; Region: PUA; pfam01472 342610013158 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 342610013159 Zn binding site [ion binding]; other site 342610013160 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 342610013161 Domain of unknown function DUF20; Region: UPF0118; pfam01594 342610013162 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 342610013163 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 342610013164 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 342610013165 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 342610013166 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 342610013167 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 342610013168 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 342610013169 active site 342610013170 Predicted methyltransferase [General function prediction only]; Region: COG4798 342610013171 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 342610013172 CPxP motif; other site 342610013173 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 342610013174 active site 342610013175 ribonuclease PH; Reviewed; Region: rph; PRK00173 342610013176 Ribonuclease PH; Region: RNase_PH_bact; cd11362 342610013177 hexamer interface [polypeptide binding]; other site 342610013178 active site 342610013179 hypothetical protein; Provisional; Region: PRK11820 342610013180 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 342610013181 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 342610013182 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 342610013183 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 342610013184 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 342610013185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 342610013186 Zn2+ binding site [ion binding]; other site 342610013187 Mg2+ binding site [ion binding]; other site 342610013188 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 342610013189 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 342610013190 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 342610013191 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 342610013192 SapC; Region: SapC; pfam07277 342610013193 Cupin-like domain; Region: Cupin_8; pfam13621 342610013194 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 342610013195 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 342610013196 NAD(P) binding pocket [chemical binding]; other site 342610013197 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 342610013198 DNA binding site [nucleotide binding] 342610013199 active site 342610013200 DTW domain; Region: DTW; cl01221 342610013201 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 342610013202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 342610013203 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 342610013204 dimer interface [polypeptide binding]; other site 342610013205 phosphorylation site [posttranslational modification] 342610013206 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 342610013207 ATP binding site [chemical binding]; other site 342610013208 Mg2+ binding site [ion binding]; other site 342610013209 G-X-G motif; other site 342610013210 Response regulator receiver domain; Region: Response_reg; pfam00072 342610013211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 342610013212 active site 342610013213 phosphorylation site [posttranslational modification] 342610013214 intermolecular recognition site; other site 342610013215 dimerization interface [polypeptide binding]; other site 342610013216 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 342610013217 putative binding surface; other site 342610013218 active site 342610013219 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 342610013220 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 342610013221 gamma subunit interface [polypeptide binding]; other site 342610013222 epsilon subunit interface [polypeptide binding]; other site 342610013223 LBP interface [polypeptide binding]; other site 342610013224 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 342610013225 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 342610013226 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 342610013227 alpha subunit interaction interface [polypeptide binding]; other site 342610013228 Walker A motif; other site 342610013229 ATP binding site [chemical binding]; other site 342610013230 Walker B motif; other site 342610013231 inhibitor binding site; inhibition site 342610013232 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610013233 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 342610013234 core domain interface [polypeptide binding]; other site 342610013235 delta subunit interface [polypeptide binding]; other site 342610013236 epsilon subunit interface [polypeptide binding]; other site 342610013237 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 342610013238 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 342610013239 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 342610013240 beta subunit interaction interface [polypeptide binding]; other site 342610013241 Walker A motif; other site 342610013242 ATP binding site [chemical binding]; other site 342610013243 Walker B motif; other site 342610013244 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 342610013245 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 342610013246 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 342610013247 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 342610013248 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 342610013249 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 342610013250 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 342610013251 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 342610013252 ATP synthase I chain; Region: ATP_synt_I; cl09170 342610013253 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 342610013254 ParB-like nuclease domain; Region: ParB; smart00470 342610013255 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 342610013256 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 342610013257 P-loop; other site 342610013258 Magnesium ion binding site [ion binding]; other site 342610013259 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 342610013260 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 342610013261 S-adenosylmethionine binding site [chemical binding]; other site 342610013262 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 342610013263 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 342610013264 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 342610013265 hypothetical protein; Validated; Region: PRK08116 342610013266 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 342610013267 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 342610013268 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 342610013269 trmE is a tRNA modification GTPase; Region: trmE; cd04164 342610013270 G1 box; other site 342610013271 GTP/Mg2+ binding site [chemical binding]; other site 342610013272 Switch I region; other site 342610013273 G2 box; other site 342610013274 Switch II region; other site 342610013275 G3 box; other site 342610013276 G4 box; other site 342610013277 G5 box; other site 342610013278 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 342610013279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 342610013280 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 342610013281 membrane protein insertase; Provisional; Region: PRK01318 342610013282 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 342610013283 Haemolytic domain; Region: Haemolytic; pfam01809 342610013284 ribonuclease P; Reviewed; Region: rnpA; PRK01732 342610013285 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399